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Utility is perhaps the most central concept in modern economic theorizing. However, the behaviorist reduction to Revealed Preference not only removed the psychological content of utility but experimental investigations also exposed numerous anomalies in this theory.
This program of research focused on the psychological processes by which utility judgments are generated. For this purpose, the standard assumption of a homogeneous concept is substituted by the Utilitarian Duality Hypothesis.
In particular, judgments concerning categorical utility (uCat) infer an object's category based on its attributes which may subsequently allow the transfer of evaluative information like feelings or attitudes. In contrast, comparative utility (uCom) depends on the distance to a reference value on a specific dimension of comparison. Importantly, dimensions of comparison are manifold and context dependent.
In a series of experiments, we show that the resulting Dual Utility Model is able to explain several known anomalies in a parsimonious fashion. Moreover, we identify central factors determining the relative weight assigned to both utility components.
Finally, we discuss the implications of the Utilitarian Duality for both, the experimental practice in economics as well as the consequences for economic theorizing. In sum, we propose that the Dual Utility Model can serve as an integrative framework for both the rational model and its anomalies.
Microbial species (bacteria and archaea) in the gut are important for human health in various ways. Not only does the species composition vary considerably within the human population, but each individual also appears to have its own strains of a given species. While it is known from studies of bacterial pan-genomes, that genetic variation between strains can differ considerably, such as in Escherichia coli, the extent of genetic variation of strains for abundant gut species has not been surveyed in a natural habitat. This is mainly due to the fact that most of these species cannot be cultured in the laboratory. Genetic variation can range from microscale genomic rearrangements such as small nucleotide polymorphism (SNP) to macroscale large genomic rearrangements like structural variations. Metagenomics offers an alternative solution to study genetic variation in prokaryotes, as it involves DNA sequencing of the whole community directly from the environment. However, most metagenomic studies to date only focus on variation in gene abundance and hence are not able to characterize genetic variation (in terms of presence or absence of SNPs and genes) of gut microbial strains of individuals.
The aim of my doctorate studies was therefore to study the extent of genetic variation in the genomic sequence of gut prokaryotic species and its phenotypic effects based on: (1) the impact of SNP variation in gut bacterial species, by focusing on genes under selective pressure and (2) the gene content variation (as a proxy for structural variation) and their effect on microbial species and the phenotypic traits of their human host.
In the first part of my doctorate studies, I was involved in a project in which we created a catalogue of 10.3 million SNPs in gut prokaryotic species, based on metagenomes. I used this to perform the first SNP-based comparative study of prokaryotic species evolution in a natural habitat. Here, I found that strains of gut microbial species in different individuals evolve at more similar rates than the strains within an individual. In addition, I found that gene evolution can be uncoupled from the evolution of its originating species, and that this could be related to selective pressure such as diet, exemplified by galactokinase gene (galK). Despite the individuality (i.e. uniqueness of each individual within the studied metagenomic dataset) in the SNP profile of the gut microbiota that we found, for most cases it is not possible to link SNPs with phenotypic differences. For this reason I also used gene content as a proxy to study structural variation in metagenomes.
In the second part of my doctorate studies, I developed a methodology to characterize the variability of gene content in gut bacterial species, using metagenomes. My approach is based on gene deletions, and was applied to abundant species (demonstrated using a set of 11 species). The method is sufficiently robust as it captures a similar range of gene content variability as has been detected in completely sequenced genomes. Using this procedure I found individuals differ by an average of 13% in their gene content of gut bacterial strains within the same species. Interestingly no two individuals shared the same gene content across bacterial species. However, this variation corresponds to a lower limit, as it is only accounts for gene deletion and not insertions. This large variation in the gene content of gut strain was found to affect important functions, such as polysaccharide utilization loci (PULs) and capsular polysaccharide synthesis (CPS), which are related with digestion of dietary fibers.
In summary, I have shown that metagenomics based approaches can be robust in characterizing genetic variation in gut bacterial species. I also illustrated, using examples both for SNPs and gene content (galK, PULs and CPS), that this genetic variation can be used to predict the phenotypic characteristics of the microbial species, as well as predicting the phenotype of their human host (for example, their capacity to digest different food components). Overall, the results of my thesis highlight the importance of characterizing the strains in the gut microbiome analogous to the emerging variability and importance of human genomics.
The learned helplessness phenomenon is a specific animal behavior induced by prior exposure to uncontrollable aversive stimuli. It was first found by Seligman and Maier (1967) in dogs and then has been reported in many other species, e.g. in rats (Vollmayr and Henn, 2001), in goldfishes (Padilla, 1970), in cockroaches (Brown, 1988) and also in fruit flies (Brown, 1996; Bertolucci, 2008). However, the learned helplessness effect in fruit flies (Drosophila melanogaster) has not been studied in detail. Thus, in this doctoral study, we investigated systematically learned helplessness behavior of Drosophila for the first time.
Three groups of flies were tested in heatbox. Control group was in the chambers experiencing constant, mild temperature. Second group, master flies were punished in their chambers by being heated if they stopped walking for 0.9s. The heat pulses ended as soon as they resumed walking again. A third group, the yoked fly, was in their chambers at the same time. However, their behavior didn’t affect anything: yoked flies were heated whenever master flies did, with same timing and durations. After certain amount of heating events, yoked flies associated their own behavior with the uncontrollability of the environment. They suppressed their innate responses such as reducing their walking time and walking speed; making longer escape latencies and less turning around behavior under heat pulses. Even after the conditioning phase, yoked flies showed lower activity level than master and control flies. Interestingly, we have also observed sex dimorphisms in flies. Male flies expressed learned helplessness not like female flies. Differences between master and yoked flies were smaller in male than in female flies. Another interesting finding was that prolonged or even repetition of training phases didn’t enhance learned helplessness effect in flies.
Furthermore, we investigated serotonergic and dopaminergic nervous systems in learned helplessness. Using genetic and pharmacological manipulations, we altered the levels of serotonin and dopamine in flies’ central nervous system. Female flies with reduced serotonin concentration didn’t show helpless behavior, while the learned helplessness effect in male flies seems not to be affected by a reduction of serotonin. Flies with lower dopamine level do not display the learned helplessness effect in the test phase, suggesting that with low dopamine the motivational change in learned helplessness in Drosophila may decline faster than with a normal dopamine level.
This thesis deals with the hp-finite element method (FEM) for linear quadratic optimal control problems. Here, a tracking type functional with control costs as regularization shall be minimized subject to an elliptic partial differential equation. In the presence of control constraints, the first order necessary conditions, which are typically used to find optimal solutions numerically, can be formulated as a semi-smooth projection formula. Consequently, optimal solutions may be non-smooth as well. The hp-discretization technique considers this fact and approximates rough functions on fine meshes while using higher order finite elements on domains where the solution is smooth.
The first main achievement of this thesis is the successful application of hp-FEM to two related problem classes: Neumann boundary and interface control problems. They are solved with an a-priori refinement strategy called boundary concentrated (bc) FEM and interface concentrated (ic) FEM, respectively. These strategies generate grids that are heavily refined towards the boundary or interface. We construct an elementwise interpolant that allows to prove algebraic decay of the approximation error for both techniques. Additionally, a detailed analysis of global and local regularity of solutions, which is critical for the speed of convergence, is included. Since the bc- and ic-FEM retain small polynomial degrees for elements touching the boundary and interface, respectively, we are able to deduce novel error estimates in the L2- and L∞-norm. The latter allows an a-priori strategy for updating the regularization parameter in the objective functional to solve bang-bang problems.
Furthermore, we apply the traditional idea of the hp-FEM, i.e., grading the mesh geometrically towards vertices of the domain, for solving optimal control problems (vc-FEM). In doing so, we obtain exponential convergence with respect to the number of unknowns. This is proved with a regularity result in countably normed spaces for the variables of the coupled optimality system.
The second main achievement of this thesis is the development of a fully adaptive hp-interior point method that can solve problems with distributed or Neumann control. The underlying barrier problem yields a non-linear optimality system, which poses a numerical challenge: the numerically stable evaluation of integrals over possibly singular functions in higher order elements. We successfully overcome this difficulty by monitoring the control variable at the integration points and enforcing feasibility in an additional smoothing step. In this work, we prove convergence of an interior point method with smoothing step and derive a-posteriori error estimators. The adaptive mesh refinement is based on the expansion of the solution in a Legendre series. The decay of the coefficients serves as an indicator for smoothness that guides between h- and p-refinement.
The investigation of interacting multi-agent models is a new field of mathematical research with application to the study of behavior in groups of animals or community of people. One interesting feature of multi-agent systems is collective behavior. From the mathematical point of view, one of the challenging issues considering with these dynamical models is development of control mechanisms that are able to influence the time evolution of these systems.
In this thesis, we focus on the study of controllability, stabilization and optimal control problems for multi-agent systems considering three models as follows: The first one is the Hegselmann Krause opinion formation (HK) model. The HK dynamics describes how individuals' opinions are changed by the interaction with others taking place in a bounded domain of confidence. The study of this model focuses on determining feedback controls in order to drive the agents' opinions to reach a desired agreement. The second model is the Heider social balance (HB) model. The HB dynamics explains the evolution of relationships in a social network. One purpose of studying this system is the construction of control function in oder to steer the relationship to reach a friendship state. The third model that we discuss is a flocking model describing collective motion observed in biological systems. The flocking model under consideration includes self-propelling, friction, attraction, repulsion, and alignment features. We investigate a control for steering the flocking system to track a desired trajectory. Common to all these systems is our strategy to add a leader agent that interacts with all other members of the system and includes the control mechanism.
Our control through leadership approach is developed using classical theoretical control methods and a model predictive control (MPC) scheme. To apply the former method, for each model the stability of the corresponding linearized system near consensus is investigated. Further, local controllability is examined. However, only in the
Hegselmann-Krause opinion formation model, the feedback control is determined in order to steer agents' opinions to globally converge to a desired agreement. The MPC approach is an optimal control strategy based on numerical optimization. To apply the MPC scheme, optimal control problems for each model are formulated where the objective functions are different depending on the desired objective of the problem. The first-oder necessary optimality conditions for each problem are presented. Moreover for the numerical treatment, a sequence of open-loop discrete optimality systems is solved by accurate Runge-Kutta schemes, and in the optimization procedure, a nonlinear conjugate gradient solver is implemented. Finally, numerical experiments are performed to investigate the properties of the multi-agent models and demonstrate the ability of the proposed control strategies to drive multi-agent systems to attain a desired consensus and to track a given trajectory.
The recently discovered human DREAM complex (for DP, RB-like, E2F and MuvB complex) is a chromatin-associated pocket protein complex involved in cell cycle- dependent gene expression. DREAM consists of five core subunits and forms a complex either with the pocket protein p130 and the transcription factor E2F4 to repress gene expression or with the transcription factors B-MYB and FOXM1 to promote gene expression.
Gas2l3 was recently identified by our group as a novel DREAM target gene. Subsequent characterization in human cell lines revealed that GAS2L3 is a microtubule and F-actin cross-linking protein, expressed in G2/M, plays a role in cytokinesis, and is important for chromosomal stability.
The aim of the first part of the study was to analyze how expression of GAS2L3 is regulated by DREAM and to provide a better understanding of the function of GAS2L3 in mitosis and cytokinesis.
ChIP assays revealed that the repressive and the activating form of DREAM bind to the GAS2L3 promoter. RNA interference (RNAi) mediated GAS2L3 depletion demonstrated the requirement of GAS2L3 for proper cleavage furrow ingression in cytokinesis. Immunofluorescence-based localization studies showed a localization of GAS2L3 at the mitotic spindle in mitosis and at the midbody in cytokinesis. Additional experiments demonstrated that the GAS2L3 GAR domain, a putative microtubule- binding domain, is responsible for GAS2L3 localization to the constriction zones in cytokinesis suggesting a function for GAS2L3 in the abscission process.
DREAM is known to promote G2/M gene expression. DREAM target genes include several mitotic kinesins and mitotic microtubule-associated proteins (mitotic MAPs). However, it is not clear to what extent DREAM regulates mitotic kinesins and MAPs, so far. Furthermore, a comprehensive study of mitotic kinesin expression in cancer cell lines is still missing.
Therefore, the second major aim of the thesis was to characterize the regulation of mitotic kinesins and MAPs by DREAM, to investigate the expression of mitotic kinesins in cancer cell line panels and to evaluate them as possible anti-cancer targets.
ChIP assays together with RNAi mediated DREAM subunit depletion experiments demonstrated that DREAM is a master regulator of mitotic kinesins. Furthermore, expression analyses in a panel of breast and lung cancer cell lines revealed that mitotic kinesins are up-regulated in the majority of cancer cell lines in contrast to non-transformed controls. Finally, an inducible lentiviral-based shRNA system was developed to effectively deplete mitotic kinesins. Depletion of selected mitotic kinesins resulted in cytokinesis failures and strong anti-proliferative effects in several human cancer cell lines.
Thus, this system will provide a robust tool for future investigation of mitotic kinesin function in cancer cells.
In the course of the growth of the Internet and due to increasing availability of data, over the last two decades, the field of network science has established itself as an own area of research. With quantitative scientists from computer science, mathematics, and physics working on datasets from biology, economics, sociology, political sciences, and many others, network science serves as a paradigm for interdisciplinary research.
One of the major goals in network science is to unravel the relationship between topological graph structure and a network’s function. As evidence suggests, systems from the same fields, i.e. with similar function, tend to exhibit similar structure. However, it is still vague whether a similar graph structure automatically implies likewise function. This dissertation aims at helping to bridge this gap, while particularly focusing on the role of triadic structures.
After a general introduction to the main concepts of network science, existing work devoted to the relevance of triadic substructures is reviewed. A major challenge in modeling triadic structure is the fact that not all three-node subgraphs can be specified independently
of each other, as pairs of nodes may participate in multiple of those triadic subgraphs.
In order to overcome this obstacle, we suggest a novel class of generative network models based on so called Steiner triple systems. The latter are partitions of a graph’s vertices into pair-disjoint triples (Steiner triples). Thus, the configurations on Steiner triples can be specified independently of each other without overdetermining the network’s link
structure.
Subsequently, we investigate the most basic realization of this new class of models. We call it the triadic random graph model (TRGM). The TRGM is parametrized by a probability distribution over all possible triadic subgraph patterns. In order to generate a network instantiation of the model, for all Steiner triples in the system, a pattern is drawn from the distribution and adjusted randomly on the Steiner triple. We calculate the degree distribution of the TRGM analytically and find it to be similar to a Poissonian distribution. Furthermore, it is shown that TRGMs possess non-trivial triadic structure. We discover inevitable correlations in the abundance of certain triadic subgraph
patterns which should be taken into account when attributing functional relevance to particular motifs – patterns which occur significantly more frequently than expected at random. Beyond, the strong impact of the probability distributions on the Steiner triples on the occurrence of triadic subgraphs over the whole network is demonstrated. This interdependence allows us to design ensembles of networks with predefined triadic substructure. Hence, TRGMs help to overcome the lack of generative models needed for assessing the relevance of triadic structure.
We further investigate whether motifs occur homogeneously or heterogeneously distributed over a graph. Therefore, we study triadic subgraph structures in each node’s neighborhood individually. In order to quantitatively measure structure from an individual node’s perspective, we introduce an algorithm for node-specific pattern mining for both directed unsigned, and undirected signed networks. Analyzing real-world datasets, we find that there are networks in which motifs are distributed highly heterogeneously, bound to the proximity of only very few nodes. Moreover, we observe indication for the potential sensitivity of biological systems to a targeted removal of these critical vertices. In addition, we study whole graphs with respect to the homogeneity and homophily of their node-specific triadic structure. The former describes the similarity of subgraph distributions in the neighborhoods of individual vertices. The latter quantifies whether connected vertices
are structurally more similar than non-connected ones. We discover these features to be characteristic for the networks’ origins. Moreover, clustering the vertices of graphs regarding their triadic structure, we investigate structural groups in the neural network of C. elegans, the international airport-connection network, and the global network of diplomatic sentiments between countries. For the latter we find evidence for the instability of triangles considered socially unbalanced according to sociological theories.
Finally, we utilize our TRGM to explore ensembles of networks with similar triadic substructure in terms of the evolution of dynamical processes acting on their nodes. Focusing on oscillators, coupled along the graphs’ edges, we observe that certain triad motifs impose a clear signature on the systems’ dynamics, even when embedded in a larger
network structure.
Identification of human host cell factors involved in \(Staphylococcus\) \(aureus\) 6850 infection
(2015)
Staphylococcus aureus is both a human commensal and a pathogen. 20%-30% of all individuals are permanently or occasionally carriers of S. aureus without any symptoms. In contrast to this, S. aureus can cause life-threatening diseases e.g. endocarditis, osteomyelitis or sepsis. Here, the increase in antibiotic resistances makes it more and more difficult to treat these infections and hence the number of fatalities rises constantly. Since the pharmaceutical industry has no fundamentally new antibiotics in their pipeline, it is essential to better understand the interplay between S. aureus and the human host cell in order to find new, innovative treatment options.
In this study, a RNA interference based whole genome pool screen was performed to identify human proteins, which play a role during S. aureus infections. Since 1,600 invasion and 2,271 cell death linked factors were enriched at least 2 fold, the big challenge was to filter out the important ones. Here, a STRING pathway analysis proved to be the best option. Subsequently, the identified hits were validated with the help of inhibitors and a second, individualised small interfering RNA-based screen.
In the course of this work two important steps were identified, that are critical for host cell death: the first is bacterial invasion, the second phagosomal escape. The second step is obligatory for intracellular bacterial replication and subsequent host cell death. Invasion in turn is determining for all following events. Accordingly, the effect of the identified factors towards these two crucial steps was determined. Under screening conditions, escape was indirectly measured via intracellular replication. Three inhibitors (JNKII, Methyl-beta-cyclodeytrin, 9-Phenantrol) could be identified for the invasion process. In addition, siRNAs targeted against 16 different genes (including CAPN2, CAPN4 and PIK3CG), could significantly reduce bacterial invasion. Seven siRNAs (FPR2, CAPN4, JUN, LYN, HRAS, AKT1, ITGAM) were able to inhibit intracellular replication significantly. Further studies showed that the IP3 receptor inhibitor 2-APB, the calpain inhibitor calpeptin and the proteasome inhibitor MG-132 are able to prevent phagosomal escape and as a consequence intracellular replication and host cell death.
In this context the role of calpains, calcium, the proteasome and the mitochondrial membrane potential was further investigated in cell culture. Here, an antagonistic behaviour of calpain 1 and 2 during bacterial invasion was observed. Intracellular calcium signalling plays a major role, since its inhibition protects host cells from death. Beside this, the loss of mitochondrial membrane potential is characteristic for S. aureus infection but not responsible for host cell death. The reduction of membrane potential can be significantly diminished by the inhibition of the mitochondrial Na+/Ca2+ exchanger.
All together, this work shows that human host cells massively contribute to different steps in S. aureus infection rather than being simply killed by bacterial pore-forming toxins. Various individual host cell factors were identified, which contribute either to invasion or to phagosomal escape and therefore to S. aureus induced cytotoxicity. Finally, several inhibitors of S. aureus infection were identified. One of them, 2-APB, was already tested in a sepsis mouse model and reduced bacterial load of kidneys.
Thus, this study shows valuable evidence for novel treatment options against S. aureus infections, based on the manipulation of host cell signalling cascades.
Deregulated MYC expression contributes to cellular transformation as well as progression and
maintenance of human tumours. Interestingly, in the absence of additional genetic alterations,
potentially oncogenic levels of MYC sensitise cells to a variety of apoptotic stimuli. Hence, MYC-induced
apoptosis has long been recognised as a major barrier against cancer development.
However, it is largely unknown how cells discriminate physiological from supraphysiological levels
of MYC in order to execute an appropriate biological response.
The experiments described in this thesis demonstrate that induction of apoptosis in mammary
epithelial cells depends on the repressive actions of MYC/MIZ1 complexes. Analysis of gene
expression profiles and ChIP-sequencing experiments reveals that high levels of MYC are required
to invade low-affinity binding sites and repress target genes of the serum response factor SRF.
These genes are involved in cytoskeletal dynamics as well as cell adhesion processes and are likely
needed to transmit survival signals to the AKT kinase. Restoration of SRF activity rescues MIZ1-
dependent gene repression and increases AKT phosphorylation and downstream function.
Collectively, these results indicate that association with MIZ1 leads to an expansion of MYC’s
transcriptional response that allows sensing of oncogenic levels, which points towards a tumour-suppressive
role for the MYC/MIZ1 complex in epithelial cells.
Biased cognitive processes are very likely involved in the maintenance of fears and anxiety. One of such cognitive processes is the perceived relationship between fear-relevant stimuli and aversive consequences. If this relationship is perceived although objective contingencies have been random, it is called an (a posteriori) illusory correlation. If this relationship is overestimated before objective contingencies are experienced, it is called an (a priori) expectancy bias. Previous investigations showed that fear-relevant illusory correlations exist, but very few is known about how and why this cognitive bias develops. In the present dissertation thesis, a model is proposed based on a review of the literature on fear-relevant illusory correlations. This model describes how psychological factors might have an influence on fear and illusory correlations. Several critical implications of the model were tested in four experiments.
Experiment 1 tested the hypothesis that people do not only overestimate the proportion of aversive consequences (startle sounds) following emotionally negative stimuli (pictures of mutilations) relative to neutral stimuli (pictures of household objects), but also following highly arousing positive stimuli (pictures of erotic scenes), because arousal might be an important determinant of illusory correlations. The result was a significant expectancy bias for negative stimuli and a much smaller expectancy bias for positive stimuli. Unexpectedly, expectancy bias was restricted to women. An a posteriori illusory correlation was not found overall, but only in those participants who perceived the aversive consequences following negative stimuli as particularly aversive.
Experiment 2 tested the same hypothesis as experiment 1 using a paradigm that evoked distinct basic emotions (pictures inducing fear, anger, disgust or happiness). Only negative emotions resulted in illusory correlations with aversive outcomes (startle sounds), especially the emotions of fear and disgust. As in experiment 1, the extent of these illusory correlations was correlated with the perceived aversiveness of aversive outcomes. Moreover, only women overestimated the proportion of aversive outcomes during pictures that evoked fear, anger or disgust.
Experiment 3 used functional Magnetic Resonance Imaging (fMRI) to measure biased brain activity in female spider phobics during an illusory correlation paradigm. Both spider phobics and healthy controls expected more aversive outcomes (painful electrical shocks) following pictures of spiders than following neutral control stimuli (pictures of mushrooms). Spider phobics but not healthy controls overestimated the proportion of aversive outcomes following pictures of spiders in a trial-by-trial memory task. This a posteriori illusory correlation was correlated with enhanced shock aversiveness and activity in primary sensory-motor cortex in phobic participants. Moreover, spider phobics’ brain activity in the left dorsolateral prefrontal cortex was elevated in response to spider images. This activity also predicted the extent of the illusory correlation, which supports the theory that executive and attentional resources play an important role in the maintenance of illusory correlations.
Experiment 4 tested the hypothesis that the enhanced aversiveness of some outcomes would be sufficient to causally induce an illusory correlation. Neutral images (colored geometric figures) were paired with differently aversive outcomes (three startle sounds varying in intensity). Participants developed an illusory correlation between those images, which predicted the most aversive sound and this sound, which means that this association was overestimated relative to the other associations. The extent of the illusory correlation was positively correlated with participants’ self-reported anxiety. The results imply that the previously found relationship between illusory correlations and outcome aversiveness might reflect a causal impact of outcome aversiveness or salience on illusory correlations.
In sum, the conducted experiments indicate that illusory correlations between fear-relevant stimuli and aversive consequences might persist – among other factors - because of an enhanced aversiveness or salience of aversive consequences following feared stimuli. This assumption is based on correlational findings, a neural measure of outcome perception and a causal influence of outcome aversiveness on illusory correlations. Implications of these findings were integrated into a model of fear-relevant illusory correlations and potential implications are discussed. Future investigations should further elucidate the role of executive functions and gender effects. Moreover, the trial-by-trial assessment of illusory correlations is recommended to increase reliability of the concept. From a clinical perspective, the down-regulation of aversive experiences and the allocation of attention to non-aversive experiences might help to cure anxiety and cognitive bias.
Lattice forces are based on the attraction between the single moieties of molecules. The strength of lattice forces has an impact on the solid state and related physical properties such as melting point, boiling point, vapor pressure solvation and solubility. For solvation to occur, energy is required to break the lattice forces attracting ions and molecules among themselves. The energy for breaking up the attraction between the molecules is gained from the energy released when ions or molecules of the lattice associate with molecules of the solvent. Solubility is therefore, directly linked to the energy which is required to break the lattice forces and the energy which is liberated by solvation of the molecules or ions. Based on this relation, the lattice forces in two acidic compounds and a neutral compound were subsequently lowered by different approaches with the intention to increase the solubility, supersaturation, and dissolution rate.
The conversion to an ionic liquid and the embedding of the compound in a pH-sensitive matrix in an amorphous state were investigated with an acidic compound and its pro-drug. The tetrabutylphosphonium (TBPH) salt showed the most promising properties among the tested counter ions. It alters the properties of the compound from a highly crystalline physicochemical state to an amorphous readily soluble material showing supersaturation in a wider pH range and higher solubility than the sodium and potassium salts. A solid dispersion approach was developed in parallel. Solid dispersions with two different pH-sensitive polymers and different drug load were prepared by lyophilization to determine the miscibility of the compound and the polymer by differential scanning calorimetry (DSC). A miscibility of 50% of the amorphous acid with the pH-sensitive Eudragit L100-55 matrix and a miscibility of 40% with hydroxypropyl methylcellulose acetate succinate (HPMC-AS) was found. Both approaches, the TBPH salt and the solid dispersion based on the pH-sensitive Eudragit L100-55 were tested in vivo. The TBPH salt was dosed in a buffered solution to prevent precipitation in the acidic stomach pH. This resulted in BAV higher than the crystalline suspension but lower than the solid dispersion. There were no acute toxicology effects seen. Thus, TBPH was considered safe for further studies. The TBPH salts were very hygroscopic, sticky and prone to precipitation as free compound when exposed to low pH when simulating the passage through the stomach. Thus, the principle of the ionic liquid was combined with the principle of an amorphous solid dispersion. This mitigated the risk of precipitation of the TBPH salt during the passage of the stomach. Also delinquency upon open storage was improved by embedding the TBPH salt in a pH-sensitive polymer. Dissolution tests mimicking the pH gradient in the gastro intestinal tract confirmed the protective properties of the pH-sensitive polymer matrices against recrystallization at low stomach pH in vitro. Furthermore, supersaturation at pH ranges relevant in the intestines of preclinical species or humans was observed. The TBPH solid dispersion showed superior supersaturation behavior in vitro compared to the free acid in pH-sensitive matrix. However, equally increased bioavailability (BAV) was observed when the amorphous solid dispersion contained the free acid form or the TBPH salt. Absorption seemed to be so fast that the short in vitro supersaturation observed for the free from in pH-sensitive matrix was already sufficient for complete absorption within 15 - 30 minutes. This is in accordance with the short tmax of around 15 - 30 minutes after oral application of the low lattice force principles. The pharmacokinetic (PK) profile became the main focus of further optimization as the BAV was maximized already. Early maximal plasma concentration (tmax) went along with high maximal plasma concentration (Cmax) for the low lattice force principles. Central nervous system related side effects as consequence of the PK profile with such a high Cmax were likely to happen and therefore, the formulation principles were modified to maintain the doubled BAV and reduce the observed Cmax. Additionally, the compound showed a short half-life requiring a two times daily dose, which is suboptimal for a chronic treatment. The amorphous acid in pH-matrix showed a modified PK profile when dosed in a hydrogel but not in an oleo gel. Surprisingly, administration of the TBPH salt in pH-matrix suspended in oil showed a massive delay of the tmax to 8 hours and a reduction of Cmax by factor 2 - 3 with unchanged good BAV when administered as a suspension in oil without increased viscosity. TBPH salt solution with a high viscosity resulted in the same PK profile as when administered without increased viscosity.
The animal model was changed from rat to dog. The dose was limited to 15 mg/dog since they reacted much more sensitively to the drug. BAV at this dose level was 100% for the crystalline suspension already, thus the focus of this study was not increasing BAV but to achieve prolonged and/or delayed exposure using different formulation principles elaborated in rats before. An immediate release formulation of 3 mg was combined with a delayed/modified release principle containing 12 mg of the compound. An additional study arm was conducted with a remote controlled device programmed to deliver a first dose of 3 mg instantaneously after passing the stomach and a second dose of 12 mg when entering the caecum. The tmax remained short for all formulation principles and it seemed that delayed and modified release lead to BAV reduction. The modified PK profiles could not be translated to an oral dog model which endorsed the hypothesis of an absorption window; however, the in vitro results could be translated to a dog model for colonic absorption. A nanosuspension of the crystalline compound, the TBPH salt in pH-matrix and the TBPH salt of the pro-drug of the compound were administered rectally to determine colonic absorption. The nanosuspension showed exposure around the limit of quantification whereas the TBPH in pH-matrix showed 4% BAV and the pro-drug as TBPH salt in pH-matrix resulted in 12% BAV although the pro-drug is factor 3 less soluble. This was in line with the increased permeation of the pro-drug which was observed in the Caco2 experiments. The bioavailability was increased by using the low lattice force principles and validated the hypothesis for the acidic drug and its pro-drug in the colonic dog model. Chemical and physicochemical stability of the investigated solid dispersions was confirmed for at least 18 months at room temperature.
Amorphous solid dispersions were investigated to lower lattice forces of a neutral molecule. Solid dispersions are well known from literature; however, they are not frequently used as principles for dosage forms due to limitations in physical stability and complex manufacturing processes. A viable formulation principle was developed for a neutral compound assuming that the stability of a solid dispersion with a drug load below the maximal miscibility will be better than one which exceeds the maximal miscibility. The dispersed and amorphous state of the neutral compound resulted in a higher energy level and chemical potential compared to a crystalline form implying that they are thermodynamically instable and sensitive to recrystallization. This was confirmed by the fast recrystallization of an amorphous solid dispersion made from HPMC with 50% drug load which recrystallized within a few days. Solid dispersions with different drug loads in different polymers and in polymer mixtures were prepared by lyophilization. The miscibility of the compound and the polymer was determined by DSC as the miscibility is a surrogate for maximal stable drugload of the solid dispersion. HPMC was found to be miscible with 20% compound confirming the instability of the 50% HPMC solid dispersion observed earlier. Based on dosing needs, a miscibility/drug load of at least 30% was mandatory because of the dosing requirements to dose less than 1500 mg of final formulation. This was considered as maximal swallowable volume for later clinical development. Thus, all systems with a miscibility higher or equal to 30% drug in polymer were evaluated in an in vitro dissolution test and ranked in comparison with amorphous pure compound, crystalline compound and a 20% drug load solid dispersion made from HPMC. The HPMC based solid dispersion which gave good exposure in previous in vivo experiments did not support the high drugload that was needed. Therefore, similar in vitro behavior of this solid dispersion should result in similar in vivo performance. The polyvinylpyrrolidone (PVP) based solid dispersions scored with high drug load and medium initial kinetic solubility. The Soluplus based solid dispersion offer lower drug load and slightly lower initial kinetic solubility, but showed an extended supersaturation. The 4 best performing systems were evaluated in rats. They resulted in a short Tmax of 15 minutes and BAV higher than 85% indicating fast and complete absorption. The reference HPMC based solid dispersion with a drug load of 20% showed 65% BAV. This showed that higher drug loads were feasible and did not limit absorption in this animal model.
Since the estimated human dose required a higher formulation density than obtained from lyophilization or spray drying, melt extrusion of the solid dispersion was considered to be the most adequate technology. The process temperature needed to be below 200 °C as this value represents the degradation temperature of the polymers. It was investigated by differential scanning calorimetry whether the compound can be mixed with the molten polymer. None of the polymers could dissolve the crystalline compound below the degradation point of the polymer. The temperature had to be increased to 260 °C until the compound was molten together to a monophasic system with polymer. This resulted in degradation of the polymers. Therefore, different plasticizers and small organic molecules with similar functional groups as the compound were investigated on their ability to reduce the melting point of the mixture of polymer and compound. Positive results were obtained with several small molecules. Based on a literature review, nicotinamide had the least concerning pharmaceutical activities and was chosen for further development. Solid dispersions with the same composition as the ones tested in rat were prepared with 9% nicotinamide as softener. Extrusion without nicotinamide was not possible at 135 °C or at 170 °C whereas the addition of 9% nicotinamide led to a homogenous extrudate when processed at 135 °C. The solid state of the extrudates was not molecularly dispersed but the compound was in a crystalline state. They could not reach the in vitro performance observed for the lyophilized solid dispersions with Soluplus or PVP derivatives. Nevertheless, the performances in the supersaturation assay were comparable to the HPMC based lyophilized solid dispersion. The Soluplus and PVP based crystalline extrudates were evaluated in a dog PK showing that the crystalline solid dispersion does not enable BAV higher than 90% within 24 hours after application. In parallel, the hygroscopicity of the meltextrudates was investigated by DVS and the best performing system based on Kollidon VA64 was further optimized regarding the solid state after its extrusion. The minimal process temperature to obtain a fully amorphous solid dispersion was determined by hot stage X-ray powder diffraction analysis (XRPD) and confirmed by lab scale extrusion. Addition of 9% nicotinamide lowered the process temperature from 220 °C (without nicotinamide) to 200 °C with nicotinamide. The minimal temperature for obtaining crystal free material was independent of the nicotinamide amount as soon as it exceeded 9%. Lowering the process temperature with nicotinamide reduced the impurity levels from 3.5% at 220 °C to 1.1% at 200 °C. The fully amorphous extrudates performed now better in the in vitro supersaturation assay than the lyophilized amorphous HPMC solid dispersion and the crystalline extrudates which were extruded at 135 °C. The process was up-scaled to a pilot scale extruder with alternative screw designs increasing mechanical shear forces and mixing which enabled lower process temperatures. This resulted in a maximal process temperature of 195 °C when nicotinamide was present and 205 °C without nicotinamide. However, shorter process time and reduced process temperatures (compared to the lab scale equipment) resulted in impurity levels smaller than 0.5% for both compositions and temperatures and made the nicotinamide obsolete. The amorphous extrudates from the pilot scale extruder performed better in vitro than the crystalline extrudates from the lab scale extruder and the lyophilized HPMC solid dispersion. A comparable PK profile of the HPMC solid dispersion and the amorphous melt extruded formulation principle was anticipated from these in vitro results. This was confirmed by the pharmacokinetic profile in dogs after oral administration of the final extruded solid dispersion formulation which was equivalent with the pharmacokinetic profile of the HPMC based solid dispersion formulation. The assumption that using a drug load below the miscibility prevents the solid dispersion from recrystallization was verified at least for a limited time by a stability test at elevated temperatures for 3 months showing no change in solid state. This indicates the opportunities of the low lattice forces approach, but also showed the importance of developing principles first assuring stable solid state, performance in vitro and in vivo, tailor them in a second step based on performance and combine them with technology such as melt extrusion as third step. If these steps are done in the context of clinical needs and quality it can rationalize the development of a solid dispersion and minimalize the formulation related risks regarding biopharmacy and stability.
Protein-protein interactions play a crucial role in the development of drug delivery devices for the increasingly important biologicals, including antibodies, growth factors and cytokines. The understanding thereof might offer opportunities for tailoring carriers or drug proteins specifically for this purpose and thereby allow controlled delivery to a chosen target. The possible applications range from trigger-dependent release to sustained drug delivery and possibly permanently present stimuli, depending on the anticipated mechanism.
Silk fibroin (SF) is a biomaterial that is suitable as a carrier for protein drug delivery devices. It combines processability under mild conditions, good biocompatibility and stabilizing effects on incorporated proteins.
As SF is naturally produced by spiders and silkworms, the understanding of this process and its major factors might offer a blueprint for formulation scientists, interested in working with this biopolymer. The natural process of silk spinning covers a fascinating versatility of aggregate states, ranging from colloidal solutions through hydrogels to solid systems. The transition among these states is controlled by a carefully orchestrated process in vivo. Major players within the natural process include the control of spatial pH throughout passage of the silk dope, the composition and type of ions, and fluid flow mechanics within the duct, respectively. The function of these input parameters on the spinning process is reviewed before detailing their impact on the design and manufacture of silk based drug delivery systems (DDS). Examples are reported including the control of hydrogel formation during storage or significant parameters controlling precipitation in the presence of appropriate salts, respectively. The review details the use of silk fibroin to develop liquid, semiliquid or solid DDS with a focus on the control of SF crystallization, particle formation, and drug-SF interaction for tailored drug load.
Although we were able to show many examples for SF drug delivery applications and there are many publications about the loading of biologics to SF systems, the mechanism of interaction between both in solution was not yet extensively explored. This is why we made this the subject of our work, as it might allow for direct influence on pharmaceutical parameters, like aggregation and drug load.
In order to understand the underlying mechanism for the interaction between SF and positively charged model proteins, we used isothermal titration calorimetry for thermodynamic characterization. This was supported by hydrophobicity analysis and by colloidal characterization methods including static light scattering, nanoparticle tracking analysis and zeta potential measurements. We studied the effects of three Hofmeister salts – NaCl (neutral), NaSCN (chaotropic) and Na2SO4 (cosmotropic) – and the pH on the interaction of SF with the model proteins in dependence of the ratio from one to another. The salts impacted the SF structure by stabilizing (cosmotropic) or destabilizing (chaotropic) the SF micelles, resulting in completely abolished (cosmotropic) or strongly enhanced (chaotropic) interaction. These effects were responsible for different levels of loading and coacervation when varying type of salt and its concentration. Additionally, NaCl and NaSCN were able to prolong the stability of aqueous SF solution during storage at 25°C in a preliminary study.
Another approach to influence protein-protein interactions was followed by covalent modification. Interleukin-4 (IL-4) is a cytokine driving macrophages to M2 macrophages, which are known to provide anti-inflammatory effects. The possibility to regulate the polarization of macrophages to this state might be attractive for a variety of diseases, like atherosclerosis, in which macrophages are involved. As these cases demand a long-term treatment, this polarization was supposed to be maintained over time and we were planning to achieve this by keeping IL-4 permanently present in an immobilized way. In order to immobilize it, we genetically introduced an alkyne-carrying, artificial amino acid in the IL-4 sequence. This allowed access to a site-specific click reaction (Cu(I)-catalyzed Huisgen azide-alkyne cycloaddition) with an azide partner. This study was able to set the basis for the project by successful expression and purification of the IL-4 analogue and by proving the availability for the click reaction and maintained bioactivity. The other side of this project was the isolation of human monocytes and the polarization and characterization of human macrophages. The challenge here was that the majority of related research was based on murine macrophages which was not applicable to human cells and the successful work was so far limited to establishing the necessary methods.
In conclusion, we were able to show two different methods that allow the influence of protein-protein interactions and thereby the possible tailoring of drug loading. Although the results were very promising for both systems, their applicability in the development of drug delivery devices needs to be shown by further studies.
Peripheral blood mononuclear cells (PBMCs) are the only source of human lymphoid cells routinely available for immunologic research and for immunomonitoring of T-cell responses to microbial and tumor-associated antigens. However the large majority of human T-cells resides in tissues, especially in lymphatic organs, while only 1 % of the body’s T-cells circulate in the blood stream. Previous work in mice and humans had indicated that CD4 T-cells transiently lose antigen sensitivity when cellular contacts are lost, e.g. by leaving lymphoid organs such as lymph nodes (LNs) and entering the circulation. In this study, these findings were extended to CD8 T-cells. Thus, CD8 T-cell responses of the human tonsil show a significant drop in sensitivity to viral antigens if tissue-exit was simulated by keeping cells in dispersed culture at body temperature for two hours.
Conversely, tissue-like functionality in blood-derived CD8 T-cells was restored by applying the simple and robust RESTORE protocol. Indeed, application of the RESTORE protocol, i.e. pre-culturing PBMCs for two days at a high cell density before initiation of antigenic stimulation, demonstrated that CD8 T-cell responses to a broad range of viral and to tumor-associated antigens are greatly underestimated, and sometimes even remain undetected if conventional, unprocessed PBMC cultures are used. The latter finding is particularly striking with regard to the appearance of Wilms tumor 1 (WT1)-specific CD8 T-cell responses in leukemia patients after allogeneic bone marrow transplantation. My studies on the mechanism of the RESTORE protocol show that HD preculture of PBMCs does not involve antigen-or cytokine-driven clonal expansion of T-cells. Moreover, the gain in antigen sensitivity cannot be explained by a decreased activity of regulatory T-cells during the preculture step. The increased antigen sensitivity of CD8 T-cells from HD precultures of PBMCs is associated with tonic T-cell receptor signaling as indicated by enhanced tyrosine phosphorylation of the CD3 ζ chains and the tyrosine kinase Lck, thereby preparing T-cells for full responses. The upregulation of genes involved in aerobic glycolysis in “restored” CD8 memory T-cells relative to fresh cells might be an essential requirement for increased T-cell functionality including the regulation of IFN-γ production. Taken together, the RESTORE protocol, which was initially described for the CD4 T-cell response to the antibody TGN1412 permits a more meaningful monitoring of CD8 T-cell responses to viral infections and tumors. Furthermore, when generating T-cell lines for adoptive T-cell therapy, the RESTORE protocol allows the generation of CD8 T-cell lines with an improved representation of clones responding to low antigen concentrations.
Electrochemical double layer capacitors (EDLC), most commonly referred to as “supercapacitors”,
have gained increasing scientific and commercial interest in recent years. Purely electrostatic charge storage processes allow charge- and discharge cycles in the second-time scale, exhibiting a theoretical capacitance in the order of 100 F per gram of electrode material, thereby providing efficient recuperation devices for electromechanical processes, for example. Introducing electrochemically active materials such as manganese oxides into the supercapacitor electrode, allows to combine the double-layer storage with a battery-like storage process, leading to capacitance that can be up to two orders of magnitude larger than those in EDLC.
In the present work, an electroless deposition approach of manganese oxide on a carbon scaffold
is adapted and further investigated. The carbon material is derived from an organic xerogel, which in turn is prepared via a sol-gel process, allowing tailoring of the structural properties of the carbon, making it an ideal model system to study the relation between morphology and electrochemical performance in the carbon-manganese oxide hybrid electrode.
In the first part of this thesis, a variation of manganese oxide deposition time at a low concentration of precursor solution is analyzed. Mass uptakes reach up to 58 wt.%, leading to an increase of volumetric capacitance by a factor 5, however reducing the dynamic performance of the electrode.
The structural characterization gives hints on the deposition location of the active material either in the intra-particular pores of the carbon backbone or on the enveloping surface area of the particles forming the backbone.
In order to comprehensively answer the question of the location of the active material within
the hybrid electrode, the particle size of the carbon backbone and therefore the enveloping surface area of the carbon particles was varied. For samples with high mass uptakes, scanning electron microscopy (SEM) images show a layer thickness of 27 nm of active material around the carbon particles. In order to quantitatively investigate this layer morphology, even for low mass uptakes where no layer is visible in SEM images, a model interpreting data from anomalous small angle X-ray scattering (ASAXS) measurements was developed. The results confirm the presence of a layer around the carbon particles, exhibiting a layer thickness ranging from 3 to 26 nm.
From an electrochemical point of view, carbon backbones with a large enveloping surface area
will lead to high mass uptakes in the electroless deposition process and therefore lead to high
capacitance of the electrode. However, for future application, electrodeposition approaches should be investigated in detail, since no deposits will form on the interface between carbon backbone and current collector, leading to a better dynamic performance of the hybrid electrode. Furthermore, the ASAXS-method should be promoted and applied on other material systems, since this technique allows to draw important conclusions and allows to deduce integral and quantitative information towards a rational design of high performance electrodes.
Performance Assessment of Resource Management Strategies for Cellular and Wireless Mesh Networks
(2015)
The rapid growth in the field of communication networks has been truly amazing in the last decades. We are currently experiencing a continuation thereof with an increase in traffic and the emergence of new fields of application. In particular, the latter is interesting since due to advances in the networks and new devices, such as smartphones, tablet PCs, and all kinds of Internet-connected devices, new additional applications arise from different areas. What applies for all these services is that they come from very different directions and belong to different user groups. This results in a very heterogeneous application mix with different requirements and needs on the access networks.
The applications within these networks typically use the network technology as a matter of course, and expect that it works in all situations and for all sorts of purposes without any further intervention. Mobile TV, for example, assumes that the cellular networks support the streaming of video data. Likewise, mobile-connected electricity meters rely on the timely transmission of accounting data for electricity billing. From the perspective of the communication networks, this requires not only the technical realization for the individual case, but a broad consideration of all circumstances and all requirements of special devices and applications of the users.
Such a comprehensive consideration of all eventualities can only be achieved by a dynamic, customized, and intelligent management of the transmission resources. This management requires to exploit the theoretical capacity as much as possible while also taking system and network architecture as well as user and application demands into account. Hence, for a high level of customer satisfaction, all requirements of the customers and the applications need to be considered, which requires a multi-faceted resource management.
The prerequisite for supporting all devices and applications is consequently a holistic resource management at different levels. At the physical level, the technical possibilities provided by different access technologies, e.g., more transmission antennas, modulation and coding of data, possible cooperation between network elements, etc., need to be exploited on the one hand. On the other hand, interference and changing network conditions have to be counteracted at physical level. On the application and user level, the focus should be on the customer demands due to the currently increasing amount of different devices and diverse applications (medical, hobby, entertainment, business, civil protection, etc.).
The intention of this thesis is the development, investigation, and evaluation of a holistic resource management with respect to new application use cases and requirements for the networks. Therefore, different communication layers are investigated and corresponding approaches are developed using simulative methods as well as practical emulation in testbeds. The new approaches are designed with respect to different complexity and implementation levels in order to cover the design space of resource management in a systematic way. Since the approaches cannot be evaluated generally for all types of access networks, network-specific use cases and evaluations are finally carried out in addition to the conceptual design and the modeling of the scenario.
The first part is concerned with management of resources at physical layer. We study distributed resource allocation approaches under different settings. Due to the ambiguous performance objectives, a high spectrum reuse is conducted in current cellular networks. This results in possible interference between cells that transmit on the same frequencies. The focus is on the identification of approaches that are able to mitigate such interference.
Due to the heterogeneity of the applications in the networks, increasingly different application-specific requirements are experienced by the networks. Consequently, the focus is shifted in the second part from optimization of network parameters to consideration and integration of the application and user needs by adjusting network parameters. Therefore, application-aware resource management is introduced to enable efficient and customized access networks.
As indicated before, approaches cannot be evaluated generally for all types of access networks. Consequently, the third contribution is the definition and realization of the application-aware paradigm in different access networks. First, we address multi-hop wireless mesh networks. Finally, we focus with the fourth contribution on cellular networks. Application-aware resource management is applied here to the air interface between user device and the base station. Especially in cellular networks, the intensive cost-driven competition among the different operators facilitates the usage of such a resource management to provide cost-efficient and customized networks with respect to the running applications.
The scope of computational chemistry can be broadened by developing new methods and more efficient algorithms. However, the evaluation of the applicability of the methods for the different fields of chemistry is equally important. In this thesis systems with an unusual and complex electronic structure, such as excitonic states in organic semiconductors, a boron-containing bipolaron and the excited states of pyracene were studied and the applicability of the toolkit of computational chemistry was investigated. Concerning the organic semiconductors the focus was laid on organic solar cells, which are one of the most promising technologies with regard to satisfying the world's need for cheap and environmentally sustainable energy. This is due to the low production and material costs and the possibility of using flexible and transparent devices. However, their efficiency does still not live up to the expectations. Especially the exciton diffusion lengths seem to be significantly too short. In order to arrive at improved modules, a fundamental understanding of the elementary processes occurring in the cell on the molecular and supramolecular level is needed. Computational chemistry can provide insight by separating the different effects and providing models for predictions and prescreenings. In this thesis, the focus was laid on the description of excitonic states in merocyanines and perylene-based dyes taking the influence of the environment into account.
At first, the photochemical isomerization between two configurations of 6-nitro BIPS observed experimentally was studied by first benchmarking several functionals against SCS-ADC(2) in the gas phase and subsequently calculating the excited-state potential energy surface. The geometries obtained from a relaxed scan in the ground state as well as from a scan in the excited state were used. The environment was included using different polarizable continuum models. It was shown that the choice of the model and especially the question of the state specificity of the approach is of vital importance. Using the results of the calculations, a two-dimensional potential energy surface could be constructed that could be used to explain the experimental findings. Furthermore, the importance of the excited-state isomerization as a potential deactivation channel in the exciton transport was pointed out.
Then the assessment of the suitability of different merocyanines for optoelectronic applications with quantum-chemical methods was discussed. At first, the effect of the environment on the geometry, especially on the bond length alternation pattern, was investigated. It was shown that the environment changes the character of the ground-state wave function of several merocyanines qualitatively, which means that the results of gas-phase calculations are meaningless - at least when a comparison with solution or device data is desired. It was demonstrated that using a polarizable continuum model with an effective epsilon, a qualitative agreement between the calculated geometry and the geometry in the crystal structure can be obtained. Therefore, by comparing the bond length alternation in solution and in the crystal, a rough estimate of the effect of the crystal environment can be made.
It was further shown that the connection between the HOMO energy and the open-circuit voltage is not as simple as it is often implied in the literature. It was discussed that it is not clear whether the HOMO of a single molecule or a $\pi$-stack containing several monomers should be used and if the environmental charges of the bulk phase or the interface should be included. Investigating the dependence of the HOMO energy on the stack size yielded no definitive trend. Furthermore, it was discussed that the effect due the optimization of the modules (solvent, bulk heterojunction) during the production masks any potential correlation between the HOMO energy and measured open-circuit values. Therefore, a trend can only be expected for unoptimized bilayer cells. It was concluded that ultimately, the importance of the HOMO energy should not be overestimated.
The correlation between the exciton reorganization energy and the so-called cyanine limit, which is predicted by a simple two-state model, was also discussed. By referring to the results of VB calculations, it was discussed that the correlation indeed exists and is non-negligible, although the effect is not as strong as one might have expected. In this context, a potential application of a VB/MM approach was covered briefly. The importance of the molecular reorganization energy and the device morphology was also discussed.
It was concluded that the optimization of merocyanines for organic optoelectronic devices is inherently a multiparameter problem and one cannot expect to find one particular parameter, which solely controls the efficiency.
The perylene-based dyes were studied with a focus on the description of a potential trapping mechanism involving an intermolecular motion in a dimer. The aim was to find methods which can be applied to larger model systems than a dimer and take the effect of the environment into account. As a test coordinate the longitudinal shift of two monomers against each other was used. At first, it was demonstrated how the character of an excited state in a dimer can be defined and how it can be extracted from a standard quantum-chemical calculation. Then several functionals were benchmarked and their applicability or failure was rationalized using the character analysis. Two recipes could be proposed, which were applied to a constraint optimization (only intermolecular degrees of freedom) in the excited states of the PBI dimer and to the description of the potential energy surfaces of ground and excited states along a longitudinal displacement in the perylene tetramer, respectively.
It was further demonstrated that the semi-empirical OMx methods fail to give an accurate description of the excited-state potential energy surfaces as well as the ground-state surface along the test coordinate. This failure could be attributed to an underestimation of overlap-dependent terms. Consequently, it could be shown that the methods are applicable to large intermolecular distances, where the overlap is negligible. The results of DFT calculations with differently composed basis sets suggested that adding an additional single p-function for each atom should significantly improve the performance.
QM/MM methods are ideally suited to take the effect of the environment on a a dimer model system into account. However, it was shown that standard force fields also give an incorrect description of the interaction between the monomers along the intermolecular coordinate. This failure was attributed to the isotropic atom-atom interaction in the repulsion term of the Lennard-Jones potential. This was corroborated using two simple proof-of-principle anisotropy models. Therefore, a novel force field called OPLS-AA_O was presented that is based on OPLS-AA, but uses an anisotropic model for the repulsion. The model involves the overlap integral between the molecular densities, which are modeled as a sum of atom-centered p-type Gaussian functions. It was shown that using this force field an excellent agreement with the DFT results can be obtained when the correct parameters are used. These parameters, however, are not very generalizable, which was attributed to the simplicity of the model in its current state (using the same exponential parameter for all atoms). As a short excursion, the applicability of an MO-based overlap model was discussed.
It was demonstrated that the repulsion term based on the density overlap can be used to correct the failure of the OMx methods for the ground states. This is in accord with the assumption that an underestimation of the overlap terms is responsible for the failure.
It was shown that OPLS-AA_O also gives an excellent description of the longitudinal shift in a PBI tetramer. Using the tetramer as a test system and applying the recipe obtained in the TDDFT benchmark for the QM-part and OPLS-AA_O for the MM-part in conjunction with an electrostatic embedding scheme, a QM/MM description of the excited states of the PBI dimer including the effect of the environment could be obtained.
In the last chapter the theoretical description of the Bis(borolyl)thiophene dianion and the excited states of pyracene were discussed. The electronic structure of the Bis(borolyl)thiophene dianion - a negative bipolaron - was elucidated using DFT and CASPT2 methods. Furthermore, an estimation of the extent of triplet admixture to the ground state due to spin-orbit coupling was given.
In the second project the S1 and S2 states of pyracene were computed using SCS-CC2 and SCS-ADC(2) and an estimation for the balance between aromaticity and ring strain was given. This also involved computing the vibrational frequencies in the excited states.
In both studies the results of the computations were able to rationalize and complete experimental results.
The ecosystem of the high northern latitudes is affected by the recently changing environmental conditions. The Arctic has undergone a significant climatic change over the last decades. The land coverage is changing and a phenological response to the warming is apparent. Remotely sensed data can assist the monitoring and quantification of these changes. The remote sensing of the Arctic was predominantly carried out by the usage of optical sensors but these encounter problems in the Arctic environment, e.g. the frequent cloud cover or the solar geometry. In contrast, the imaging of Synthetic Aperture Radar is not affected by the cloud cover and the acquisition of radar imagery is independent of the solar illumination. The objective of this work was to explore how polarimetric Synthetic Aperture Radar (PolSAR) data of TerraSAR-X, TanDEM-X, Radarsat-2 and ALOS PALSAR and interferometric-derived digital elevation model data of the TanDEM-X Mission can contribute to collect meaningful information on the actual state of the Arctic Environment. The study was conducted for Canadian sites of the Mackenzie Delta Region and Banks Island and in situ reference data were available for the assessment. The up-to-date analysis of the PolSAR data made the application of the Non-Local Means filtering and of the decomposition of co-polarized data necessary.
The Non-Local Means filter showed a high capability to preserve the image values, to keep the edges and to reduce the speckle. This supported not only the suitability for the interpretation but also for the classification. The classification accuracies of Non-Local Means filtered data were in average +10% higher compared to unfiltered images. The correlation of the co- and quad-polarized decomposition features was high for classes with distinct surface or double bounce scattering and a usage of the co-polarized data is beneficial for regions of natural land coverage and for low vegetation formations with little volume scattering. The evaluation further revealed that the X- and C-Band were most sensitive to the generalized land cover classes. It was found that the X-Band data were sensitive to low vegetation formations with low shrub density, the C-Band data were sensitive to the shrub density and the shrub dominated tundra. In contrast, the L-Band data were less sensitive to the land cover. Among the different dual-polarized data the HH/VV-polarized data were identified to be most meaningful for the characterization and classification, followed by the HH/HV-polarized and the VV/VH-polarized data. The quad-polarized data showed highest sensitivity to the land cover but differences to the co-polarized data were small. The accuracy assessment showed that spectral information was required for accurate land cover classification. The best results were obtained when spectral and radar information was combined. The benefit of including radar data in the classification was up to +15% accuracy and most significant for the classes wetland and sparse vegetated tundra. The best classifications were realized with quad-polarized C-Band and multispectral data and with co-polarized X-Band and multispectral data. The overall accuracy was up to 80% for unsupervised and up to 90% for supervised classifications. The results indicated that the shortwave co-polarized data show promise for the classification of tundra land cover since the polarimetric information is sensitive to low vegetation and the wetlands. Furthermore, co-polarized data provide a higher spatial resolution than the quad-polarized data.
The analysis of the intermediate digital elevation model data of the TanDEM-X showed a high potential for the characterization of the surface morphology. The basic and relative topographic features were shown to be of high relevance for the quantification of the surface morphology and an area-wide application is feasible. In addition, these data were of value for the classification and delineation of landforms. Such classifications will assist the delineation of geomorphological units and have potential to identify locations of actual and future morphologic activity.
Exploring the transport properties of the three-dimensional topological insulator material HgTe
(2015)
In the present thesis the transport properties of strained bulk HgTe devices are investigated. Strained HgTe forms a 3D TI and is of special interest for studying topological surface states, since it can be grown by MBE in high crystal quality. The low defect density leads to considerable mobility values, well above the mobilities of other TI materials. However, strained HgTe has a small band gap of ca. 20 meV. With respect to possible applications the question is important, under which conditions the surface transport occurs. To answer this question, the HgTe devices are investigated at dilution refrigerator temperatures (T<100 mK) in high magnetic fields of different orientation. The influence of top and back gate electrodes as well as surface protecting layers is discussed.
On the basis of an analysis of the quantum Hall behaviour it is shown that transport is dominated by the topological surface states in a surprisingly large parameter range. A dependence on the applied top gate voltage is presented for the topological surface states. It enables the first demonstration of an odd integer QHE sequence from the surfaces perpendicular to the magnetic field. Furthermore, the p-type QHE from the surface states is observed for the first time in any 3D TI. This is achieved in samples of high surface quality. It is concluded from the gate response that the screening behaviour in 3D TI devices is non-trivial. The transport data are qualitatively analysed by means of intuitive theoretical models.
Alzheimer’s disease (AD) is the most prevalent neurodegenerative disease of the brain, which is characterized by a progressive loss of memory and spatial orientation. Only less than 5-10% of AD sufferers are familial cases due to genetic mutations in the amyloid precursor protein (APP) gene or presenilin (PS) 1 and 2 genes. The cause of sporadic AD (sAD) which covers > 95% of AD patients is still unknown. Current research found interactions between aging, diabetes and cognitive decline including dementia in general and in AD in particular. Disturbances of brain glucose uptake, glucose tolerance and utilization and impairment of the insulin/insulin receptor (IR) signaling cascade are thought to be key targets for the development of sAD.
In the brain of AD patients, neural plasticity is impaired indicated by synaptic and neuronal loss. Adult neurogenesis (AN), the generation of functional neurons in the adult brain, may be able to restore neurological function deficits through the integration of newborn neurons into existing neural networks. The dentate gyrus of the hippocampus is one out of few brain regions where life-long AN exists. However, there is a big controversy in literature regarding the involvement of AN in AD pathology. Most animal studies used transgenic mice based on the Amyloid ß (Aß) hypothesis which primarily act as models for the familial form of AD. Findings from human post mortem AN studies were also inconstistent. In this thesis, we focused on the possible involvement of AN in the pathogenesis of the sporadic form of AD. Streptozotocin intracerebroventricularily (STZ icv) treated rats, which develop an insulin-resistant brain state and learning and memory deficits preceding Aß pathology act as an appropriate animal model for sAD. We used STZ treatment for both parts of my work, for the in vivo and in vitro study.
In the first part of my thesis, my coworkers and I investigated STZ icv treatment effects on different stages of AN in an in vivo approach. Even if STZ icv treatment does not seem to considerably influence stem cell proliferation over a short-term (1 month after STZ icv treatment) as well as in a long-term (3 months after STZ icv treatment) period, it results in significantly less immature and newborn mature neurons 3 months after STZ icv treatment. This reduction detected after 3 months was specific for the septal hippocampus, discussed to be important for spatial learning. Subsequently we performed co-localization studies with antibodies detecting BrdU (applied appr. 27 days before sacrifice) and cell-type specific markers such as NeuN, and GFAP, we found that STZ treatment does not affect the differentiation fate of newly generated cells. Phenotype analysis of BrdU-positive cells in the hilus and molecular layer revealed that some of the BrdU-positive cells are newborn oligodendrocytes but not newborn microglia.
In the second part of my thesis I worked with cultured neural stem cells (NSCs) isolated from the adult rat hippocampus to reveal STZ effects on the proliferation of of NSCs, and on the survival and differentiation of their progeny. Furthermore, this in vitro approach enabled me to study cellular mechanisms underlying the observed impaired neurogenesis in the hippocampus of STZ-treated rats. In contrast to our findings of the STZ icv in vivo study we revealed that STZ supplied with the cell culture medium inhibits the proliferation of NSCs in a dose-dependent and time-dependent manner. Moreover, performing immunofluorescence studies with antibodies detecting cell-type specific markers after triggering NSCs to differentiate, we could show that STZ treatment affects the number of newly generated neurons but not of astrocytes. Analyzing newborn cells starting to differentiate and migrate I was able to demonstrate that STZ has no effect on the migration of newborn cells. Trying to reveal cellular mechanisms underlying the negative influence of STZ on hippocampal AN, we performed qRT-PCR and immunofluorescence staining and thus could show that in NSCs the expression of glucose transporter (GLUT)3 mRNA as well as IR and GLUT3 protein levels are reduced after STZ treatment. Therefore, the inhibition of the proliferation of NSCs may be (at least partially) caused by these two molecules. Interestingly, the effect of STZ on differentiating cells was shown to be different, as IR protein expression was not significantly changed but GLUT3 protein levels were decreased in consequence of STZ treatment.
In summary, this project delivered further insights into the interrelation between AN the sporadic form of sAD and thus provides a basis of new therapeutic approaches in sAD treatment through intervening AN. Discrepancies between the results of the two parts of my thesis, the in vivo and in vitro part, were certainly caused to a certain extent by the missing microenvironment in the in vitro approach with cultured NSCs. Future studies e.g. using co-culture systems could at least minimize the effect of a missing natural microenvironment of cultured NSCs, so that the use of an in vitro approach for the investigation of STZ treatment underlying cellular mechanisms can be improved.
The role of human Ephrin receptor tyrosine kinase A2 (EphA2) in Chlamydia trachomatis infection
(2015)
Chlamydia trachomatis (Ctr), an obligate intracellular gram negative human pathogen, causes sexually transmitted diseases and acquired blindness in developing countries. The infectious elementary bodies (EB) of Ctr involved in adherence and invasion processes are critical for chlamydial infectivity and subsequent pathogenesis which requires cooperative interaction of several host cell factors. Few receptors have been known for this early event, yet the molecular mechanism of these receptors involvement throughout Ctr infection is not known. Chlamydial inclusion membrane serves as a signaling platform that coordinates Chlamydia-host cell interaction which encouraged me to look for host cell factors that associates with the inclusion membrane, using proteome analysis. The role of these factors in chlamydial replication was analyzed by RNA interference (RNAi) (in collaboration with AG Thomas Meyer). Interestingly, EphrinA2 receptor (EphA2), a cell surface tyrosine kinase receptor, implicated in many cancers, was identified as one of the potential candidates. Due to the presence of EphA2 in the Ctr inclusion proteome data, I investigated the role of EphA2 in Ctr infection. EphA2 was identified as a direct interacting receptor for adherence and entry of C. trachomatis. Pre-incubation of Ctr-EB with recombinant human EphA2, knockdown of EphA2 by siRNA, pretreatment of cells with anti-EphA2 antibodies or the tyrosine kinase inhibitor dasatinib significantly reduced Ctr infection. This marked reduction of Ctr infection was seen with both epithelial and endothelial cells used in this study. Ctr activates EphA2 upon infection and invades the cell together with the activated EphA2 receptor that interacts and activates PI3K survival signal, promoting chlamydial replication. EphA2 upregulation during infection is associated with Ctr inclusion membrane inside the cell and are prevented being translocated to the cell surface. Ephrins are natural ligands for Ephrin receptors that repress the activation of the PI3K/Akt pathway in a process called reverse signaling. Purified Ephrin-A1, a ligand of EphA2, strongly interferes with chlamydial infection and normal development, supporting the central role of these receptors in Chlamydia infection. Overexpression of full length EphA2, but not the mutant form lacking the intracellular cytoplasmic domain, enhanced PI3K activation and Ctr infection. Ctr infection induces EphA2 upregulation and is mediated by activation of ERK signaling pathway. Interfering with EphA2 upregulation sensitizes Ctr-infected cells to apoptosis induced by tumor necrosis factor-alpha (TNF-α) suggesting the importance of intracellular EphA2 signaling.
Collectively, these results revealed the first Ephrin receptor “EphA2” that functions in promoting chlamydial infection. In addition, the engagement of a cell surface receptor at the inclusion membrane is a new mechanism how Chlamydia subverts the host cell and induces apoptosis resistance. By applying the natural ligand Ephrin-A1 and targeting EphA2 offers a promising new approach to interfere with Chlamydia infection. Thus, the work provides the evidence for a host cell surface tyrosine kinase receptor that is exploited for invasion as well as for receptor-mediated intracellular signaling to facilitate the chlamydial replication.
Adenosine receptors that belong to the rhodopsin-like G protein-coupled receptors (GPCRs) are involved in a lot of regulatory processes and are widely distributed throughout the body which makes them an attractive target for drugs. However, pharmacological knowledge of these receptors is still limited. A big advance regarding the structural knowledge of adenosine receptors was the development of the first crystal structure of the adenosine A2A receptor in 2008. The crystal structure revealed the amino acids that form the ligand binding pocket of the receptor and depicted the endpoint of receptor movement in the ligand binding process. Within the scope of this work two members of the adenosine receptor family were investigated, namely the adenosine A1 and the A2A receptor (A1R, A2AR). A1R was generated on base of the previously developed A2AR. Receptors were tagged with fluorophores, with the cyan fluorescent protein (CFP) at the C-terminal end of receptor and the Fluorescein Arsenical Hairpin binder (FlAsH) binding sequence within the third intracellular loop of receptors. Resulting fluorescent receptor sensors
A1 Fl3 CFP and A2A Fl3 CFP were investigated with help of Fluorescence Resonance Energy Transfer (FRET) measurements within living cells. FRET experiments enable the examination of alteration in the distance of two fluorophores and thus the observation of receptor dynamical movements.
For comparison of A1R and A2AR regarding receptor dynamical movement upon ligand binding, fluorescent receptor sensors A1 Fl3 CFP and A2A Fl3 CFP were superfused with various ligands and the outcomes of FRET experiments were compared regarding signal height of FRET ratio evoked by the distinct ligand that is correlated to the conformational change of receptor upon ligand binding. Beside the different direction of FRET ratio upon ligand binding at A1R and A2AR sensor, there were differences observable when signal height and association and dissociation kinetics of the various ligands investigated were compared to each other. Differences between the adenosine receptor subtypes were especially remarkable for the A1R subtype selective agonist CPA and the A2AR subtype selective agonist CGS 21680. Another part of the project was to investigate the influence of single amino acids in the ligand binding process within the fluorescent A1R sensor. Amino acid positions were derived from the crystal structure of the A2AR forming the ligand binding pocket and these amino acids were mutated in the A1R structure. Investigation of the A1R sensor and its mutants regarding confocal analysis showed involvement
of some amino acids in receptor localization. When these amino acids were mutated receptors were not expressed in the plasma membrane of cells. Some amino acids investigated were found to be involved in the ligand binding process in general whereas other amino acids were found to have an influence on the binding of distinct structural groups of the ligands investigated. In a further step, A1R and A2AR were N-terminally tagged with SNAP or CLIP which allowed to label receptor sensors with multiple fluorophores. With this technique receptor distribution in cells could be investigated with help of confocal analysis. Furthermore, ligand binding with fluorescent adenosine receptor ligands and their competition with help of a non-fluorescent antagonist was examined at the SNAP tagged A1R and A2AR. Finally the previously developed receptor sensors were combined to the triple labeled receptor sensors SNAP A1 Fl3 CFP and SNAP A2A Fl3 CFP which were functional regarding FRET experiments and plasma membrane expression was confirmed via confocal analysis. In the future, with the help of this technique, interaction between fluorescent ligand and SNAP tagged receptor can be monitored simultaneously with the receptor movement that is indicated by the distance alteration between FlAsH and CFP. This can
lead to a better understanding of receptor function and its dynamical movement upon ligand binding which may contribute to the development of new and more specific drugs for the A1R and A2AR in the future.
The propagation of the genetic information into proteins is mediated by messenger- RNA (mRNA) intermediates. In eukaryotes mRNAs are synthesized by RNA- Polymerase II and subjected to translation after various processing steps. Earlier it was suspected that the regulation of gene expression occurs primarily on the level of transcription. In the meantime it became evident that the contribution of post- transcriptional events is at least equally important. Apart from non-coding RNAs and metabolites, this process is in particular controlled by RNA-binding proteins, which assemble on mRNAs in various combinations to establish the so-called “mRNP- code”.
In this thesis a so far unknown component of the mRNP-code was identified and characterized. It constitutes a hetero-trimeric complex composed of the Tudor domain-containing protein 3 (TDRD3), the fragile X mental retardation protein (FMRP) and the Topoisomerase III beta (TOP3β) and was termed TTF (TOP3β-TDRD3-FMRP) -complex according to its composition.
The presented results also demonstrate that all components of the TTF-complex shuttle between the nucleus and the cytoplasm, but are predominantly located in the latter compartment under steady state conditions. Apart from that, an association of the TTF-complex with fully processed mRNAs, not yet engaged in productive translation, was detected. Hence, the TTF-complex is a component of „early“ mRNPs.
The defined recruitment of the TTF-complex to these mRNPs is not based on binding to distinct mRNA sequence-elements in cis, but rather on an interaction with the so-called exon junction complex (EJC), which is loaded onto the mRNA during the process of pre-mRNA splicing. In this context TDRD3 functions as an adapter, linking EJC, FMRP and TOP3β on the mRNP. Moreover, preliminary results suggest that epigenetic marks within gene promoter regions predetermine the transfer of the TTF-complex onto its target mRNAs.
Besides, the observation that TOP3β is able to catalytically convert RNA-substrates disclosed potential activities of the TTF-complex in mRNA metabolism. In combination with the already known functions of FMRP, this finding primarily suggests that the TTF-complex controls the translation of bound mRNAs.
In addition to its role in mRNA metabolism, the TTF-complex is interesting from a human genetics perspective as well. It was demonstrated in collaboration with researchers from Finland and the US that apart from FMRP, which was previously linked to neurocognitive diseases, also TOP3β is associated with neurodevelopmental disorders. Understanding the function of the TTF-complex in mRNA metabolism might hence provide important insight into the etiology of these diseases.
This work brings forward successful implementations of ultrafast chirality-sensitive spectroscopic techniques by probing circular dichroism (CD) or optical rotation dispersion (ORD). Furthermore, also first steps towards chiral quantum control, i.e., the selective variation of the chiral properties of molecules with the help of coherent light, are presented.
In the case of CD probing, a setup capable of mirroring an arbitrary polarization state of an ultrashort laser pulse was developed. Hence, by passing a left-circularly polarized laser pulse through this setup a right-circularly polarized laser pulse is generated. These two pulse enantiomers can be utilized as probe pulses in a pump--probe CD experiment. Besides CD spectroscopy, it can be utilized for anisotropy or ellipsometry spectroscopy also. Within this thesis, the approach is used to elucidate the photochemistry of hemoglobin, the oxygen transporting protein in mammalian blood. The oxygen loss can be triggered with laser pulses as well, and the results of the time-resolved CD experiment suggest a cascade-like relaxation, probably through different spin states, of the metallo-porphyrins in hemoglobin.
The ORD probing was realized via the combination of common-path optical heterodyne interferometric polarimetry and accumulative femtosecond spectroscopy. Within this setup, on the one hand the applicability of this approach for ultrafast studies was demonstrated explicitly. On the other hand, the discrimination between an achiral and a racemic solution without prior spatial separation was realized. This was achieved by inducing an enantiomeric excess via polarized femtosecond laser pulses and following its evolution with the developed polarimeter. Hence, chiral selectivity was already achieved with this method which can be turned into chiral control if the polarized laser pulses are optimized to steer an enhancement of the enantiomeric excess.
Furthermore, within this thesis, theoretical prerequisites for anisotropy-free pump--probe experiments with arbitrary polarized laser pulses were derived. Due to the small magnitude of optical chirality-sensitve signals, these results are important for any pump--probe chiral spectroscopy, like the CD probing presented in this thesis. Moreover, since for chiral quantum control the variation of the molecular structure is necessary, the knowledge about rearrangement reactions triggered by photons is necessary. Hence, within this thesis the ultrafast Wolff rearrangement of an α-diazocarbonyl was investigated via ultrafast photofragment ion spectroscopy in the gas phase. Though the compound is not chiral, the knowledge about the exact reaction mechanism is beneficial for future studies of chiral compounds.
As organic semiconductors gain more importance for application, research into their properties has become necessary. This work investigated the exciton and charge transport properties of organic semiconducting crystals. Based on a hopping approach, protocols have been developed for the calculation of Charge mobilities and singlet exciton diffusion coefficients. The protocols do not require any input from experimental data except for the x-ray crystal structure, since all needed quantities can be taken from high-level quantum chemical calculations. Hence, they allow to predict the transport properties of yet unknown compounds for given packings, which is important for a rational design of new materials. Different thermally activated hopping models based on time-dependent perturbation theory were studied for the charge and exciton transport; i. e. the spectral overlap approach, the Marcus theory, and the Levich-Jortner theory. Their derivations were presented coherently in order to emphasize the different levels of approximations and their respective prerequisites. A short reference was made to the empirical Miller-Abrahams hopping rate. Rate equation approaches to calculate the stationary charge carrier mobilities and exciton diffusion coefficients have been developed, which are based on the master equation. The rate equation approach is faster and more efficient than the frequently used Monte Carlo method and, therefore, provides the possibility to study the anisotropy of the transport parameters and their three-dimensional representation in the crystal. The Marcus theory, originally derived for outer sphere electron transfer in solvents, had already been well established for charge transport in organic solids. It was shown that this theory fits even better for excitons than for charges compared with the experiment. The Levich-Jortner theory strongly overestimates the charge carrier mobilities and the results deviate even stronger from the experiment than those obtained with the Marcus theory. The latter contains larger approximations by treating all vibrational modes classically. The spectral overlap approach in combination with the developed rate equations leads to even quantitatively very good results for exciton diffusion lengths compared to experiment. This approach and the appendant rate equations have also been adapted to charge transport. The Einstein relation, which relates the diffusion coefficient with the mobility, is important for the rate equations, which have been developed here for transport in organic crystals. It has been argued that this relation does not hold in disordered organic materials. This was analyzed within the Framework of the Gaussian disorder model and the Miller-Abrahams hopping rate.
The focus of this work was the investigation of energy transfer between charge transfer states. For this purpose the multidimensional chromophores HAB-S, HAB-A, B1 and B2 were synthesised, each consisting of three electron donor and three electron acceptor redox centres linked symmetrically or asymmetrically by the hexaarylbenzene framework. Triarylamines represent in all these compounds the electron donors, whereas the electron poor centres were triarylboranes in B1 and B2 and PCTM centres in HAB-S and HAB-A, respectively. The hexaarylbenzenes were obtained by cobalt catalysed cyclotrimerisation of the respective tolan precursors. In addition, Star was synthesised, which consists of a central PCTM linked to three triarylamin centres by tolan bridging units in a star-like configuration. The hexaarylbenzene S1a/b substituted with six squaraine chromophores could not be realised. It is assumed that the cyclotrimerisation catalyst Co2(CO)8 does not tolerate the essential hydroxyl groups in the tolan precursor S2a. The alternative reaction pathway to execute the cyclotrimerisation reaction first and introduce the hydroxyl groups thereafter failed as well, because the required hexaarylbenzene substituted by six semisquaric acid moieties could not be synthesised. However, energy transfer interactions could be investigated in the tolan precursor S2a with two squaraine units to obtain information about the electronic coupling provided by the tolan bridge. For all multidimensional compounds model molecules were synthesised with only a single donor-acceptor pair (B3, Star-Model and HAB-Model). This allows a separate consideration of energy and charge transfer processes. It has to be stressed that in all before mentioned multidimensional compounds the “through bond” energy transfer interaction between neighbouring IV-CT states is identical to a transfer of a single electron between two redox centres of the same kind (e.g. TAA -> TAA+). The latter can be analysed by electron transfer theory. This situation is observed when the two IV-CT states transferring energy share one redox centre.
All compounds containing PCTM centres were characterised by paramagnetic resonance spectroscopy. Thereby, a weak interaction between the three PCTM units in HAB-S and HAB-A was observed. In addition, when oxidising Star-Model, a strongly interacting singlet or triplet state was obtained. In contrast, signals corresponding to a weakly interacting biradical were obtained for HAB-Model+. This indicates a strong electronic coupling between the redox centres provided by the tolan bridge and a weak coupling when linked by the hexaarylbenzene. This trend is supported by UV/Vis/NIR absorption measurements. The analysis of the observed IV-CT absorption bands by electron transfer theory reveals a weak electronic coupling of V = 340 cm-1 in HAB-Model and a distinctly stronger coupling of V = 1190-2900 cm-1 in Star-Model. In the oxidised HAB-S+, Star+ and Star-Model+ a charge transfer reversed from that of the neutral species, that is, from the PCTM radical to the electron poorer cationic TAA centre, was observed by spectroelectrochemistry. The temporal evolution of the excited states was monitored by ultrafast transient absorption measurements. Within the first picosecond stabilisation of the charge transfer state was observed, induced by solvent rotation. Anisotropic transient absorption measurements revealed that within the lifetime of the excited state (tau = 1-4 ps) energy transfer does not occur in the HABs whereas in the star-like system ultrafast and possibly coherent energy redistribution is observed. Taken this information together the identity between energy transfer and electron transfer in the specific systems were made apparent. It has to be remarked that neither energy transfer nor charge transfer theory can account for the very fast energy transfer in Star.
The electrochemical and photophysical properties of B1 and B2 were investigated by cyclic voltammetry, absorption and fluorescence measurements and were compared to B3 with only one neighbouring donor-acceptor pair. For the asymmetric B2 CV measurements show three oxidations as well as three reduction peaks whose peak separation is greatly influenced by the conducting salt due to ion-pairing and shielding effects. Consequently, peak separations cannot be interpreted in terms of electronic couplings in the generated mixed valence species. Transient absorption, fluorescence solvatochromism and absorption spectra show that charge transfer states from the amine to the boron centres are generated after optical excitation. The electronic donor-acceptor interaction is weak though as the charge transfer has to occur predominantly through space. The electronic coupling could not be quantified as the CT absorption band is superimposed by pi-pi* transitions localised at the amine and borane centres. However, this trend is in good agreement to the weak coupling measured for HAB-Model. Both transient absorption and fluorescence upconversion measurements indicate an ultrafast stabilisation of the charge transfer state in B1- B3 similar to the corresponding observations in HAB-S and Star. Moreover, the excitation energy of the localised excited charge transfer states can be redistributed between the aryl substituents of these multidimensional chromophores within fluorescence lifetime (ca. 60 ns). This was proved by steady state fluorescence anisotropy measurements, which further indicate a symmetry breaking in the superficially symmetric HAB. Anisotropic fluorescence upconversion measurements confirm this finding and reveal a time constant of tau = 2-3 ps for the energy transfer in B1 and B2. It has to be stressed that, although the geometric structures of B1 and HAB-S are both based on the same framework and furthermore the neighbouring CT states show in both cases similar Coulomb couplings and negligible “through bond” couplings, very fast energy transfer is observed in B1 whereas in HAB-S the energy is not redistributed within the excited state lifetime. To explain this, it has to be kept in mind that the energy transfer and the relaxation of the CT state are competing processes. The latter is influenced moreover by the solvent viscosity. Hence, it is assumed that this discrepancy in energy transfer behaviour is caused by monitoring the excited state in solvents of varying viscosity. Adding fluoride ions causes the boron centres to lose their acceptor ability due to complexation. Consequently, the charge transfer character in the donor-acceptor chromophores vanishes which could be observed in both the absorption and fluorescence spectra. However, the fluoride sensor ability of the boron centre is influenced strongly by the moisture content of the solvent possibly due to hydrogen bonding of water to the fluoride anions.
UV/Vis/NIR absorption measurements of S2a show a red-shift by 1800 cm-1 of the characteristic squarain band compared to the model compound S20. From exciton theory a Coulomb coupling of V = 410 cm-1 is calculated which cannot account for this strong spectral shift. Consequently, “through-bond” interactions have to contribute to the strong communication between the two squaraine chromophores in S2a. This is in accordance with the strong charge transfer coupling calculated for the tolan spacer in Star-Model.
Summary (English)
I. Human induced global change threatens biodiversity and trophic interactions. Fragmentation is considered as one of the major threats to biodiversity and can cause reduced species richness, population declines, loss of genetic diversity and disruption of trophic interactions such as predation and parasitism. However forest fragmentation effects can be eclectic due to species specific traits. Specialist species with narrower niches or at higher trophic levels may be in danger of extinction whereas generalist species with less specific habitat requirements may even profit from fragmentation. In the tropics, known as “the” terrestrial biodiversity hotspots, even biodiversity inventories are often lacking, especially in forest canopies. Ongoing deforestation and resulting fragmentation in tropical regions are expected to heavily affect ecosystem functions by changes in biodiversity, community compositions and disruption of trophic interactions. It is even less unknown in what extent different global change drivers for example climate change and fragmentation interact. It is unlikely that deforestation will end, so that small secondary forest fragments will be important habitat elements that must be investigated to optimize their potential contribution to biodiversity conservation.
This dissertation aimed to disentangle the effects of forest fragmentation on trap-nesting bee and wasp communities in small secondary forest fragments addressing the following main questions:
1) Are there interactive effects between microclimate and fragmentation on the abundance of bees and wasps, their mortality - and parasitism rates (Chapter II)?
2) How does fragmentation affect bee biodiversity from canopy to the understory with considerations of single species patterns (Chapter III)?
3) How is fragmentation affecting diversity and community composition of different trophic levels between understory and canopy with emphasis on the host-antagonist relation? (Chapter IV).
II. A variety of global change drivers affect biodiversity and trophic interactions. The combined effects of habitat fragmentation and climate change are poorly understood and with ongoing deforestation and agricultural intensification secondary rainforest fragments might contribute to biodiversity conservation and mitigation of climate warming. This chapter investigated the interactive effects of habitat fragmentation and microclimate on the abundance and biotic interactions of trap-nesting bees and wasps in secondary forest fragments in the Northeastern lowlands of Costa Rica.
Habitat area did not affect hymenopteran abundance, parasitism and mortality rates, but tree location- from the forest border to the forest center- influenced all variables. Interactive effects were found such as in the higher mortality rates at interior locations in larger fragments. Mean temperature at edge and interior locations led to significant effects on all tested variables and interactive effects between temperature and tree locations were found. Abundances at interior locations were significantly higher with increasing temperatures. Mortality rates at interior location increased at lower mean temperatures, whereas higher temperatures at edges marginally increased mortality rates. Our results indicate, that edge effects, mediated by altered microclimatic conditions, significantly change biotic interactions of trap-nesting hymenopterans in small secondary fragments.
III. This chapter focusses on the vertical distribution of bees, their parasitism and mortality rates as well as single species patterns in relation to fragment size and edge effects in secondary rainforest remnants.
No size effects on bee abundance, bee diversity and on parasitism- and mortality rates were found. Bees were least abundant at the intermediate height and were most abundant in the understory; whereas the highest diversity was found in the canopy. Tree location had no effect on bee abundance, but on bee diversity since most species were found in the forest interior. The cuckoo bees Aglaomelissa duckei and Coelioxys sp. 1 only partly followed the patterns of their hosts, two Centris species.
Edge effects greatly influenced the bee community, so that the amount of edge habitat in secondary forest fragments will influence the conservation value for bees.
IV. In this section the effects of habitat fragmentation on biodiversity, on community structure of hosts and natural enemies as well as the relation of hosts and antagonists were investigated from the understory to the canopy. The results stress the importance to monitor biodiversity, community composition and trophic interactions from the understory to the canopy. The higher trophic level of the antagonists was found to be more sensitive to fragment size compared to their hosts. Again edge effects were found to be the dominant driver since both host and antagonist richness, as well as community compositions were strongly affected. Ongoing fragmentation and increased amount of edge habitat could favor few abundant disturbance-adapted species over the rare and more diverse forest-adapted species. A positive-density dependent parasitism rate was demonstrated, as well as an increase of the parasitism rate not only with antagonist abundance but also diversity.
Small secondary forest fragments surely can contribute to the conservation of biodiversity and trophic interactions, but increase of edge habitat will have negative consequences on above-ground nesting Hymenoptera, so that important interactions such as pollination, predation and parasitism could be disrupted. Therefore small forest fragments could contribute to biodiversity conservation but will not be able to compensate for the loss of large areas of primary forests.
V. This dissertation contributes to the understanding of habitat area - and edge effects as well as the interaction of those with microclimatic conditions in small secondary rainforest fragments. As study system trap nests inhabited by solitary above-ground nesting bees, wasps and their natural enemies were chosen because they allow to study trophic interactions along their whole vertical distribution from the understory to the canopy. The effect of fragment size was rather weak, however, larger sizes affected the diversity of natural enemies positively, proofing the hypothesis that higher trophic levels react more sensitive to habitat loss. Edge effects heavily affected the abundance, diversity and community composition of hosts and their natural enemies as well as parasitism and mortality rates. Increased edge conditions resulting from ongoing fragmentation and deforestation will therefore negatively affect bees, wasps and their trophic interactions with natural enemies. Those changes affect important processes such as pollination, predation and parasitism, which could result in changes of ecosystem functioning. This study showed the importance to include all strata in biodiversity monitoring since height did matter for the trap-nesting communities. Diversity was shown to be higher in the canopy and community composition did change significantly. To conclude we could show that secondary forest fragments can sustain a trap-nesting bee and wasp community, but the amount of interior habitat is highly important for the conservation of forest-adapted species. Probably the conservation of large primary forest in combination with a high habitat connectivity, for example with small secondary forest fragments, will help to sustain biodiversity and ecosystem functioning better than the mere presence of small forest fragments.
In the thesis discrete moments of the Riemann zeta-function and allied Dirichlet series are studied.
In the first part the asymptotic value-distribution of zeta-functions is studied where the samples are taken from a Cauchy random walk on a vertical line inside the critical strip. Building on techniques by Lifshits and Weber analogous results for the Hurwitz zeta-function are derived. Using Atkinson’s dissection this is even generalized to Dirichlet L-functions associated with a primitive character. Both results indicate that the expectation value equals one which shows that the values of these
zeta-function are small on average.
The second part deals with the logarithmic derivative of the Riemann zeta-function on vertical lines and here the samples are with respect to an explicit ergodic transformation. Extending work of Steuding, discrete moments are evaluated and an equivalent formulation for the Riemann Hypothesis in terms of ergodic theory is obtained.
In the third and last part of the thesis, the phenomenon of universality with respect
to stochastic processes is studied. It is shown that certain random shifts of the zeta-function can approximate non-vanishing analytic target functions as good as we please. This result relies on Voronin's universality theorem.
Feedback efficiency and training effects during alpha band modulation over the sensorimotor cortex
(2015)
Neural oscillations can be measured by electroencephalography (EEG) and these oscillations can be characterized by their frequency, amplitude and phase. The mechanistic properties of neural oscillations and their synchronization are able to explain various aspects of many cognitive functions such as motor control, memory, attention, information transfer across brain regions, segmentation of the sensory input and perception (Arnal and Giraud, 2012). The alpha band frequency is the dominant oscillation in the human brain. This oscillatory activity is found in the scalp EEG at frequencies around 8-13 Hz in all healthy adults (Makeig et al., 2002) and considerable interest has been generated in exploring EEG alpha oscillations with regard to their role in cognitive (Klimesch et al., 1993; Hanselmayr et al., 2005), sensorimotor (Birbaumer, 2006; Sauseng et al., 2009) and physiological (Lehmann, 1971; Niedermeyer, 1997; Kiyatkin, 2010) aspects of human life. The ability to voluntarily regulate the alpha amplitude can be learned with neurofeedback training and offers the possibility to control a brain-computer interface (BCI), a muscle independent interaction channel. BCI research is predominantly focused on the signal processing, the classification and the algorithms necessary to translate brain signals into control commands than on the person interacting with the technical system. The end-user must be properly trained to be able to successfully use the BCI and factors such as task instructions, training, and especially feedback can therefore play an important role in learning to control a BCI (Neumann and Kübler, 2003; Pfurtscheller et al., 2006, 2007; Allison and Neuper, 2010; Friedrich et al., 2012; Kaufmann et al., 2013; Lotte et al., 2013).
The main purpose of this thesis was to investigate how end-users can efficiently be trained to perform alpha band modulation recorded over their sensorimotor cortex. The herein presented work comprises three studies with healthy participants and participants with schizophrenia focusing on the effects of feedback and training time on cortical activation patterns and performance. In the first study, the application of a realistic visual feedback to support end-users in developing a concrete feeling of kinesthetic motor imagery was tested in 2D and 3D visualization modality during a single training session. Participants were able to elicit the typical event-related desynchronisation responses over sensorimotor cortex in both conditions but the most significant decrease in the alpha band power was obtained following the three-dimensional realistic visualization. The second study strengthen the hypothesis that an enriched visual feedback with information about the quality of the input signal supports an easier approach for motor imagery based BCI control and can help to enhance performance. Significantly better performance levels were measurable during five online training sessions in the groups with enriched feedback as compared to a conventional simple visual feedback group, without significant differences in performance between the unimodal (visual) and multimodal (auditory–visual) feedback modality. Furthermore, the last study, in which people with schizophrenia participated in multiple sessions with simple feedback, demonstrated that these patients can learn to voluntarily regulate their alpha band. Compared to the healthy group they required longer training times and could not achieve performance levels as high as the control group. Nonetheless, alpha neurofeedback training lead to a constant increase of the alpha resting power across all 20 training session.
To date only little is known about the effects of feedback and training time on BCI performance and cortical activation patterns. The presented work contributes to the evidence that healthy individuals can benefit from enriched feedback: A realistic presentation can support participants in getting a concrete feeling of motor imagery and enriched feedback, which instructs participants about the quality of their input signal can give support while learning to control the BCI. This thesis demonstrates that people with schizophrenia can learn to gain control of their alpha oscillations recorded over the sensorimotor cortex when participating in sufficient training sessions. In conclusion, this thesis improved current motor imagery BCI feedback protocols and enhanced our understanding of the interplay between feedback and BCI performance.
Regulating and reverting the adipo-osteogenic lineage decision of trabecular human bone marrow stromal cells (hBMSCs) represents a promising approach for osteoporosis therapy and prevention. Fibroblast growth factor 1 (FGF1) and its subfamily member FGF2 were scored as lead candidates to exercise control over lineage switching processes (conversion) in favor of osteogenesis previously. However, their impact on differentiation events is controversially discussed in literature. Hence, the present study aimed to investigate the effects of these FGFs on the adipogenic and osteogenic differentiation and conversion of primary hBMSCs. Moreover, involved downstream signaling mechanisms should be elucidated and, finally, the results should be evaluated with regard to the possible therapeutic approach.
This study clearly revealed that culture in the presence of FGF1 strongly prevented the adipogenic differentiation of hBMSCs as well as the adipogenic conversion of pre-differentiated osteoblastic cells. Lipid droplet formation was completely inhibited by a concentration of 25 ng/µL. Meanwhile, the expression of genetic markers for adipogenic initiation, peroxisome proliferator-activated receptor gamma 2 (PPARg2) and CCAAT/enhancer binding protein alpha (C/EBPa), as well as subsequent adipocyte maturation, fatty acid binding protein 4 (FABP4) and lipoprotein lipase (LPL), were significantly downregulated. Yet, the genetic markers of osteogenic commitment and differentiation were not upregulated during adipogenic differentiation and conversion under FGF supplementation, not supporting an event of osteogenic lineage switching.
Moreover, when examining the effects on the osteogenic differentiation of hBMSCs and the osteogenic conversion of pre-differentiated adipocytic cells, culture in the presence of FGF1 markedly decreased extracellular matrix (ECM) mineralization. Additionally, the gene expression of the osteogenic marker alkaline phosphatase (ALP) was significantly reduced and ALP enzyme activity was decreased. Furthermore, genetic markers of osteogenic commitment, like the master regulator runt-related transcription factor 2 (RUNX2) and bone morphogenetic protein 4 (BMP4), as well as markers of osteogenic differentiation and ECM formation, like collagen 1 A1 (COL1A1) and integrin-binding sialoprotein (IBSP), were downregulated. In contrast, genes known to inhibit ECM mineralization, like ANKH inorganic pyrophosphate transport regulator (ANKH) and osteopontin (OPN), were upregulated. ANKH inhibition revealed that its transcriptional elevation was not crucial for the reduced matrix mineralization, perhaps due to decreased expression of ectonucleotide pyrophosphatase/phosphodiesterase 1 (ENPP1) that likely annulled ANKH upregulation. Like FGF1, also the culture in the presence of FGF2 displayed a marked anti-adipogenic and anti-osteogenic effect.
The FGF receptor 1 (FGFR1) was found to be crucial for mediating the described FGF effects in adipogenic and osteogenic differentiation and conversion. Yet, adipogenic conversion displayed a lower involvement of the FGFR1. For adipogenic differentiation and osteogenic differentiation/conversion, downstream signal transduction involved the extracellular signal-regulated kinases 1 and 2 (ERK1/2) and the mitogen-activated protein kinase (MAPK)/ERK kinases 1 and 2 (MEK1/2), probably via the phosphorylation of FGFR docking protein FGFR substrate 2a (FRS2a) and its effector Ras/MAPK. The c-Jun N-terminal kinase (JNK), p38-MAPK, and protein kinase C (PKC) were not crucial for the signal transduction, yet were in part responsible for the rate of adipogenic and/or osteogenic differentiation itself, in line with current literature.
Taken together, to the best of our knowledge, our study was the first to describe the strong impact of FGF1 and FGF2 on both the adipogenic and osteogenic differentiation and conversion processes of primary hBMSCs in parallel. It clearly revealed that although both FGFs were not able to promote the differentiation and lineage switching towards the osteogenic fate, they strongly prevented adipogenic differentiation and lineage switching, which seem to be elevated during osteoporosis. Our findings indicate that FGF1 and FGF2 entrapped hBMSCs in a pre-committed state. In conclusion, these agents could be applied to potently prevent unwanted adipogenesis in vitro. Moreover, our results might aid in unraveling a pharmacological control point to eliminate the increased adipogenic differentiation and conversion as potential cause of adipose tissue accumulation and decreased osteoblastogenesis in bone marrow during aging and especially in osteoporosis.
The subject of this thesis is the rigorous passage from discrete systems to continuum models via variational methods.
The first part of this work studies a discrete model describing a one-dimensional chain of atoms with finite range interactions of Lennard-Jones type. We derive an expansion of the ground state energy using \(\Gamma\)-convergence. In particular, we show that a variant of the Cauchy-Born rule holds true for the model under consideration. We exploit this observation to derive boundary layer energies due to asymmetries of the lattice at the boundary or at cracks of the specimen. Hereby we extend several results obtained previously for models involving only nearest and next-to-nearest neighbour interactions by Braides and Cicalese and Scardia, Schlömerkemper and Zanini.
The second part of this thesis is devoted to the analysis of a quasi-continuum (QC) method. To this end, we consider the discrete model studied in the first part of this thesis as the fully atomistic model problem and construct an approximation based on a QC method. We show that in an elastic setting the expansion by \(\Gamma\)-convergence of the fully atomistic energy and its QC approximation coincide. In the case of fracture, we show that this is not true in general. In the case of only nearest and next-to-nearest neighbour interactions, we give sufficient conditions on the QC approximation such that, also in case of fracture, the minimal energies of the fully atomistic energy and its approximation coincide in the limit.
The controlled shaping of ultrashort laser pulses is a powerful technology and applied in many laser laboratories today. Most of the used pulse shapers are only able to produce linearly polarized pulses shaped in amplitude and phase. Some devices are also capable of producing limited time-varying polarization profiles, but they are not able to control the amplitude. However, for some state-of-the-art non-linear time-resolved methods, such as polarization-enhanced two-dimensional spectroscopy, the possibility of controlling the amplitude and the polarization simultaneously is desirable.
Over the last years, different concepts have been developed to overcome these restrictions and to manipulate the complete vector-field of an ultrashort laser pulse with independent control over all four degrees of freedom - phase, amplitude, orientation, and ellipticity. The aim of this work was to build such a vector-field shaper. While the basic concept used for our setup is based on previous designs reported in the literature, the goal was to develop an optimized optical design that minimizes artifacts, allowing for the generation of predefined polarization pulse sequences with the highest achievable accuracy.
In Chapter 3, different approaches reported in the literature for extended and unrestricted vector-field control were examined and compared in detail. Based on this analysis, we decided to follow the approach of modulating the spectral phase and amplitude of two perpendicularly polarized pulses independently from each other in two arms of an interferometer and recombining them to a single laser pulse to gain control over the complete vector field.
As described in Chapter 4, the setup consists of three functional groups: i) an optical component to generate and recombine the two polarized beams, ii) a 4f setup, and iii) a refracting telescope to direct the two beams under two different angles of incidence onto the grating of the 4f setup in a common-path geometry. This geometry was chosen to overcome potential phase instabilities of an interferometric vector-field shaper. Manipulating the two perpendicularly polarized pulses simultaneously within one 4f setup and using adjacent pixel groups of the same liquid-crystal spatial light modulator (LC SLM) for the two polarizations has the advantages that only a single dual-layer LC SLM is required and that a robust and compact setup was achieved. The shaping capabilities of the presented design were optimized by finding the best parameters for the setup through numerical calculations to adjust the frequency distributions for a broad spectrum of 740 – 880 nm. Instead of using a Wollaston prism as in previous designs, a thin-film polarizer (TFP) is utilized to generate and recombine the two orthogonally polarized beams. Artifacts such as angular dispersion and phase distortions along the beam profile which arise when a Wollaston prism is used were discussed. Furthermore, it was shown by ray-tracing simulations that in combination with a telescope and the 4f setup, a significant deformation of the beam profile would be present when using a Wollaston prism since a separation of the incoming and outgoing beam in height is needed. The ray-tracing simulations also showed that most optical aberrations of the setup are canceled out when the incoming and outgoing beams propagate in the exact same plane by inverting the beam paths. This was realized by employing a TFP in the so-called crossed-polarizer arrangement which has also the advantage that the polarization-dependent efficiencies of the TFP and the other optics are automatically compensated and that a high extinction ratio in the order of 15000:1 is reached. Chromatic aberrations are, however, not compensated by the crossed-polarizer arrangement. The ray-tracing simulations confirmed that these chromatic aberrations are mainly caused by the telescope and not by the cylindrical lens of the 4f setup. Nevertheless, in the experimentally used wavelength range of 780 – 816 nm, only minor distortions of the beam profile were observed, which were thus considered to be negligible in the presented setup.
The software implementation of the pulse shaper was reviewed in Chapter 5 of this thesis. In order to perform various experiments, five different parameterizations, accounting for the extended shaping capabilities of a vector-field shaper, were developed. The Pixel Basis, the Spectral Basis, and the Spectral Taylor Basis can generally be used in combination with an optimization algorithm and are therefore well suited for quantum control experiments. For multidimensional spectroscopy, the Polarized Four-Pulse Basis was established. With this parameterization pulse sequences with up to four subpulses can be created. The polarization state of each subpulse can be specified and the relative intensity, phase, and temporal delay between consecutive subpulses can be controlled. In addition, different software programs were introduced in Chapter 5 which are required to perform the experiments conducted in this work.
The experimental results were presented in Chapter 6. The frequency distribution across the LC SLM was measured proving that the optimal frequency distribution was realized experimentally. Furthermore, the excellent performance of the TFP was verified. In general, satellite pulses are emitted from the TFP due to multiple internal reflections. Various measurements demonstrated that these pulses are temporally separated by at least 4.05 ps from the main pulse and that they have vanishing intensity. The phase stability between the two arms of the presented common-path setup σ = 28.3 mrad (λ/222) over 60 minutes. To further improve this stability over very long measurement times, an on-the-fly phase reduction and stabilization (OPRAS) routine utilizing the pulse shaper itself was developed. This routine automatically produces a compressed pulse with a minimized relative phase between the two polarization components. A phase stability of σ = 31.9 mrad (λ/197) over nearly 24 hours was measured by employing OPRAS. Various pulse sequences exceeding the capabilities of conventional pulse shapers were generated and characterized. The experimental results proved that shaped pulses with arbitrary phase, amplitude, and polarization states can be created. In all cases very high agreement between the target parameters and the experimental data was achieved.
For the future use of the setup also possible modifications were suggested. These are not strictly required, but all of them could further improve the performance and flexibility of the setup. Firstly, it was illustrated how a “dual-output” of the setup can be realized. With this modification it would be possible to use the main intensity of the shaped pulse for an experiment while using a small fraction to characterize the pulse or to perform OPRAS simultaneously. Secondly, the basic idea of replacing the telescope by focusing mirrors in order to eliminate the chromatic aberrations was presented. Regarding the different parameterizations for vector-field shaping, some modifications increasing the flexibility of the implemented bases and the realization of a von Neumann Basis for the presented setup were proposed. In future experiments, the vector-field shaper will be used in conjunction with a photoemission electron microscope (PEEM). This approach combines the temporal resolution provided by ultrashort laser pulses with the high spatial resolution gained by electron microscopy in order to perform two-dimensional spectroscopy and coherent control on nanostructures with polarization-shaped femtosecond laser pulses. In combination with other chiral-sensitive experimental setups implemented earlier in our group, the vector-field shaper opens up new perspectives for chiral femtochemistry and chiral control.
The designed vector-field shaper meets all requirements to generate high-precision polarization-shaped multipulse sequences. These can be used to perform numerous polarization-sensitive experiments. Employing the OPRAS routine, a quasi-infinitely long phase stability is achieved and complex and elaborated long-term measurements can be carried out. The fact that OPRAS demands no additional hardware and that only a single dual-layer LC SLM and inexpensive optics are required allows the building of a vector-field shaper at comparatively low costs. We hope that with the detailed insights into the optical design process as well as into the software implementation given in this thesis, vector-field shaping will become a standard technique just as conventional pulse shaping in the upcoming years.
The general map-labeling problem is as follows: given a set of geometric objects to be labeled, or features, in the plane, and for each feature a set of label positions, maximize the number of placed labels such that there is at most one label per feature and no two labels overlap. There are three types of features in a map: point, line, and area features. Unfortunately, one cannot expect to find efficient algorithms that solve the labeling problem optimally.
Interactive maps are digital maps that only show a small part of the entire map whereas the user can manipulate the shown part, the view, by continuously panning, zooming, rotating, and tilting (that is, changing the perspective between a top and a bird view). An example for the application of interactive maps is in navigational devices. Interactive maps are challenging in that the labeling must be updated whenever labels leave the view and, while zooming, the label size must be constant on the screen (which either makes space for further labels or makes labels overlap when zooming in or out, respectively). These updates must be computed in real time, that is, the computation must be so fast that the user does not notice that we spend time on the computation. Additionally, labels must not jump or flicker, that is, labels must not suddenly change their positions or, while zooming out, a vanished label must not appear again.
In this thesis, we present efficient algorithms that dynamically label point and line features in interactive maps. We try to label as many features as possible while we prohibit labels that overlap, jump, and flicker. We have implemented all our approaches and tested them on real-world data. We conclude that our algorithms are indeed real-time capable.
SUMMARY
Insulin-like growth factor I (IGF-I) is a polypeptide with a molecular weight of 7.649 kDa and an anabolic potential. Thereby, IGF-I has a promising therapeutic value e.g. in muscle wasting diseases such as sarcopenia. IGF-I is mainly secreted by the liver in response to growth hormone (GH) stimulation and is rather ubiquitously found within all tissues. The effects of IGF-I are mediated by its respective IGF-I transmembrane tyrosine kinase receptor triggering the stimulation of protein synthesis, glucose uptake and the regulation of cell growth. The actions of IGF-I are modulated by six IGF binding proteins binding and transporting IGF-I in a binary or ternary complex to tissues and receptors and modulating the binding of IGF-I to its receptor. The nature of the formed complexes impacts IGF-I`s half-life, modulating the half-life between 10 minutes (free IGF-I) to 12 - 15 hours when presented in a ternary complex with IGF binding protein 3 and an acid labile subunit (ALS). Therefore, sustained drug delivery systems of free IGF-I are superficially seen as interesting for the development of controlled release profiles, as the rate of absorption is apparently and easily set slower by simple formulation as compared to the rapid rate of elimination. Thereby, one would conclude, the formulation scientist can rapidly develop systems for which the pharmacokinetics of IGF-I are dominated by the formulation release kinetics. However, the in vivo situation is more complex and as mentioned (vide supra), the half-life may easily be prolonged up to hours providing proper IGF-I complexation takes place upon systemic uptake. These and other aspects are reviewed in Chapter I, within which we introduce IGF-I as a promising therapeutic agent detailing its structure and involved receptors along with the resulting signaling pathways. We summarize the control of IGF-I pharmacokinetics in nature within the context of its complex system of 6 binding proteins to control half-life and tissue distribution. Furthermore, we describe IGF-I variants with modulated properties in vivo and originated from alternative splicing. These insights were translated into sophisticated IGF-I delivery systems for therapeutic use. Aside from safety aspects, the challenges and requirements of an effective IGF-I therapy are discussed. Localized and systemic IGF-I delivery strategies, different routes of administration as well as liquid and solid IGF-I formulations are reviewed. Effective targeting of IGF-I by protein decoration is outlined and consequently this chapter provides an interesting guidance for successful IGF-I-delivery. In Chapter II, we firstly outline the stability of IGF-I in liquid formulations with the intention to deliver the biologic through the lung and the impact of buffer type, sodium chloride concentration and pH value on IGF-I stability is presented. IGF-I integrity was preserved in histidine buffer over 4 months at room temperature, but methionine 59 oxidation (Met(o)) along with reducible dimer and trimer formation was observed in an acidic environment (pH 4.5) and using acetate buffer. Strong aggregation resulted in a complete loss of IGF-I bioactivity, whereas the potency was partly maintained in samples showing a slight aggregation and complete IGF-I oxidation. Atomization by air-jet or vibrating-mesh nebulizers yielded in limited Met(o) formation and no aggregation. The results of IGF-I nebulization experiments regarding aerosol output rate, mass median aerodynamic diameter and fine particle fraction were comparable with 0.9% sodium chloride reference, approving the applicability of liquid IGF-I formulations for pulmonary delivery. In Chapter III we escalated the development to solid delivery systems designed for alveolar landing upon inhalation and by deploying trehalose and the newly introduced for pulmonary application silk-fibroin as carriers. Microparticles were produced using nano spray drying following analyses including IGF-I integrity, IGF-I release profiles and aerodynamic properties. In vitro transport kinetics of IGF-I across pulmonary Calu-3 epithelia were suggesting similar permeability as compared to IGF-I’s cognate protein, insulin that has already been successfully administered pulmonary in clinical settings. These in vivo results were translated to an ex vivo human lung lobe model. This work showed the feasibility of pulmonary IGF-I delivery and the advantageous diversification of excipients for pulmonary formulations using silk-fibroin. Chapter IV focuses on an innovative strategy for safe and controllable IGF-I delivery. In that chapter we escalated the development to novel IGF-I analogues. The intention was to provide a versatile biologic into which galenical properties can be engineered through chemical synthesis, e.g. by site directed coupling of polymers to IGF-I. For this purpose we genetically engineered two IGF-I variants containing an unnatural amino acid at two positions, respectively, thereby integrating alkyne functions into the primary sequence of the protein. These allowed linking IGF-I with other molecules in a site specific manner, i.e. via a copper catalyzed azide-alkyne Huisgen cycloaddition (click reaction). In this chapter we mainly introduce the two IGF-I variants, detail the delivery concept and describe the optimization of the expression conditions of the IGF-I variants.
In conclusion, we span from simple liquid formulations for aerolization through solid systems for tailored for maximal alveolar landing to novel engineered IGF-I analogues. Thereby, three strategies for advanced IGF-I delivery were addressed and opportunities and limitations of each were outlined. Evidence was provided that sufficiently stable and easy to manufacture formulations can be developed as typically required for first in man studies. Interestingly, solid systems – typically introduced in later stages of pharmaceutical development – were quite promising. By use of silk-fibroin as a new IGF-I carrier for pulmonary administration, a new application was established for this excipient. The demonstrated success using the ex vivo human lung lobe model provided substantial confidence that pulmonary IGF-I delivery is possible in man. Finally, this work describes the expression of two IGF-I variants containing two unnatural amino acids to implement an innovative strategy for IGF-I delivery. This genetic engineering approach was providing the fundament for novel IGF-I analogues. Ideally, the biologic is structurally modified by covalently linked moieties for the control of pharmacokinetics or for targeted delivery, e.g. into sarcopenic muscles. One future scenario is dicussed in the ‘conclusion and outlook’ section for which IGF-I is tagged to a protease sensitive linker peptide and this linker peptide in return is coupled to a polyethylenglykole (PEG) polymer (required to prolong the half-life). Some proteases may serve as proxy for sarcopenia such that protease upregulation in compromised muscle tissues drives cleavage of IGF-I from the PEG. Thereby, IGF-I is released at the seat of the disease while systemic side effects are minimized.
Protein kinases as targets for the development of novel drugs against alveolar echinococcosis
(2015)
The metacestode larval stage of the fox tapeworm Echinococcus multilocularis is the causative agent of alveolar echinococcosis (AE), one of the most lethal zoonosis of the northern hemisphere. The development of metacestode vesicles by asexual multiplication and the almost unrestricted infiltrative growth within the host organs is ensured from a population of undifferentiated, proliferative cells, so-called germinative cells. AE treatment options include surgery, if possible, as well as Benzimidazole-based chemotherapy (BZ). Given that the cellular targets of BZs, the -tubulins, are highly conserved between cestodes and humans, the chemotherapy is associated with considerable side-effects. Therefore, BZ can only be applied in parasitostatic doses and has to be given lifelong. Furthermore, the current anti-AE chemotherapy is ineffective in eliminating the germinative cell population of the parasite, which leads to remission of parasite growth as soon as therapy is discontinued.
This work focuses on protein kinases involved in the proliferation and development of the parasite with the intention of developing novel anti-AE therapies. Polo-like kinases (Plks) are important regulators of the eukaryotic cell cycle and are involved in the regulation and formation of the mitotic spindles during the M-phase of the cell cycle. Plks have already been shown to be associated with deregulated cellular growth in human cancers and have been investigated as novel drug targets in the flatworm parasite Schistosoma mansoni. In the first part of this work, the characterisation of a novel and druggable parasite enzyme, EmPlk1, which is homologous to the polo-like kinase 1 (Plk1) of humans and S. mansoni (SmPlk1), is presented. Through in situ hybridisation, it could be demonstrated that emplk1 is specifically expressed in the Echinococcus germinative cells. Upon heterologous expression in the Xenopus oocyte system, EmPlk1 induced germinal vesicle breakdown, thus indicating that it is an active kinase. Furthermore, BI 2536, a compound originally designed to inhibit the human ortholog of EmPlk1, inhibited the EmPlk1 activity at a concentration of 25 nM. In vitro treatment of parasite vesicles with similar concentrations of BI 2536 led to the elimination of the germinative cells from Echinococcus larvae, thus preventing the growth and further development of the parasite. In in vitro cultivation systems for parasite primary cells, BI 2536 effectively inhibited the formation of new metacestode vesicles from germinative cells. Thus, BI 2536 has profound anti-parasitic activities in vitro at concentrations well within the range of plasma levels measured after the administration of safe dosages to patients (50 nM after 24 h). This implies that EmPlk1 is a promising new drug target for the development of novel anti-AE drugs that would specifically affect the parasite’s stem cell population, namely the only parasite cells capable of proliferation. In addition to the chemotherapeutic aspects of this work, the inhibitor BI 2536 could be further used to study the function of stem cells in this model organism, utilising a method of injection of parasite stem cells into metacestode vesicles, for instance, as has been developed in this work.
In the second part of this work, a novel receptor tyrosine kinase, the Venus flytrap kinase receptor (EmVKR) of E. multilocularis has been characterised. Members of this class of single-pass transmembrane receptors have recently been discovered in the related trematode S. mansoni and are associated with the growth and differentiation of sporocyst germinal cells and ovocytes. The ortholog receptor in EmVKR is characterised by an unusual domain composition of an extracellular Venus flytrap module (VFT), which shows significant similarity to GABA receptors, such as the GABAB receptor (γ-amino butyric acid type B) and is linked through a single transmembrane domain to an intracellular tyrosine kinase domain with similarities to the kinase domains of human insulin receptors. Based upon the size (5112bp) of emvkr and nucleotide sequence specificities, efforts have been made to isolate the gene from cell culture samples to study the ligand for the activation of this receptor type in Xenopus oocytes. To date, this type of receptor has only been described in invertebrates, thus making it an attractive target for drug screening. In a first trial, the ATP competitive inhibitor AG 1024 was tested in our in vitro cell culture.
In conclusion, the EmVKR represents a novel receptor tyrosine kinase in E. multilocularis. Further efforts have to be made to identify the activating ligand of the receptor and its cellular function, which might strengthen the case for EmVKR as a potential drug target. The successful depletion of stem cells in the metacestode vesicle by the Plk1 inhibitor BI 2536 gives rise to optimising the chemical component for EmPlk1 as a new potential drug target. Furthermore, this inhibitor opens a new cell culture technique with high potential to study the cellular behaviour and influencing factors of stem cells in vitro.
The results of two analyses searching for supersymmetry (SUSY) in data of the ATLAS experiment are presented in this thesis. The data were recorded in proton-proton collisions at the Large Hadron Collider in 2012 at a centre of mass energy of \(\sqrt{s}\)=8 TeV and correspond to an integrated luminosity of 20.3 fb\(^{−1}\). The first search is performed in signatures containing an opposite-sign electron or muon pair, which is compatible with originating from a Z boson decay, in addition to jets and large missing transverse momentum. The analysis targets the production of squarks and gluinos in R-parity conserving (RPC) models with SUSY breaking via General Gauge Mediation (GGM). The main Standard Model (SM) backgrounds are \(t\overline t\), WW, W+t and Z to \(\tau \tau\) processes which are entirely estimated from data using different-flavour events. Besides that, the SM production of Z bosons in association with jets and large fake missing momentum from mismeasurements plays a role and is predicted with the data-driven jet smearing method. Backgrounds from events with fake leptons are estimated with the data-driven matrix method. WZ/ZZ production as well as smaller background contributions are determined from Monte-Carlo simulations. The search observes an excess of data over the SM prediction with a local significance of 3.0 \(\sigma\) in the electron channel, 1.7 \(\sigma\) in the muon channel and 3.0 \(\sigma\) when the two channels are added together. The results are used to constrain the parameters of the GGM model. The second analysis uses the already published results of an ATLAS search for SUSY in events with one isolated electron or muon, jets and missing transverse momentum to reinterpret them in the context of squark and gluino production in SUSY models with R-parity violating (RPV) \(LQ\overline D\)-operators. In contrast to RPC models, the lightest SUSY particle (LSP) is not stable but decays into SM particles. "Standard" analyses often do not consider SUSY models with RPV although they are in principle sensitive to them. The exclusion limits on the squark and gluino mass obtained from the reinterpretation extend up to 1200 GeV. These are the first results by any ATLAS SUSY search which systematically cover a wide range of RPV couplings in the case of prompt LSP decays. However, the analysis is not sensitive to the full parameter space of the \(LQ\overline D\)-model and reveals gaps in the ATLAS SUSY program which have to be closed by dedicated search strategies in the future.
Early life stress, including exposure to prenatal stress (PS), has been shown to affect the developing brain and induce severe effects on emotional health in later life, concomitant with an increased risk for psychopathology. However, some individuals are more vulnerable to early-life stress, while others adapt successfully, i.e. they are resilient and do not succumb to adversity. The molecular substrates promoting resilience in some individuals and vulnerability in other individuals are as yet poorly investigated. A polymorphism in the serotonin transporter gene (5HTT/SLC6A4) has been suggested to play a modulatory role in mediating the effects of early-life adversity on psychopathology, thereby rendering carriers of the lower-expressing short (s)-allele more vulnerable to developmental adversity, while long (l)-allele carriers are relatively resilient. The molecular mechanisms underlying this gene x environment interaction (GxE) are not well understood, however, epigenetic mechanisms such as DNA methylation and histone modifications have been discussed to contribute as they are at the interface of environment and the genome. Moreover, developmental epigenetic programming has also been postulated to underlie differential vulnerability/resilience independent of genetic variation.
The present work comprises two projects investigating the effects of prenatal maternal restraint stress in 5-HTT deficient mice. In the first study, we examined to which extent previously observed changes in behavior and hippocampal gene expression of female 5-Htt+/- prenatally stressed (PS) offspring were associated with changes in DNA methylation patterns. Additionally, we investigated the expression of genes involved in myelination in hippocampus and amygdala of those animals using RT-qPCR. The genome-wide hippocampal DNA methylation screening was performed using methylated-DNA immunoprecipitation (MeDIP) on Affymetrix GeneChip® Mouse Promoter 1.0R arrays. In order to correlate individual gene-specific DNA methylation, mRNA expression and behavior, we used hippocampal DNA from the same mice as assessed before. 5-Htt genotype, PS and their interaction differentially affected the DNA methylation signature of numerous genes, a part of which were also differentially expressed. More specifically, we identified a differentially methylated region in the Myelin basic protein (Mbp) gene, which was associated with Mbp expression in a 5-Htt-, PS- and 5-Htt x PS-dependent manner. Subsequent fine-mapping linked the methylation status of two specific CpG sites in this region to Mbp expression and anxiety-related behavior. We furthermore found that not only the expression of Mbp but of large gene set associated with myelination was affected by a 5-Htt x PS interaction in a brain-region specific manner. In conclusion, hippocampal DNA methylation patterns and expression profiles of female PS 5-Htt+/- mice suggest that distinct molecular mechanisms, some of which are associated with changes in gene promoter methylation, and processes associated with myelination contribute to the behavioral effects of the 5-Htt genotype, PS exposure, and their interaction.
In the second study, we aimed at investing the molecular substrates underlying resilience to PS. For this purpose, we exposed 5-Htt+/+ dams to the same restraint stress paradigm and investigated the effects of PS on depression- and anxiety-like behavior and corticosterone (CORT) secretion at baseline and after acute restraint stress in female 5-Htt+/+ and 5-Htt+/- offspring. We found that PS affected the offspring’s social behavior in a negative manner. When specifically examining those PS animals, we grouped the PS offspring of each genotype into a social, resilient and an unsocial, vulnerable group. While anxiety-like behavior in the EPM was reduced in unsocial, but not social, PS 5-Htt+/+ animals when compared to controls, this pattern could not be found in animals of the other genotype, indicating that social anxiety and state anxiety in the EPM were independent of each other. We then assessed genome-wide hippocampal gene expression profiles using mRNA sequencing in order to identify pathways and gene ontology (GO) terms enriched due to 5-Htt genotype (G), PS exposure (E) and their interaction (GxE) as well as enriched in social, but not unsocial, PS offspring, and vice versa. Numerous genes were affected by 5-Htt genotype, PS and most of all a GxE-interaction. Enrichment analysis using enrichr identified that the genotype affected mitochondrial respiration, while GxE-interaction-affected processes associated primarily with myelination and chromatin remodeling. We furthermore found that 5-Htt+/- mice showed profound expression changes of numerous genes in a genomic region located 10 mio kb upstream of the 5 Htt locus on the same chromosome. When looking at social vs. unsocial mice, we found that a much higher number of genes was regulated in 5 Htt+/- animals than in 5-Htt+/+ animals, reflecting the impact of GxE-interaction. Double the number of genes was regulated in social PS vs. control mice when compared to unsocial PS vs. control in both genotypes, suggesting that the successful adaption to PS might have required more active processes from the social group than the reaction to PS from the unsocial group. This notion is supported by the up-regulation of mitochondrial respiration in social, but not in unsocial, PS 5-Htt+/- mice when compared to controls, as those animals might have been able to raise energy resources the unsocial group was not. Next to this, processes associated with myelination seemed to be down-regulated in social 5-Htt+/- mice, but not in unsocial animals, when compared to controls. Taken together, PS exposure affected sociability and anxiety-like behavior dependent on the 5-Htt genotype in female offspring. Processes associated with myelination and epigenetic mechanisms involved in chromatin remodeling seemed be affected in a GxE-dependent manner in the hippocampus of these offspring. Our transcriptome data furthermore suggest that mitochondrial respiration and, with this, energy metabolism might be altered in 5-Htt+/- offspring when compared to 5-Htt+/+ offspring. Moreover, myelination and mitochondrial respiration might contribute to resilience towards PS exposure in 5-Htt+/- offspring, possibly by affecting brain connectivity and energy capabilities.
The honeybee Apis mellifera is a social insect well known for its complex behavior and the ability to learn tasks associated with central place foraging, such as visual navigation or to learn and remember odor-reward associations. Although its brain is smaller than 1mm² with only 8.2 x 105 neurons compared to ~ 20 x 109 in humans, bees still show amazing social, cognitive and learning skills. They express an age – related division of labor with nurse bees staying inside the hive and performing tasks like caring for the brood or cleaning, and foragers who collect food and water outside the hive. This challenges foragers with new responsibilities like sophisticated navigation skills to find and remember food sources, drastic changes in the sensory environment and to communicate new information to other bees. Associated with this plasticity of the behavior, the brain and especially the mushroom bodies (MBs) - sensory integration and association centers involved in learning and memory formation – undergo massive structural and functional neuronal alterations. Related to this background my thesis on one hand focuses on neuronal plasticity and underlying molecular mechanisms in the MBs that accompany the nurse – forager transition.
In the first part I investigated an endogenous and an internal factor that may contribute to the nurse - forager phenotype plasticity and the correlating changes in neuronal network in the MBs: sensory exposure (light) and juvenile hormone (JH). Young bees were precociously exposed to light and subsequently synaptic complexes (microglomeruli, MG) in the MBs or respectively hemolymph juvenile hormone (JH) levels were quantified. The results show that light input indeed triggered a significant decrease in MG density, and mass spectrometry JH detection revealed an increase in JH titer. Interestingly light stimulation in young bees (presumably nurse bees) triggered changes in MG density and JH levels comparable to natural foragers. This indicates that both sensory stimuli as well as the endocrine system may play a part in preparing bees for the behavioral transition to foraging.
Considering a connection between the JH levels and synaptic remodeling I used gene knockdown to disturb JH pathways and artificially increase the JH level. Even though the knockdown was successful, the results show that MG densities remained unchanged, showing no direct effect of JH on synaptic restructuring.
To find a potential mediator of structural synaptic plasticity I focused on the calcium-calmodulin-dependent protein kinase II (CaMKII) in the second part of my thesis. CaMKII is a protein known to be involved in neuronal and behavioral plasticity and also plays an important part in structural plasticity reorganizing synapses. Therefore it is an interesting candidate for molecular mechanisms underlying MG reorganization in the MBs in the honeybee. Corresponding to the high abundance of CaMKII in the learning center in vertebrates (hippocampus), CaMKII was shown to be enriched in the MBs of the honeybee. Here I first investigated the function of CaMKII in learning and memory formation as from vertebrate work CaMKII is known to be associated with the strengthening of synaptic connections inducing long term potentiation and memory formation. The experimental approach included manipulating CaMKII function using 2 different inhibitors and a specific siRNA to create a CaMKII knockdown phenotype. Afterwards bees were subjected to classical olfactory conditioning which is known to induce stable long-term memory. All bees showed normal learning curves and an intact memory acquisition, short-term and mid-term memory (1 hour retention). However, in all cases long-term memory formation was significantly disrupted (24 and 72 hour retention). These results suggests the necessity of functional CaMKII in the MBs for the induction of both early and late phases of long-term memory in honeybees. The neuronal and molecular bases underlying long-term memory and the resulting plasticity in behavior is key to understanding higher brain function and phenotype plasticity. In this context CaMKII may be an important mediator inducing structural synaptic and neuronal changes in the MB synaptic network.
Eukaryotic cells are considered as evolutionary complex organisms because they possess organelles that enable them to regulate the spatio-temporal organization of cellular processes. Spatio-temporal organization of signal transduction cascades occurs in eukaryotic cells via organization of membrane-associated microdomains or lipid rafts. Lipid rafts are nanoscale-sized domains in the plasma membrane that are constituted by a specific set of lipids and proteins and harbor a number of proteins related to signal transduction and trafficking. The integrity of lipid rafts is important for the assembly and functional coordination of a plethora of signaling networks and associated processes. This integrity is partially mediated by a chaperone protein called flotillin. Disruption of lipid raft integrity, for example via depletion or overproduction of flotillin, alters raft-associated signal transduction cascades and causes severe diseases like Alzheimer’s, Parkinson’s disease or cardiovascular disease.
It was traditionally assumed that a sophisticated compartmentalization of cellular processes like the one exhibited in lipid rafts was exclusive to eukaryotic cells and therefore, lipid rafts have been considered as a hallmark in the evolution of cellular complexity, suggesting that prokaryotic cells were too simple organisms to organize such sophisticated membrane platforms. However, it was recently discovered that bacteria are also able to organize Functional Membrane Microdomains (FMMs) in their cellular membrane that are able to organize and catalyze the functionality of many diverse cellular processes. These FMMs of bacterial membranes contain flotillin-like proteins which play important roles in the organization of FMM-associated cellular processes.
In this dissertation I describe the structural and biological significance of the existence of two distinct flotillin proteins, FloA and FloT, in the FMMs of the bacterial model Bacillus subtilis. Localization studies, proteomic data and transcriptomic analyses show that FloA and FloT are individual scaffold proteins that activate different regulatory programs during bacterial growth. Using the tractable bacterial model system, I show that the functionality of important regulatory proteins, like the protease FtsH or the signaling kinases KinC, PhoR and ResE, is linked to the activity of FMMs and that this is a direct consequence of the scaffold activity of the bacterial flotillins. FloA and FloT distribute heterogeneously along the FMMs of B. subtilis thereby generating a heterogeneous population of FMMs that compartmentalize different signal transduction cascades. Interestingly, diversification of FMMs does not occur randomly, but rather in a controlled spatio-temporal program to ensure the activation of given signaling networks at the right place and time during cell growth.
1) Modern European agricultural landscapes form a patchy mosaic of highly fragmented natural and semi-natural habitat remnants embedded in a matrix of intensively managed agricultural land. In those landscapes many organism frequently cross habitat borders including the crop – non-crop boundary, hereby connecting the biotic interactions of multiple habitat types. Therefore biodiversity and ecosystem functions within habitats are expected to depend on adjacent habitat types and the surrounding landscape matrix. In this thesis the biodiversity of non-crop habitats, and ecosystem services and disservices in crop habitats were studied in the human-dominated agricultural landscape in the district Lower Franconia, Bavaria, Germany. First we examined the effect of adjacent habitat type on species composition, diversity and ecosystem functions in semi-natural calcareous grasslands, a biodiversity-rich habitat of high conservation value (chapter 2 and 3). Second we studied the effect of habitat composition in the landscape on herbivory, biological pest control and yield in oilseed rape fields (chapter 4).
2) We examined the effect of adjacent habitat type on the diversity of carabid beetles in 20 calcareous grasslands using pitfall traps. Half of the grasslands were adjacent to a coniferous forest and half to a cereal crop field. We found different species compositions of carabid beetles depending on adjacent habitat type. In addition calcareous grasslands adjacent to crop fields harboured a higher species richness and activity density but a lower evenness of carabid beetles than calcareous grasslands adjacent to forests. These differences can be explained by the spillover of carabid beetles from the adjacent habitats. After crop harvest carabid beetle activity density in crop fields decreased while in parallel the activity density in the calcareous grasslands adjacent to the crop fields increased, indicating an unidirectional carabid beetle spillover. Our results underline that type and management of adjacent habitats affect community composition and diversity in calcareous grasslands. Therefore nature conservation measures, which focused on the improvement of local habitat quality so far, additionally need to consider adjacent habitat type.
3) In addition to carabid beetle communities we also surveyed predation rates of ground-dwelling predators on the same calcareous grasslands in two study periods (June and late August). As ground-dwelling predators of forests or crop fields can move into adjacent calcareous grasslands we expected different predation rates depending on adjacent habitat type. We exposed in total 32.000 lady bird eggs as prey items on the calcareous grasslands in distances of 5 and 20m from the habitat border. We found higher predation rates on calcareous grasslands adjacent to forests than on calcareous grasslands adjacent to crop fields, but only on cool days. On warm days a very high extent (often 100%) of the exposed prey items were consumed adjacent to both habitat types, which did not allow the detection of possible differences between the adjacent habitat types. Predation rates differed not between the two study periods or the two distances to the habitat edge. The higher predation rates adjacent to forests can be explained by the spillover of ground-dwelling predators from forests into calcareous grasslands. Our results show, that spillover into semi-natural habitats affects ecosystem functioning in addition to species composition and diversity.
4) In chapter 4 of this thesis we examined the effect of spatiotemporal changes in crop cover on pest - natural enemy interactions and crop yields. During two study years we surveyed the abundance of adult and larval pollen beetles, parasitism of pollen beetle larvae by a hymenopteran parasitoid and oilseed rape yields of 36 oilseed rape fields. The surrounding landscape of the fields (1 km radius) differed in the oilseed rape proportion and in the inter-annual change in the oilseed rape proportion since the previous year. We found a dilution effect, i.e. a decreasing abundance with increasing oilseed rape proportions, for pollen beetle larvae and parasitoids in both study years and for adult pollen beetles in one study year. Oilseed rape yields increased with increasing oilseed rape proportions. Inter-annual changes in oilseed rape proportions led to inter-annual crowding and dilution effects for pollen beetles, but had no effect on parasitism or yield. Our results indicate the potential to reduce pest loads and increase yields in intensively managed oilseed rape fields by a coordinated management of the spatiotemporal oilseed rape cover in the landscape.
5) In summary, we showed in this thesis that the biodiversity and functioning of crop and non-crop habitats within agricultural landscapes is affected by the spillover of organisms and thus by the habitat composition in the close surrounding and in the broader landscape context. Spillover affects also ecosystem services and disservices and therefore crop productivity. Thereby the spatial and temporal variation of specific crop types in the landscape can be of particular importance for crop yields. Thus a coordinated landscape wide management can help to optimize both biodiversity conservation and the delivery of ecosystem services and thus crop yields. Future studies integrating landscape effects across several ecosystem functions, multiple taxonomic groups and different crop types are necessary to develop definite landscape management schemes.
Peroxiredoxin 6 (PRDX6) is a bifunctional enzyme comprising a peroxidase and a Ca2+-independent phospholipase (iPLA2) activity. This renders the enzyme capable of detoxifying reactive oxygen species (ROS) and of catalyzing the liberation of arachidonic acid (AA) from cellular membranes. Released AA can be further metabolized to bioactive lipids including eicosanoids, which are involved in inflammation, cell growth, differentiation, invasion and proliferation. Human melanoma cells are often characterized by imbalances in both ROS and lipid levels, which can be generated by oncogenic signaling, altered metabolism or UV irradiation.
In previous studies, a comparative proteome analysis of the Xiphophorus fish melanoma model revealed a strong upregulation of Prdx6 in benign and malignant lesions compared to healthy skin. As the Xiphophorus melanoma model displays in many respects molecular characteristics that are similar to human melanoma, I investigated the functional role of PRDX6 in human melanoma cells.
The first part of the study deals with the regulation of PRDX6 in melanocytes and human melanoma cells. I could demonstrate that the protein level of PRDX6 was strongly enhanced by the induction of the EGFR orthologue Xmrk from the Xiphophorus fish as well as the human EGFR. The upregulation of PRDX6 was further shown to be mediated in a PI3K-dependent and ROS-independent manner.
The main part of the thesis comprises the investigation of the functional role of PRDX6 in human melanoma cells as well as the analysis of the underlying mechanism. I could show that knockdown of PRDX6 enhanced the oxidative stress response and led to decreased proliferation of melanoma cells. This cell growth effect was mainly mediated by the iPLA2 activity of PRDX6. Under conditions of strongly enhanced oxidative stress, the peroxidase activity became also important for cellular proliferation. Furthermore, the anti-proliferative effect in cells with lowered PRDX6 levels was the result of reduced cellular AA content and the decrease in the activation of SRC family proteins. Similarly, supplementation with AA led to regeneration of SRC family kinase activity and to an improvement in the reduced proliferation after knockdown of PRDX6. Since AA can be further processed into the prostaglandin PGE2, which has a pro-tumorigenic function in some cancer types, I further examined whether this eicosanoid is involved in the proliferative function of PRDX6. In contrast to AA, PGE2 was not consistently required for melanoma proliferation.
In summary, I could demonstrate that PRDX6 plays a major role in AA-dependent lipid signaling in melanoma cells and thereby regulates proliferation. Interestingly, the proliferation relevant iPLA2 activity can be pharmacologically targeted, and melanoma cell growth was clearly blocked by the inhibitor BEL. Thus, I could identify the phospholipase activity of PRDX6 as a new therapeutically interesting target for melanoma treatment.
Theoretical Investigations on the Interactions of Small Compounds with their Molecular Environments
(2015)
In the first part of this work, a combination of theoretical methods for the rational design of covalent inhibitor is presented. Starting from the crystal structure of the covalent complex of a lead compound, quantum mechanical and QM/MM calculations were used to derive the exact geometry of the preceeding non-covalent enzyme inhibitor complex. The geometry of the latter mainly determines the reactivity of the inhibitor against its target enzyme concerning the formation of the covalent bond towards an active site residue. Therefore, this geometry was used as starting point for the optimization of the substitution pattern of the inhibitor such as to increase its binding affinity without loosing its ability to covalently bind to the target protein. The optimization of the chemical structure was supported by using docking procedures, which are best suited to estimate binding affinities that arise from the introduced changes. A screening of the novel substitution patterns resulted in a first generation of model compounds which were further tested for their reactivity against the target. Dynamic simulations on the novel compounds revealed that the orientation that compounds adopt within the active site are such that a covalent interaction with the enzyme is no longer possible. Hence, the chemical structure was further modified, including not only changes in the substituents but also within the core of the molecule. Docking experiments have been conducted to assure sufficiently high binding affinities and to obtain the most favored binding poses. Those have then again been used for dynamic simulations which resulted in structures, for which the bond formation process appeared feasible. A final series of QM/MM calculations considering various protonation states was computed to estimate the reaction energies for the covalent attachment of the inhibitor to the enzyme. The theoretical results indicate a reasonable high inhibition potency of the novel compounds.
The second part concentrates on the environmental influences on the electron density of an inhibitor molecule. Therefore, a vinylsulfone-based model compound was selected for which an experimental crystal structure for the pure compound as well as a theoretically determined enzyme-inhibitor complex have been available. To provide reference data for the larger systems, the conformational space of the isolated molecule was screened for favorable geometries which were later compared to those within the crystal and protein surrounding. The geometry of the crystal structure could readily be taken from the experimental data whereas calculations on the protein complex revealed four potential non-covalent complexes exhibiting different arrangements of the molecule within the active site of the protein as well as two possible protonation states of the catalytic dyad. Hence, all four protein complexes have been compared to the crystal structure of the molecule as well as against the more favorable geometries of the isolated molecule being determined within vacuum or aqueous surrounding. Whereas the molecule itself was found to adopt comparable geometries within all investigated environments, the interactions pattern between the crystal surrounding and the protein differed largely from each other. The favorable formation of dimers within the crystal has a strong stabilizing effect and explains the extraordinarily good quality of the crystal. Within the protein however, repulsive forces have been found between the protein and the inhibitor. The origin of the repulsion could be traced back to effect of on of the substituents to the vinyl scaffold. The difference in the chemical structure in comparison to a well known inhibitor might also explain the experimentally found loss of activity for the model compound in comparison to K11777.
The change of day and night is one of the challenges all organisms are exposed to, as they have to adjust their physiology and behavior in an appropriate way. Therefore so called circadian clocks have evolved, which allow the organism to predict these cyclic changes of day and night. The underlying molecular mechanism is oscillating with its endogenous period of approximately 24 hours in constant conditions, but as soon as external stimuli, so called Zeitgebers, are present, the clocks adjust their period to exactly 24h, which is called entrainment. Studies in several species, including humans, animals and plants, showed that light is the most important Zeitgeber synchronizing physiology and behavior to the changes of day and night. Nevertheless also other stimuli, like changes in temperature, humidity or social interactions, are powerful Zeitgebers for entraining the clock. This thesis will focus on the question, how light influences the locomotor behavior of the fly in general, including a particular interest on the entrainment of the circadian clock. As a model organism Drosophila melanogaster was used.
During the last years several research groups investigated the effect of light on the circadian clock and their results showed that several light input pathways to the clock contribute to wild-type behavior. Most of the studies focused on the photopigment Cryptochrome (CRY) which is expressed in about half of the 150 clock neurons in the fly. CRY is activated by light, degrades the clock protein Timeless (TIM) and hence entrains the clock to the light-dark (LD)-cycle resulting from changes of day and night. However, also flies lacking CRY are still able to entrain their clock mechanism as well as their activity-rest-rhythm to LD-cycles, clearly showing that the visual system of the fly also contributes to clock synchronization. The mechanism how light information from the visual system is transferred to the clock is so far still unknown. This is also true for so-called masking-effects which are changes in the behavior of the animal that are directly initiated by external stimuli and therefore independent of the circadian clock. These effects complement the behavior of the animals as they enable the fly to react quickly to changes in the environment even during the clock-controlled rest state.
Both of these behavioral features were analyzed in more detail in this study. On the one hand, we investigated the influence of the compound eyes on the entrainment of the clock neurons and on the other hand, we tried to separate clock-controlled behavior from masking. To do so "nature-like" light conditions were simulated allowing the investigation of masking and entrainment within one experiment. The simulation of moonlight and twilight conditions caused significant changes in the locomotor behavior. Moonlit nights increased nocturnal activity levels and shifted the morning (M) and evening (E) activity bouts into the night. The opposite was true for the investigation of twilight, as the activity bouts were shifted into the day. The simulation of twilight and moonlight within the same experiment further showed that twilight appears to dominate over moonlight, which is in accordance to the assumption that twilight in nature is one of the key signals to synchronize the clock as the light intensity during early dawn rises similarly in every season. By investigating different mutants with impaired visual system we showed that the compound eyes are essential for the observed behavioral adaptations. The inner receptor cells (R7 and R8) are important for synchronizing the endogenous clock mechanism to the changes of day and night. In terms of masking, a complex interaction of all receptor cells seems to adjust the behavioral pattern, as only flies lacking photopigments in inner and outer receptor cells lacked all masking effects. However, not only the compound eyes seem to contribute to rhythmic activity in moonlit nights. CRY-mutant flies shift their E activity bout even more into the night than wild-type flies do. By applying Drosophila genetics we were able to narrow down this effect to only four CRY expressing clock neurons per hemisphere. This implies that the compound eyes and CRY in the clock neurons have antagonistic effects on the timing of the E activity bout. CRY advances activity into the day, whereas the compound eyes delay it. Therefore, wild-type behavior combines both effects and the two light inputs might enable the fly to time its activity to the appropriate time of day.
But CRY expression is not restricted to the clock neurons as a previous study showed a rather broad distribution within the compound eyes. In order to investigate its function in the eyes we collaborated with Prof. Rodolfo Costa (University of Padova). In our first study we were able to show that CRY interacts with the phototransduction cascade and thereby influences visual behavior like phototaxis and optomotor response. Our second study showed that CRY in the eyes affects locomotor activity rhythms. It appears to contribute to light sensation without being a photopigment per se. Our results rather indicate that CRY keeps the components of the phototransduction cascade close to the cytoskeleton, as we identified a CRY-Actin interaction in vitro. It might therefore facilitate the transformation of light energy into electric signals.
In a further collaboration with Prof. Orie Shafer (University of Michigan) we were able to shed light on the significance of the extraretinal Hofbauer-Buchner eyelet for clock synchronization. Excitation of the eyelet leads to Ca2+ and cAMP increases in specific clock neurons, consequently resulting in a shift of the flies´ rhythmic activity.
Taken together, the experiments conducted in this thesis revealed new functions of different eye structures and CRY for fly behavior. We were furthermore able to show that masking complements the rhythmic behavior of the fly, which might help to adapt to natural conditions.
In the field of spintronics, spin manipulation and spin transport are the main principles that need to be implemented. The main focus of this thesis is to analyse semiconductor systems where high fidelity in these principles can be achieved. To this end, we use numerical methods for precise results, supplemented by simpler analytical models for interpretation.
The material system of 2D topological insulators, HgTe/CdTe quantum wells, is interesting not only because it provides a topologically distinct phase of matter, physically manifested in its protected transport properties, but also since within this system, ballistic transport of high quality can be realized, with Rashba spin-orbit coupling and electron densities that are tunable by electrical gating. Extending the Bernvevig-Hughes-Zhang model for 2D topological insulators, we derive an effective four-band model including Rashba spin-orbit terms due to an applied potential that breaks the spatial inversion symmetry of the quantum well. Spin transport in this system shows interesting physics because the effects of Rashba spin-orbit terms and the intrinsic Dirac-like spin-orbit terms compete. We show that the resulting spin Hall signal can be dominated by the effect of Rashba spin-orbit coupling. Based on spin splitting due to the latter, we propose a beam splitter setup for all-electrical generation and detection of spin currents. Its working principle is similar to optical birefringence. In this setup, we analyse spin current and spin polarization signals of different spin vector components and show that large in-plane spin polarization of the current can be obtained. Since spin is not a conserved quantity of the model,
we first analyse the transport of helicity, a conserved quantity even in presence of Rashba spin-orbit terms. The polarization defined in terms of helicity is related to in-plane polarization of the physical spin.
Further, we analyse thermoelectric transport in a setup showing the spin Hall effect. Due to spin-orbit coupling, an applied temperature gradient generates a transverse spin current, i.e. a spin Nernst effect, which is related to the spin Hall effect by a Mott-like relation. In the metallic energy regimes, the signals are qualitatively explained by simple analytic models. In the insulating regime, we observe a spin Nernst signal that originates from the finite-size induced overlap of edge states.
In the part on methods, we discuss two complementary methods for construction of effective semiconductor models, the envelope function theory and the method of invariants. Further, we present elements of transport theory, with some emphasis on spin-dependent signals. We show the connections of the adiabatic theorem of quantum mechanics to the semiclassical theory of electronic transport and to the characterization of topological phases. Further, as application of the adiabatic theorem to a control problem, we show that universal control of a single spin in a heavy-hole quantum dot is experimentally realizable without breaking time reversal invariance,
but using a quadrupole field which is adiabatically changed as control knob. For experimental realization, we propose a GaAs/GaAlAs quantum well system.
In this work, Emilio de’ Cavalieri’s musical sources will serve as a platform in an attempt to overcome the lack of explicit original guidance and guidelines of performance practice of early basso continuo. It will offer a methodology that will allow the unraveling of implicit theory and practice hidden in the music sources themselves. The methodology of this work is based on the fact that Cavalieri’s Rappresentatione di Anima e di Corpo (Rome, 1600) is printed using a unique continuo notation, which is detailed, precise, and coherent—more so than any other contemporaneous printed source. Through thorough investigation of this continuo notation, it will be possible to enrich our practical as well as theoretical knowledge of the early basso continuo. A wide range of evidences will emerge, covering a wide spectrum, from general questions of instrumentation up to the very notes that should be played. Using a special notation for illustration, I will demonstrate how Cavalieri’s basso continuo figuration, when combined with the known rules of counterpoint, is at times equivalent to written-out realizations.
As part of this study, different models of contrapuntal phenomena will be analyzed, mainly in the context of cadences but also in the context of other progressions that deserve to be recognized as formulas. Their theoretical structure will be uncovered as well as their actual application in music and their manner of execution. The prevalence of each phenomenon will be examined in order to distinguish common and recurrent phenomena from rarely-used formulas. In order to do this, and due to problematic historical terminology, it will be necessary to create a set of new terms inspired by Cavalieri’s notation. Those terms will not be solely relevant to Cavalieri’s music; the models were made flexible so that they may prove useful for future discussions or studies of early continuo in general.
Out of the known early basso continuo sources, a “mini-compendium” of practical implications will be extracted in order to exhaust the practical knowledge implicit in them. This endeavor will be concluded with a list of rules and general advice drawn from the sources, but it will also reveal some problematic aspects of these sources.
This endeavor will make it possible to compare the “new” implicit practical information deduced in this study with the explicit known continuo sources, and assess to what extant Cavalieri’s continuo practices illuminate and complement the known knowledge from previously-studied yet opaque sources of basso continuo.
The focus of this dissertation is on Cavalieri’s music, but the findings proposed here will be traced so as to illuminate the broader realm of the early Baroque and the 17th century musical style at large. Finally, this new research about Cavalieri’s music and continuo, along reevaluating of its place among the common continuo sources, calls for redistribution of source materials on the traditional “shelf” of early basso continuo sources.
In this work, Emilio de’ Cavalieri’s musical sources will serve as a platform in an attempt to overcome the lack of explicit original guidance and guidelines of performance practice of early basso continuo. It will offer a methodology that will allow the unraveling of implicit theory and practice hidden in the music sources themselves. The methodology of this work is based on the fact that Cavalieri’s Rappresentatione di Anima e di Corpo (Rome, 1600) is printed using a unique continuo notation, which is detailed, precise, and coherent—more so than any other contemporaneous printed source. Through thorough investigation of this continuo notation, it will be possible to enrich our practical as well as theoretical knowledge of the early basso continuo. A wide range of evidences will emerge, covering a wide spectrum, from general questions of instrumentation up to the very notes that should be played. Using a special notation for illustration, I will demonstrate how Cavalieri’s basso continuo figuration, when combined with the known rules of counterpoint, is at times equivalent to written-out realizations.
As part of this study, different models of contrapuntal phenomena will be analyzed, mainly in the context of cadences but also in the context of other progressions that deserve to be recognized as formulas. Their theoretical structure will be uncovered as well as their actual application in music and their manner of execution. The prevalence of each phenomenon will be examined in order to distinguish common and recurrent phenomena from rarely-used formulas. In order to do this, and due to problematic historical terminology, it will be necessary to create a set of new terms inspired by Cavalieri’s notation. Those terms will not be solely relevant to Cavalieri’s music; the models were made flexible so that they may prove useful for future discussions or studies of early continuo in general.
Out of the known early basso continuo sources, a “mini-compendium” of practical implications will be extracted in order to exhaust the practical knowledge implicit in them. This endeavor will be concluded with a list of rules and general advice drawn from the sources, but it will also reveal some problematic aspects of these sources.
This endeavor will make it possible to compare the “new” implicit practical information deduced in this study with the explicit known continuo sources, and assess to what extant Cavalieri’s continuo practices illuminate and complement the known knowledge from previously-studied yet opaque sources of basso continuo.
The focus of this dissertation is on Cavalieri’s music, but the findings proposed here will be traced so as to illuminate the broader realm of the early Baroque and the 17th century musical style at large. Finally, this new research about Cavalieri’s music and continuo, along reevaluating of its place among the common continuo sources, calls for redistribution of source materials on the traditional “shelf” of early basso continuo sources.
The increasing importance of environmental friendly and efficient transportation guides the interest of researchers and car manufacturers towards the development of technologies that support an efficient driving style.
This thesis presents the development of a traffic light assistance system with the focus on human factors. The system aims on supporting drivers in approaching traffic light intersections efficiently. In three driving simulator studies, the content related research covered the investigation of the unassisted driving task, the influence of the system on the driver’s perception of the interaction with other road users and the information strategy of the human machine interface. When the traffic light phase changes or when visibility is limited, drivers prepare driving behaviour that is not appropriate for the traffic light phase at arrival at the intersection. These situations offer the greatest potential for the assistance system. The traffic light assistant is able to change driving behaviour. However, the expectation of other road user’s emotional reactions influences driver compliance. In situations in which drivers expected to bother others with their driving behaviour, compliance to the traffic light assistant was low. Further, the deviations of driver behaviour from the target strategy of the traffic light assistant are lowest when the HMI includes the two information units target speed and action recommendations. Traffic light phase information in the HMI is a subjectively important information for drivers. The results point towards the presentation of all three information units.
The method related research covered the development of a method for measuring drivers’ information demand for dynamic stimuli. While driving, specific stimuli are action relevant for drivers, i.e. they need to be processed in order to decide on the appropriate driving behaviour. Eye tracking has been the standard method for measuring information demand while driving. The novel MARS (Masking Action Relevant Stimuli) method measures information demand by masking the dynamic action relevant stimulus in the driving environment or in the vehicle. To unmask the stimulus for a fixed interval, drivers press a button at the steering wheel. In the present thesis, two driving simulator studies evaluated the MARS method. They included measuring information demand for the traffic light phasing and the in-vehicle display of the traffic light assistant. The analyses demonstrate that variations in the experimental conditions influence the information demand measured with the MARS method qualitatively similar to the influences on fixations measured by eye tracking. Due to its simple application, the MARS method represents a promising tool for transportation research.
Bariatric surgery represents the first-line treatment for morbid obesity, resulting in weight loss and improved diabetes control. The positive effect of bariatric surgery on type-2 diabetes is unclear. Increased secretion of insulin regulating enterohormone glucagon-like-peptide 1 (GLP-1) has been observed in rats with experimental type 2-like diabetes following duodenal-jejunal bypass (DJB) and ileal transposition (IT). Sodium dependent glucose co-transporter (SGLT1) is involved in the secretion of GLP-1 that in turn regulates insulin secretion. In the present study, an attempt was made to elucidate the impact of DJB and IT on SGLT1 mediated glucose transport. Transport measurements using phlorizin inhibited uptake of SGLT1-specific glucose analogue [14C] α-Methyl-D-glucopyranoside (AMG) were performed to determine the changes in SGLT1 transport upon these surgical procedures. The data indicated that DJB decreased SGLT1-mediated glucose absorption in the small intestine which contributes to the body-weight independent improvement of type 2 diabetes. However, IT did not change the SGLT1-mediated glucose transport. Immunohistochemical analysis revealed that in IT, the transposed ileum showed increased diameter, increased villi length and increased number of GLP-1 secreting L-cells. The weight-independent improvement in glycemic control after IT is not related to SGLT1-mediated glucose absorption but may be linked to increased GLP-1 secretion.
Along with this, the study also focused on the regulation of SGLT1 by several RS1 derived tripeptides in mouse and human intestinal tissues (ex vivo). Phlorizin inhibited uptake of AMG was measured without and with tripeptides. QEP and thiophosphorylated QSP down-regulated SGLT1 activity in small intestine in a concentration-dependent manner. Among the tested tripeptides, QEP showed higher activity and further analysis in various species demonstrated its universal role in SGLT1 regulation. The data thus indicates that RS1 derived tripeptides QEP and thiophosphorylated QSP may be employed for the treatment of type 2 diabetes.
Measles, mumps and rubella are viral infectious diseases that may cause severe and devastating complications among affected individuals. The disease burden of all three diseases is high, but could be reduced entirely through successful vaccination strategies. As such, the WHO has established the goal of globally eliminating measles and rubella and concomitantly controlling the frequently co-vaccinated mumps.
In 2010, the WHO European Region member states agreed to strengthen efforts to eliminate measles and rubella from Europe by the end of 2015. As this date draws closer, progress analyses become increasingly relevant. In this systematic literature review, the immunization strategies, vaccination coverages and disease incidences of eleven European nations were assessed and their progress towards disease elimination evaluated.
Successful prevention of the endemic transmission of measles, mumps, or rubella could be achieved in several nations, including Sweden, Croatia, Greece and Spain. Austria, France, Germany, Italy, Poland, Turkey and the United Kingdom of Great Britain and Northern Ireland, though having improved their overall immunization rates, have not yet been able to reach the elimination goals. In Turkey, Italy and Poland, sharp increases in case numbers during recent years are potentially threatening the successful measles, mumps and rubella control in Europe.
Pockets of susceptible population groups that may contribute to the perpetuation of the diseases have been identified. They include infants and young children, adolescents and young adults, adolescent and adult males, recent immigrants and refugees,and traveling ethnic minority groups. Reasons for the increased risk of infection among these groups are manifold and a result of various historic and current vaccination practices, cultural, political and religious differences, as well as individual believes and concerns. Travel and migration of infected individuals to and between the various European nations also play an essential role in the continual transmission of measles, mumps and rubella in Europe. Only an adequate population-wide immunity can prevent the occurrence of major outbreaks due to viral importation. Efforts should therefore be made to immunize all population members able to receive vaccinations and to offer additional immunization opportunities to those susceptible population subgroups that are difficult to reach through routine vaccination programs.
In countries struggling to meet the WHO elimination goals, alternative immunization practices may be necessary. A uniform, European-wide MMR vaccination schedule based on the successful immunization methods of countries that have eliminated measles, mumps and rubella may be an effective tool for improving the overall population-wide immunity and controlling the three diseases. A model for such a schedule was created and includes strategies for reaching population members regardless of age, gender or migratory background. The implementation of uniform immunization recommendations is challenging, but the advantages in terms of improved vaccination, surveillance and disease control methods may be worth at least considering such a strategy in Europe.
Measles, mumps and rubella elimination may be attainable in the WHO European Region. The current epidemiological situation suggests that the goal is unlikely to be reached by the end of 2015, but through continued international efforts and collaboration, effective disease control could be achieved in the near future. In the meantime, improvements in immunization strategies, vaccination coverages, supplementary campaigns as well as disease notification systems and confirmations should be made on a national and international level, so that an adequate population-wide immunity can be established and the disease elimination progresses effectively monitored within the entire European region.
The presented work in the field of supramolecular chemistry describes the synthesis and detailed investigation of (bi)pyridine-based oligo(phenylene ethynylene) (OPE) amphiphiles, decorated with terminal glycol chains. The metal-ligating property of these molecules could be exploited to coordinate to Pd(II) and Pt(II) metal ions, respectively, resulting in the creation of novel metallosupramolecular π-amphiphiles of square-planar geometry.
The focus of the presented studies is on the self-assembly behaviour of the OPE ligands and their corresponding metal complexes in polar and aqueous environment. In this way, the underlying aggregation mechanism (isodesmic or cooperative) is revealed and the influence of various factors on the self-assembly process in supramolecular systems is elucidated. In this regard, the effect of the molecular design of the ligand, the coordination to a metal centre as well as the surrounding medium, the pH value and temperature is investigated.
Over the last decade, the field of topological insulators has become one of the most vivid areas in solid state physics. This novel class of materials is characterized by an insulating bulk gap, which, in two-dimensional, time-reversal symmetric systems, is closed by helical edge states. The latter make topological insulators promising candidates for applications in high fidelity spintronics and topological quantum computing. This thesis contributes to bringing these fascinating concepts to life by analyzing transport through heterostructures formed by two-dimensional topological insulators in contact with metals or superconductors. To this end, analytical and numerical calculations are employed. Especially, a generalized wave matching approach is used to describe the edge and bulk states in finite size tunneling junctions on the same footing.
The numerical study of non-superconducting systems focuses on two-terminal metal/topological
insulator/metal junctions. Unexpectedly, the conductance signals originating from the bulk and
the edge contributions are not additive. While for a long junction, the transport is determined
purely by edge states, for a short junction, the conductance signal is built from both bulk and
edge states in a ratio, which depends on the width of the sample. Further, short junctions show
a non-monotonic conductance as a function of the sample length, which distinguishes the topologically non-trivial regime from the trivial one. Surprisingly, the non-monotonic conductance of the topological insulator can be traced to the formation of an effectively propagating solution, which is robust against scalar disorder.
The analysis of the competition of edge and bulk contributions in nanostructures is extended to transport through topological insulator/superconductor/topological insulator tunneling junctions. If the dimensions of the superconductor are small enough, its evanescent bulk modes
can couple edge states at opposite sample borders, generating significant and tunable crossed
Andreev reflection. In experiments, the latter process is normally disguised by simultaneous
electron transmission. However, the helical edge states enforce a spatial separation of both competing processes for each Kramers’ partner, allowing to propose an all-electrical measurement
of crossed Andreev reflection.
Further, an analytical study of the hybrid system of helical edge states and conventional superconductors in finite magnetic fields leads to the novel superconducting quantum spin Hall effect. It is characterized by edge states. Both the helicity and the protection against scalar disorder of these edge states are unaffected by an in-plane magnetic field. At the same time its superconducting gap and its magnetotransport signals can be tuned in weak magnetic fields, because the combination of helical edge states and superconductivity results in a giant g-factor. This is manifested in a non-monotonic excess current and peak splitting of the dI/dV characteristics as a function of the magnetic field. In consequence, the superconducting quantum spin Hall effect is an effective generator and detector for spin currents.
The research presented here deepens the understanding of the competition of bulk and edge
transport in heterostructures based on topological insulators. Moreover it proposes feasible experiments to all-electrically measure crossed Andreev reflection and to test the spin polarization of helical edge states.
The main objective of this thesis was the design and synthesis of perylene bisimide dyes with sufficient water-solubility for the construction of self-assembled architectures in aqueous solutions. Beside these tasks another goal of this project was the control over the self-assembly process in terms of aggregate size and helicity, respectively. Within this thesis an appropriate synthesis for spermine-functionalized perylene bisimide dyes was developed and conducted successfully. The characterization of these building blocks and their course of self-assembly were investigated by NMR, UV/Vis and fluorescence spectroscopy as well as by atomic force and transmission electron microscopy. For the better understanding of the experimental results theoretical calculations were performed.
The impact of acquired severe motor impairments is pervasive and may lead to a complete loss of communication and voluntary motor control, rendering the patient behaviourally unresponsive. In routine clinical care it may thus be unclear, whether some of these patients are even conscious. Given that finding a cure is unlikely, care focuses on providing the best possible quality of life (QoL), and knowing its predictors might contribute to that aim. Patients who still can communicate often report a high QoL, and several predictors have been identified. However, many instruments used to assess QoL require at least residual verbal and motor abilities. Thus, a method to assess QoL independent of these requirements is desirable. In addition, many instruments assume QoL to be temporarily stable, and little information is available on predictors of instantaneous QoL, i.e. QoL as it fluctuates from moment to moment throughout the day.
Development Of Three-Dimensional Liver Models For Drug Development And Therapeutical Applications
(2015)
Primary human liver cells such as hepatocytes when isolated and cultured in 2D monolayers, de-differentiate and lose their phenotypic characteristics. In order to maintain the typical polygonal shape of the hepatocytes and their polarization with respect to the neighbouring cells and extra cellular matrix (ECM), it is essential to culture the cells in a three-dimensional (3D) environment. There are numerous culturing techniques available to retain the 3D organization including culturing hepatocytes between two layers of collagen and/or MatrigelTM (Moghe et al. 1997) or in 3D scaffolds (Burkard et al. 2012).
In this thesis, three different 3D hepatic models were investigated.
1. To reflect the in vivo situation, the hepatocytes were cultured in 3D synthetic scaffolds called Mimetix®. These were generated using an electrospinning technique using biodegradable polymers. The scaffolds were modified to increase the pore size to achieve an optimal cell function and penetration into the scaffolds, which is needed for good cell-cell contact and to retain long-term phenotypic functions. Different fibre diameters, and scaffold thicknesses were analyzed using upcyte® hepatocytes. The performance of upcyte® hepatocytes in 3D scaffolds was determined by measuring metabolic functions such as cytochrome P450 3A4 (CYP3A4) and MTS metabolism.
2. Apart from maintaining the hepatocytes in 3D orientation, co-culturing the hepatocytes with other non-parenchymal cell types, such as liver sinusoidal endothelial cells (LSECs) and mesenchymal stem cells (MSCs), better reflects the complexity of the liver. Three different upcyte® cell types namely, hepatocytes, LSECs and MSCs, were used to generated 3D liver organoids. The liver organoids were generated and cultured in static and dynamic conditions. Dynamic conditions using Quasi-vivo® chambers were used to reflect the in vivo blood flow. After culturing the cells for 10 days, the structural orientation of cells within the organoids was analyzed. Functional integrity was investigated by measuring CYP3A4 activities. The organoids were further characterized using in situ hybridization for the expression of functional genes, albumin and enzymes regulating glutamine and glucose levels.
3. An ex vivo bioreactor employing a decellularized organic scaffold called a “Biological Vascularized Scaffold” (BioVaSc) was established. Jejunum of the small intestine from pigs was chemically decellularized by retaining the vascular system. The vascular tree of the
BioVaSc was repopulated with upcyte® microvascular endothelial cells (mvECs). The lumen of the BioVaSc was then used to culture the liver organoids generated using upcyte® hepatocytes, LSECs and MSCs. The structural organisation of the cells within the organoids was visualized using cell-specific immunohistochemical stainings. The performance of liver organoids in the BioVaSc was determined according to metabolic functions (CYP3A4 activities).
This thesis also addresses how in vitro models can be optimized and then applied to drug development and therapy.
A comprehensive evaluation was conducted to investigate the application of second-generation upcyte® hepatocytes from 4 donors for inhibition and induction assays, using a selection of reference inhibitors and inducers, under optimized culture conditions. CYP1A2, CYP2B6, CYP2C9 and CYP3A4 were reproducibly inhibited in a concentration-dependent manner and the calculated IC50 values for each compound correctly classified them as potent inhibitors. Upcyte® hepatocytes were responsive to prototypical CYP1A2, CYP2B6, CYP2C9 and CYP3A4 inducers, confirming that they have functional AhR, CAR and PXR mediated CYP regulation. A panel of 11 inducers classified as potent, moderate or non-inducers of CYP3A4 and CYP2B6 were tested. Three different predictive models for CYP3A4 induction, namely the Relative Induction Score (RIS), AUCu/F2 and Cmax,u/Ind50 were analyzed. In addition, PXR (rifampicin) and CAR-selective (carbamazepine and phenytoin) inducers of CYP3A4 and CYP2B6 induction, respectively, were also demonstrated.
Haemophilia A occurs due to lack of functional Factor VIII (FVIII) protein in the blood. Different types of cells from hepatic and extrahepatic origin produce FVIII. Supernatants harvested from primary LSECs were evaluated for the presence of secreted functional FVIII. In order to increase the FVIII production, different upcyte® endothelial cells such as blood outgrowth endothelial cells (BOECs), LSECs and mvECs were transduced with lentiviral particles carrying a FVIII transgene. Also, to reflect a more native situation, primary mvECs were selected and modified by transducing them with FVIII lentivirus and investigated as a potential method for generating this coagulation factor.
While numerous experiments on NFAT were already performed with CD4+ T cells showing defective cytokine release and a reduced T helper cell development, no detailed studies existed for CD8+ T cells. From this point, we wanted to examine the impact of NFATc1 and c2 on the physiological functions of CD8+ T cells in vitro and in vivo. Therefore, we used a murine infection model with the bacteria Listeria monocytogenes and mice in which NFATc1 was specifically depleted in the T cell compartment.
Our first in vitro studies showed a typical NFATc1 and c2 nuclear translocation and changes on mRNA levels upon T cell activation similarly in CD4+ as well as in CD8+ T cells extracted from wild type mice. NFAT nuclear translocation is important for target gene activation and generation of effector functions. Stimulated T cell populations lacking NFATc1 and/or NFATc2 showed a markedly decreased expression of Th1/Tc1 cytokines, as e.g. IL 2 and IFNγ being important for the clearance of intracellular pathogens. From our in vitro model for the generation of allogenically reactive cytotoxic CD8+ T cells, we revealed a decreased killing and lytic granule-release capacity in Nfatc1 inactivated CD8+ T cells whereas NFATc2-/- cytotoxic T cells did not show an altered cytotoxic response compared to wild type cells.
Interestingly, we found lytic granules accumulated and mitochondria not getting translocated to the immunological synapse upon re-stimulation in NFATc1-deficient CD8+ T cells. Together with results showing the CsA insensitivity of the CTL killing/degranulation capacities, we assume that some major cellular processes are affected by NFATc1 which are not directly linked to the TCR-induced signal transduction cascade.
We also showed the importance of NFATc1 in T cells during intracellular infections with the bacteria Listeria monocytogenes in an in vivo mouse model. After five days, only few bacteria were detected in wt mice whereas high amounts of Listeria particles were extracted from livers of Nfatc1fl/fl x Cd4 cre mice. Although the reactivity towards the pathogen was similar in both groups, a decreased cytokine expression in NFATc1-/- CD8+ T cells was observed together with an altered memory cell generation.
Our results show the importance of NFATc1 in CD8+ T cells and give some clue for a possible connection to other basal cellular functions, as e.g. the formation of an immunological synapse.
More and more newly registered drugs are proteins. Although many of them suffer from instabilities in aqueous media, the most common way of protein drug administration still is the injection of a solution. Numerous protein drugs require frequent administration, but suitable controlled release systems for proteins are rare. Chapter 1 presents current advances in the field of controlled delivery of particulate protein formulations. While the main focus lies on batch crystallized proteins, amorphous particulate proteins are also discussed in this work. The reason is that, on the one hand precipitated protein particles hold some of the advantages of crystalline proteins and on the other hand the physical state of the protein may simply be unknown for many drug delivery systems or semi-crystalline particles have been used. Crystallization and precipitations methods as well as controlled delivery methods with and without encapsulation in a polymeric delivery system are summarized and critically discussed.
In chapter 2 a novel way of protein crystal encapsulation by electrospinning is introduced. Electrospinning of proteins has been shown to be challenging via the use of organic solvents, frequently resulting in protein unfolding or aggregation. Encapsulation of protein crystals represents an attractive but largely unexplored alternative to established protein encapsulation techniques because of increased thermodynamic stability and improved solvent resistance of the crystalline state. We herein explore the electrospinning of protein crystal suspensions and establish basic design principles for this novel type of protein delivery system. Poly-ε-caprolactone (PCL) is an excellent polymer for electrospinning and matrix-controlled drug delivery combining optimal processability and good biocompatibility. PCL was deployed as a matrix, and lysozyme was used as a crystallizing model protein. By rational combination of lysozyme crystals with a diameter of 0.7 or 2.1 μm and a PCL fiber diameter between 1.6 and 10 μm, release within the first 24 h could be varied between approximately 10 and 100%. Lysozyme loading of PCL microfibers between 0.5 and 5% was achieved without affecting processability. While relative release was unaffected by loading percentage, the amount of lysozyme released could be tailored. PCL was blended with poly(ethylene glycol) and poly(lactic-co-glycolic acid) to further modify the release rate. Under optimized conditions, an almost constant lysozyme release over 11 weeks was achieved.
Chapter 3 takes on the findings made in chapter 2 and further modifies the properties of the nonwovens as protein crystal delivery system. Nonwoven scaffolds consisting of poly-ε-caprolactone (PCL), poly(lactic-co-glycolic acid) (PLGA) and polidocanol (PD), and loaded with lysozyme crystals were prepared by electrospinning. The composition of the matrix was varied and the effect of PD content in binary mixtures, and of PD and PLGA content in ternary mixtures regarding processability, fiber morphology, water sorption, swelling and drug release was studied. Binary PCL/PD blend nonwovens showed a PD-dependent increase in swelling of up to 30% and of lysozyme burst release of up to 45% associated with changes of the fiber morphology. Furthermore, addition of free PD to the release medium resulted in a significant increase of lysozyme burst release from pure PCL nonwovens from approximately 2% to 35%. Using ternary PCL/PD/PLGA blends, matrix degradation could be significantly improved over PCL/PD blends, resulting in a biphasic release of lysozyme with constant release over 9 weeks, followed by constant release with a reduced rate over additional 4 weeks. Based on these results, protein release from PCL scaffolds is improved by blending with PD due to improved lysozyme desorption from the polymer surface and PD-dependent matrix swelling.
Chapter 4 gives deeper insight on lysozyme batch crystallization and shows the influences of the temperature on the precipitation excipients. Yet up to now protein crystallization in a pharmaceutical useful scale displays a challenge with crystal size and purity being important but difficult to control parameters. Some of these influences are being discussed here and a detailed description of crystallization methods and the achieved crystals are demonstrated.
Therapeutic use of such protein crystals may require further modification of the protein release rate through encapsulation. Silk fibroin (SF) harvested from the cocoons of Bombyx mori is a well-established protein suitable for encapsulation of small molecules as well as proteins for controlled drug delivery. This novel polymer was deployed for as carrier for the model drug crystals. Lysozyme again was used as a crystallizable protein and the effect of process- as well as formulation parameters of batch crystallization on crystal size were investigated using statistical design of experiments. Lysozyme crystal size depended on temperature and sodium chloride and poly(ethylenglycol) concentration of precipitant solution. Under optimized conditions, lysozyme crystals in a size range of approximately 0.3 to 10 µm were obtained. Furthermore, a solid-in-oil-in-water process for encapsulation of lysozyme crystals into SF was developed. Using this process, coating of protein crystals with another protein was achieved for the first time. Encapsulation resulted in a significant reduction of dissolution rate of lysozyme crystals, leading to prolonged release over up to 24 hours.
Genome wide association studies (GWAS) have identified Clec16a as disease suscepti-bility gene for numerous auto-immune disorders in particular type 1 diabetes. In spite of this strong genetic link, the role of Clec16a for immune regulation continues to be largely unknown. To study the function of Clec16a in an environment susceptible to autoimmune diseases a Clec16a deficient non obese diabetic (NOD) mouse strain was generated by means of lentiviral RNA interference. Clec16a knock down (KD) mice prove to be strongly protected against developing type 1 diabetes, an effect that is mediated by hyporeactive T effector cells. T cell hyporeactivity seems to result from an impairment of proximal TCR signalling and its cause is likely to be external to T cells. Given evidence on the involvement of the Clec16a Drosophila ortholog ema in endo- and autophagosomal processes, alterations in peripheral and/or central antigen presenting cells appeared to be potential reasons for the observed T cell hyporeactivity. While we are not able to identify any changes in quantity and quality of peripheral antigen presenting cells due to Clec16a silencing activation status of thymic epithelial cells in Clec16a KD mice deviates from NOD WT. The findings presented here suggest that thymic T cell development is affected by Clec16a variation. Such a relationship could explain the genetic association between Clec16a variations in humans and susceptibility to immune-mediated diseases, yet further investigations are needed to confirm this notion.
The aim of the present thesis is to explore the potential of X-ray magnetic circular dichroism(XMCD) experiments on gaining new insights into Kondo and heavy fermion materials. XMCD, which is derived from X-ray absorption spectroscopy (XAS), allows probing magnetic polarization specific to the different elements in a material and to their atomic orbitals. In particular, at the Ce M4,5 edges the method is sensitive to the localized 4f level, which provides the magnetic impurity moment responsible for Kondo physics in Ce compounds. Hence, Ce M4,5 XMCD is ideally suited to investigate local magnetism in the presence of interaction of impurity and conduction electrons in such materials.
As a model material, CePt5/Pt(111) surface intermetallics were chosen for the present study. This thin-film material can be prepared by well-defined procedures involving molecular beam epitaxy. Crystalline Ordered samples are obtained by exploiting the single-crystallinity of the Pt(111) substrate. The surface character of thin films ideally matches the probing depth of soft X-ray spectroscopy in the total electron yield mode.
The XMCD and XAS experiments, taking into account dependence on temperature, angle of incidence, sample thickness and external magnetic field, revealed the presence of four relevant energy scales that influence the magnetic response:
1. The 4f level in CePt5/Pt(111) is subject to significant crystal field (CF) splitting, which leads to reorganization of the six j = 5/2 sublevels. The hexagonal symmetry of the crystal structure conserves mj as a good quantum number. The proposed CF scheme, which is derived from measurements of the paramagnetic susceptibility by XMCD as well as linear dichroism in XAS, consists of nearly degenerate |1/2> and |3/2> doublets with the |5/2> doublet excited by E5/2 = 15 ... 25 meV.
2. Single impurity Kondo interaction significantly couples the magnetic moments of the impurity and conduction electrons. A signature thereof is the f0 -> f1 contribution to Ce M4,5 XAS, the strength of which can be tuned by control of the sample thickness. This finding is in line with the observation of reduced effective 4f moments as detected by XMCD.
3. Ruderman-Kittel-Kasuya-Yosida (RKKY) interaction induces ferromagnetic correlations on the impurity lattice, which induces a positive Curie-Weiss temperature in the temperature-dependent inverse susceptibility.
4. Indications for the transition to a coherent heavy fermion state are found in the inverse susceptibility at T ~ 20 K; the ferromagnetic ground state is not observed. The fielddependence of the magnetic moment in the coherent state can be interpreted in terms of a metamagnetic transition. This allows studying basic characteristics of the renormalized band structure of a heavy fermion system by XMCD.
The disentanglement of these different contributions to the 4f magnetism not only required extensive Ce M4,5 XAS and XMCD data, but also a thorough structural characterization of the material, a fundamental study of the Ce M4,5 line shape in relation to the degree of 4f hybridization and the development of a model for the paramagnetic susceptibility.
The unit cell dimensions and sample morphology of CePt5/Pt(111) intermetallics were studied by low-energy electron diffraction (LEED) and scanning transmission electron microscopy (STEM). These experiments showed that well-defined intermetallic films form on top of the substrate. This lead to introduction of the film thickness t, measured in unit cells (u.c.), as a key feature to characterize the samples.
Systematic LEED measurements in the thickness range t ~ 1 ... 15 u.c. allowed identification of six different phases, which could be interpreted as resulting from the same crystal structure with different rotational alignments and lattice constants. An accurate determination of the surface lattice constant at t ~ 3 u.c. could be achieved by interpretation of additional superstructure spots as arising from a well-defined combination of substrate and film lattices. The thicknessdependence of the lateral lattice constant could be explained in terms of lattice relaxation.
Confirmation of the CePt5 stoichiometry and structure was performed by use of thicknessdependent XAS and a representative LEED-IV study. The results of this study indicate that the intermetallic films exhibit hexagonal CaCu5 structure over the entire range of thicknesses that were studied. The terminating layer consists purely of Pt with one additional Pt atom per unit cell compared to the bulk structure.
The line shape of Ce M4,5 spectra was analyzed with the help of full multiplet calculations.
Experimentally, characteristic variations of the line shape were observed with increasing f0 -> f1 contribution. The calculations show that these variations are not due to an admixture of j = 7/2 character to the ground state, as often stated in the literature. As alternatives, this observation can be explained by either considering an additional contribution to the spectrum or by assumption of an asymmetric lifetime profile.
The model that was developed for the inverse paramagnetic susceptibility contains the hexagonal crystal field, magnetic coupling of the impurity moments in a mean field scheme and Kondo screening. The latter is included phenomenologically by screening factors for the effective moment. Assumption of doublet-specific screening factors, which means that the degree of Kondo interaction depends on the mj character of the 4f sublevels, allows satisfactory reproduction of the experimental data.
Topological insulators are electronic phases that insulate in the bulk and accommodate a peculiar, metallic edge liquid with a spin-dependent dispersion.
They are regarded to be of considerable future use in spintronics and for quantum computation.
Besides determining the intrinsic properties of this rather novel electronic phase, considering its combination with well-known physical systems can generate genuinely new physics.
In this thesis, we report on such combinations including topological insulators. Specifically, we analyze an attached Rashba impurity, a Kondo dot in the two channel setup, magnetic impurities on the surface of a strong three-dimensional topological insulator, the proximity coupling of the latter system to a superconductor, and hybrid systems consisting of a topological insulator and a semimetal.
Let us summarize our primary results.
Firstly, we determine an analytical formula for the Kondo cloud and describe its possible detection in current correlations far away from the Kondo region.
We thereby rely on and extend the method of refermionizable points.
Furthermore, we find a class of gapless topological superconductors and semimetals, which accommodate edge states that behave similarly to the ones of globally gapped topological phases. Unexpectedly, we also find edge states that change their chirality when affected by sufficiently strong disorder.
We regard the presented research helpful in future classifications and applications of systems containing topological insulators, of which we propose some examples.
Fulminant myocarditis is rare but a potentially life-threatening disease. Acute or mild myocarditis following acute ischemia is generally associated with a profound activation of the host’s immune system. On one hand this is mandatory to protect the host’s heart by fighting the invading agents (i.e., bacteria, viruses or other microbial agents) and/or to induce healing and repair processes in the damaged myocardium. On other hand, uncontrolled activation of the immune system may result in the generation of auto-reactive (not always beneficial) immune cells.
Myocarditis or inflammatory cardiomyopathy is characterized by focal or diffuse infiltrates, myocyte necrosis and/or apoptosis and subsequent fibrotic replacement of the heart muscle. In humans, about 30% of the myocarditis-patients develop dilated cardiomyopathy. As the clinical picture of myocarditis is multifaceted, it is difficult to diagnose the disease. Therefore, the main goal of the present work was to test and further develop novel non-invasive methods for the detection of myocardial inflammation by employing both contrast enhanced MRI techniques as well as novel nuclear tracers that are suitable for in vivo PET/ SPECT imaging.
As a part of this thesis, a pre-clinical animal model was successfully established by immunizing female Lewis rats with whole-porcine cardiac myosin (CM). Induction of Experimental Autoimmune Myocarditis (EAM) is considered successful when anti-myosin antibody titers are increased more than 100-fold over control animals and pericardial effusion develops. In addition, cardiac tissues from EAM-rats versus controls were analyzed for the expression of various pro-inflammatory and fibrosis markers. To further exploit non-invasive MRI techniques for the detection of myocarditis, our EAM-rats were injected either with (1) ultra-small Paramagnetic iron oxide particles (USPIO’s; Feraheme®), allowing for in vivo imaging , (2) micron sized paramagnetic iron oxide particles (MPIO) for ex vivo inflammatory cell-tracking by cMRI, or (3) with different radioactive nuclear tracers (67gallium citrate, 68gallium-labeled somatostatin analogue, and 68gallium-labeled cyclic RGD-peptide) which in the present work have been employed for autoradiographic imaging, but in principle are also suitable for in vivo nuclear imaging (PET/SPECT). In order to compare imaging results with histology, consecutive heart sections were stained with hematoxylin & eosin (HE, for cell infiltrates) and Masson Goldner trichrome (MGT, for fibrosis); in addition, immuno-stainings were performed with anti-CD68 (macrophages), anti-SSRT2A (somatostatin receptor type 2A), anti-CD61 (β3-integrins) and anti-CD31 (platelet endothelial cell adhesion molecule 1).
Sera from immunized rats strongly reacted with cardiac myosin. In immunized rats, echocardiography and subsequent MRI revealed huge amounts of pericardial effusion (days 18-21). Analysis of the kinetics of myocardial infiltrates revealed maximal macrophage invasion between days 14 and 28. Disappearance of macrophages resulted in replacement-fibrosis in formerly cell-infiltrated myocardial areas. This finding was confirmed by the time-dependent differential expression of corresponding cytokines in the myocardium. Immunized animals reacted either with an early or a late pattern of post-inflammation fibrosis. Areas with massive cellular infiltrates were easily detectible in autoradiograms showing a high focal uptake of 67gallium-citrate and 68gallium labeled somatostatin analogues (68Ga DOTA-TATE). Myocardium with a loss of cardiomyocytes presented a high uptake of 68gallium labeled cyclic RGD-peptide (68Ga NOTA-RGD). MRI cell tracking experiments with Feraheme® as the contrast-agent were inconclusive; however, strikingly better results were obtained when MPIOs were used as a contrast-agent: histological findings correlated well with in vivo and ex vivo MPIO-enhanced MRI images.
Imaging of myocardial inflammatory processes including the kinetics of macrophage invasion after microbial or ischemic damage is still a major challenge in, both animal models and in human patients. By applying a broad panel of biochemical, histological, molecular and imaging methods, we show here that different patterns of reactivity may occur upon induction of myocarditis using one and the same rat strain. In particular, immunized Lewis rats may react either with an early or a late pattern of macrophage invasion and subsequent post-inflammation fibrosis. Imaging results achieved in the acute inflammatory phase of the myocarditis with MPIOs, 67gallium citrate and 68gallium linked to somatostatin will stimulate further development of contrast agents and radioactive-nuclear tracers for the non-invasive detection of acute myocarditis and in the near future perhaps even in human patients.
In this thesis, I present a model system for carbohydrate interactions with single-crystalline Ru surfaces. Geometric and electronic properties of copper phthalocyanine (CuPc) on top of graphene on hexagonal Ru(0001), rectangular Ru(10-10) and vicinal Ru(1,1,-2,10) surfaces have been studied. First, the Fermi surfaces and band structures of the three Ru surfaces were investigated by high-resolution angle-resolved photoemission spectroscopy. The experimental data and theoretical calculations allow to derive detailed information about the momentum-resolved electronic structure. The results can be used as a reference to understand the chemical and catalytic properties of Ru surfaces. Second, graphene layers were prepared on the three different Ru surfaces. Using low-energy electron diffraction and scanning tunneling microscopy, it was found that graphene can be grown in well-ordered structures on all three surfaces, hexagonal Ru(0001), rectangular Ru(10-10) and vicinal Ru(1,1,-2,10), although they have different surface symmetries. Evidence for a strong interaction between graphene and Ru surfaces is a 1.3-1.7e V increase in the graphene pi-bands binding energy with respect to free-standing graphene sheets. This energy variation is due to the hybridization between the graphene pi bands and the Ru 4d electrons, while the lattice mismatch does not play an important role in the bonding between graphene and Ru surfaces. Finally, the geometric and electronic structures of CuPc on Ru(10-10), graphene/Ru(10-10), and graphene/Ru(0001) have been studied in detail. CuPc molecules can be grown well-ordered on Ru(10-10) but not on Ru(0001). The growth of CuPc on graphene/Ru(10-10) and Ru(0001) is dominated by the Moire pattern of graphene. CuPc molecules form well-ordered structures with rectangular unit cells on graphene/Ru(10-10) and Ru(0001). The distance of adjacent CuPc molecules is 1.5 and 1.3 nm on graphene/Ru(0001) and 1.54 and 1.37 nm on graphene/Ru(10-10). This indicates that the molecule-substrate interaction dominates over the intermolecular interaction for CuPc molecules on graphene/Ru(10-10) and graphene/Ru(0001).
Social interactions as introduced by Web 2.0 applications during the last decade have changed the way the Internet is used. Today, it is part of our daily lives to maintain contacts through social networks, to comment on the latest developments in microblogging services or to save and share information snippets such as photos or bookmarks online.
Social bookmarking systems are part of this development. Users can share links to interesting web pages by publishing bookmarks and providing descriptive keywords for them. The structure which evolves from the collection of annotated bookmarks is called a folksonomy. The sharing of interesting and relevant posts enables new ways of retrieving information from the Web. Users
can search or browse the folksonomy looking at resources related to specific tags or users. Ranking methods known from search engines have been adjusted to facilitate retrieval in social bookmarking systems. Hence, social bookmarking systems have become an alternative or addendum to search engines.
In order to better understand the commonalities and differences of social bookmarking systems and search engines, this thesis compares several aspects of the two systems' structure, usage behaviour and content. This includes the use of tags and query terms, the composition of the document collections and the rankings of bookmarks and search engine URLs. Searchers (recorded via session ids), their search terms and the clicked on URLs can be extracted from a search
engine query logfile. They form similar links as can be found in folksonomies where a user annotates a resource with tags. We use this analogy to build a tripartite hypergraph from query logfiles (a logsonomy), and compare structural and semantic properties of log- and folksonomies. Overall, we have found similar behavioural, structural and semantic characteristics in both systems. Driven by this insight, we investigate, if folksonomy data can be of use in web
information retrieval in a similar way to query log data: we construct training data from query logs and a folksonomy to build models for a learning-to-rank algorithm. First experiments show a positive correlation of ranking results generated from the ranking models of both systems. The research is based on various data collections from the social bookmarking systems BibSonomy and Delicious, Microsoft's search engine MSN (now Bing) and Google data.
To maintain social bookmarking systems as a good source for information retrieval, providers need to fight spam. This thesis introduces and analyses different features derived from the specific characteristics of social bookmarking systems to be used in spam detection classification algorithms. Best results can be derived from a combination of profile, activity, semantic and location-based features. Based on the experiments, a spam detection framework which identifies and eliminates spam activities for the social bookmarking system BibSonomy has been developed.
The storing and publication of user-related bookmarks and profile information raises questions about user data privacy. What kinds of personal information is collected and how do systems handle user-related items? In order to answer these questions, the thesis looks into the handling of data privacy in the social bookmarking system BibSonomy. Legal guidelines about how to deal with the private data collected and processed in social bookmarking systems are also presented. Experiments will show that the consideration of user data privacy in the process
of feature design can be a first step towards strengthening data privacy.
Since its discovery as a small signaling molecule in the human body, researchers have tried to utilize the beneficial cytoprotective properties of carbon monoxide in therapeutic applications. Initial work focused on the controlled direct application of CO gas. However, to circumvent the disadvantages of this method such as requirement for special equipment, hospitalization of the patient and the risk of overdosing, metal-carbonyl complexes were developed as CO-releasing molecules (CORMs) which are able to deliver CO in a tissue-specific manner. However, upon the release of CO from the metal coordination sphere, complex fragments termed inactivated CORMs (iCORMs) with free coordination sites remain which can undergo nonspecific follow-up reactions under physiological conditions.
Thus, the first aim of the present thesis was the coordination of tetradentate ligands such as tris(2-pyridylmethyl)amine (tpa), bis(2-pyridylmethyl)(2-quinolylmethyl)amine (bpqa), bis(2-quinolylmethyl)(2-pyridylmethyl)amine (bqpa) and tris(2-quinolylmethyl) amine (tmqa) in a tridentate facial manner to a fac-Mn(CO)3 moiety previously established as a photoactivatable CO-releasing molecule (PhotoCORM). The desired coordination of the pedant donor group upon photolytic CO release at 365 nm was demonstrated by UV/Vis-, IR- und 1H NMR experiments and verified by DFT calculations. All complexes of the series showed long-term dark stability in phosphate-buffered saline (PBS), but released between two and three equivalents of carbon monoxide with half-lives of around 5-10 minutes upon illumination at 365 nm. Although the photolytic properties of the complexes were quite similar besides the differences in type of hetereoaromatic ligands, the determination of the logP values showed an increase of lipophilicity with the number of quinoline groups, which might enable tissue-specific uptake. A significant cellular manganese uptake as well as the binding of CO released upon photolysis to the cytochrome c oxidases in E. coli cells was demonstrated for [Mn(CO)3(tpa)]+. Furthermore, this complex exhibited photoinduced bactericidal activity when the cells were grown in succinate-containing medium and thus unable to change their metabolism to mixed acid fermentation.
In the second part of the project, the hexadentate ligand 1,4,7-tris(2-pyridylmethyl)-1,4,7-triazacyclononane (py3tacn) was coordinated to a facial Mn(CO)3 moiety. The resulting [Mn(CO)3(py3tacn-3N)]+ complex has one pedant donor group per labile carbonyl ligand and thus is a significant improvement over the 1st generation tpa-complexes. The metal-coligand inactivated CORM (iCORM) fragment expected to be generated upon complete photolytic CO release, [Mn(py3tacn-6N)]2+, was synthesized independently and will serve as a well-defined negative control in upcoming biological tests. The corresponding CORM has long-term dark stability in pure dimethylsulfoxide or phosphate-buffered myoglobin solution, with three equivalents of CO released with a half-life of 22 minutes upon illumination at 412 nm. The photolysis was also followed by IR spectroscopy and the intermediates, in line with a stepwise release of carbon monoxide, and occupation of vacated sites by the pedant pyridine group were verified by DFT calculations.
Due to possible tissue damage by energy-rich light and the inverse correlation of tissue penetration depth and illumination wavelength, the absorption maxima of PhotoCORMs should ideally be in the phototherapeutic window between 600 and 1200 nm. Thus, in the third part of this work, a series of heterobinuclear Mn(CO)3/Ru(bpy)2 PhotoCORMs was prepared to shift the absorption of these compounds into the red region of the UV/Vis spectrum. For the synthesis of such Mn(I)/Ru(II) complexes, the bridging ligands 2,3-di(2-pyridyl)quinoxaline (dpx) and 3-(pyridin-2-yl)-1,2,4-triazine[5,6-f]-1,10-phenanthroline (pytp) were prepared and the two binding pockets subsequently filled with a Ru(bpy)2 and a fac-Mn(CO)3 moiety. The resulting two heterobinuclear metal complexes [Ru(bpy)2(dpx)MnBr(CO)3]2+ and [Ru(bpy)2(pytp)MnBr(CO)3]2+ as well as [Ru(etx)(tbx)MnBr(CO)3]2+ with etx = ethyl(2,2':6',2''-terpyridine)-4'-carboxylate and tbx = N-((2,2’:6’,2’’-terpyridin)-4’-yl)2,2’-bipyridine-5-carboxamide which was prepared by a metal precursor provided by the group of Prof. Dr. Katja Heinze showed a significant shift of the main absorption bands to higher wavelengths as well as two times higher extinction coefficients than the analogous mononuclear Mn(I) compounds. However, both the Mn(I)/Ru(II) and Mn(I) complexes had a reduced stability in phosphate-buffered myoglobin solution even in the absence of light. The efficiency of the CO-release from [Ru(etx)(tbx)MnBr(CO)3]2+ and [Ru(bpy)2(dpx)MnBr(CO)3]2+ could be controlled by proper choice of the excitation wavelength. A change from 468 to 525 nm or even 660 nm led to a decrease of the number of CO equivalents released from two to one and an elongation of the half-lives.
Finally, since nitric oxide also serves as a small messenger molecule in the human body with its signaling pathways interacting with those of CO, a mixed-ligand CO/NO metal complex was sought. [Mo(CO)2(NO)(iPr3tacn)]+ with iPr3tacn = 1,4,7-triisopropyl-1,4,7-triazacyclonane was selected from the literature and its molecular structure determined by single crystal diffraction, demonstrating the presence of an NO+ ligand in the coordination sphere as indicated by a MO-N-O angle close to 180°. Photolysis of [Mo(CO)2(NO)(iPr3tacn)]+ required high-energy UV light, which prevented a quantification of the CO release due to photolytic decomposition of the myoglobin. However, solution IR experiments showed that the complex lost the two carbon monoxide ligands upon illumination at 254 nm while the NO remained tightly bound to the metal. The structures observed of the intermediates were also verified by DFT calculations.
In conclusion, in this project, four different classes of novel transition metal-based photoactivatable CO-releasing molecules (PhotoCORMs) were prepared and studied. The first group incorporated one additional free donor group per LMn(CO)3 moiety but varied in the number of coordinated pyridyl and quinolinyl groups which allows the control of the lipophilicity of these compounds. As an extension of this concept, the second series incorporated one free donor group per labile carbonyl ligand which gives rise to well-defined photolysis products that can be independently prepared and assayed. The third class was based on a Ru(II) photosensitizer unit connected to a MnBr(CO)3 PhotoCORM moiety. This shifts the absorption maximum from 500 nm to about 585 nm in [Ru(bpy)2(dpx)MnBr(CO)3]2+. Finally, a first mixed-ligand CO/NO carrier molecule was evaluated for its photolytic behavior. However, while the carbonyl ligands were photolabile at low excitation wavelengths, release of the NO ligand was not observed under the conditions studied.
In a next step, detailed studies on the bioactivity of the different classes of PhotoCORMs need to be carried out with partner groups from biochemistry to fully explore their biomedical potential.
Division of labor represents a major advantage of social insect communities that accounts for their enormous ecological success. In colonies of the honeybee, Apis mellifera, division of labor comprises different tasks of fertile queens and drones (males) and, in general, sterile female workers. Division of labor also occurs among workers in form of an age-related polyethism. This helps them to deal with the great variety of tasks within the colony. After adult eclosion, workers spend around three weeks with various duties inside the hive such as tending the brood or cleaning and building cells. After this period workers switch to outdoor tasks and become foragers collecting nectar, pollen and water. With this behavioral transition, workers face tremendous changes in their sensory environment. In particular, visual sensory stimuli become important, but also the olfactory world changes. Foragers have to perform a completely new behavioral repertoire ranging from long distance navigation based on landmark orientation and polarized-skylight information to learning and memory tasks associated with finding profitable food sources. However, behavioral maturation is not a purely age-related internal program associated with a change, for example, in juvenile hormone titers. External factors such as primer pheromones like the brood pheromone or queen mandibular pheromone can modulate the timing of this transition. In this way colonies are able to flexibly adjust their work force distribution between indoor and outdoor tasks depending on the actual needs of the colony. Besides certain physiological changes, mainly affecting glandular tissue, the transition from indoor to outdoor tasks requires significant adaptations in sensory and higher-order integration centers of the brain.
The mushroom bodies integrate olfactory, visual, gustatory and mechanosensory information. Furthermore, they play important roles in learning and memory processes. It is therefore not surprising that the mushroom bodies, in particular their main input region, the calyx, undergo volumetric neuronal plasticity. Similar to behavioral maturation, plastic changes of the mushroom bodies are associated with age, but are also to be affected by modulating factors such as task and experience.
In my thesis, I analyzed in detail the neuronal processes underlying volumetric plasticity in the mushroom body. Immunohistochemical labeling of synaptic proteins combined with quantitative 3D confocal imaging revealed that the volume increase of the mushroom body calyx is largely caused by the growth of the Kenyon cell dendritic network. This outgrowth is accompanied by changes in the synaptic architecture of the mushroom body calyx, which is organized in a distinct pattern of synaptic complexes, so called microglomeruli. During the first week of natural adult maturation microglomeruli remain constant in total number. With subsequent behavioral transition from indoor duties to foraging, microglomeruli are pruned while the Kenyon cell dendritic network is still growing. As a result of these processes, the mushroom body calyx neuropil volume enlarges while the total number of microgloumeruli becomes reduced in foragers compared to indoor workers. In the visual subcompartments (calyx collar) this process is induced by visual sensory stimuli as the beginning of pruning correlates with the time window when workers start their first orientation flights. The high level of analysis of cellular and subcellular process underlying structural plasticity of the mushroom body calyx during natural maturation will serve as a framework for future investigations of behavioral plasticity in the honeybee.
The transition to foraging is not purely age-dependent, but gets modulated, for example, by the presence of foragers. Ethyl oleate, a primer pheromone that is present only in foragers, was shown to delay the onset of foraging in nurse bees. Using artificial application of additional ethyl oleate in triple cohort colonies, I tested whether it directly affects adult neuronal plasticity in the visual input region of the mushroom body calyx. As the pheromonal treatment failed to induce a clear behavioral phenotype (delayed onset of foraging) it was not possible to show a direct link between the exposure to additional ethyl oleate and neuronal plasticity in mushroom body calyx. However, the general results on synaptic maturation confirmed my data of natural maturation processes in the mushroom body calyx.
Given the result that dendritic plasticity is a major contributor to neuronal plasticity in the mushroom body calyx associated with division of labor, the question arose which proteins could be involved in mediating these effects. Calcium/calmodulin-dependent protein kinase II (CaMKII) especially in mammals, but also in insects (Drosophila, Cockroach), was shown to be involved in facilitating learning and memory processes like long-term synaptic potentiation. In addition to presynaptic effects, the protein was also revealed to directly interact with cytoskeleton elements in the postsynapse. It therefore is a likely candidate to mediate structural synaptic plasticity. As part of my thesis, the presence and distribution of CaMKII was analyzed, and the results showed that the protein is highly concentrated in a distinct subpopulation of the mushroom body intrinsic neurons, the noncompact Kenyon cells. The dendritic network of this population arborizes in two calyx subregions: one receiving mainly olfactory input – the lip – and the collar receiving visual input. This distribution pattern did not change with age or task. The high concentration of CaMKII in dendritic spines and its overlap with f-actin indicates that CaMKII could be a key player inducing structural neuronal plasticity associated with learning and memory formation and/or behavioral transitions related to division of labor. Interestingly CaMKII immunoreactivity was absent in the basal ring, another subregion of the mushroom body calyx formed almost exclusively by the inner compact Kenyon cells and known to receive combined visual and olfactory input. This indicates differences of this mushroom body subregion regarding the molecular mechanisms controlling plastic changes in corresponding Kenyon cells.
How is timing of behavioral and neuronal plasticity regulated? The primer pheromone ethyl oleate was found in high concentrations on foragers and was shown to influence behavioral maturation by delaying the onset of foraging when artificially applied in elevated concentrations. But how is ethyl oleate transferred and how does it shift the work force distribution between indoor and outdoor tasks? Previous work showed that ethyl oleate concentrations are highest in the honeycrop of foragers and suggested that it is transferred and communicated inside the colony via trophallaxis. The results of this thesis however clearly show, that ethyl oleate was not present inside the honey crop or the regurgitate, but rather in the surrounding tissue of the honey crop. As additionally the second highest concentration of ethyl oleate was measured on the surface of the cuticle of forgers, trophallaxis was ruled out as a mode of transmission. Neurophysiological measurements at the level of the antennae (electroantennogram recordings) and the first olfactory neuropil (calcium imaging of activity in the antennal lobe) revealed that the primer pheromone ethyl oleate is received and processed as an olfactory stimulus. Appetitive olfactory conditioning using the proboscis extension response as a behavioral paradigm showed that ethyl oleate can be associated with a sugar reward. This indicates that workers are able to perceive, learn and memorize the presence of this pheromone. As ethyl oleate had to be presented by a heated stimulation device at close range, it can be concluded that this primer pheromone acts via close range/contact chemoreception through the olfactory system. This is also supported by previous behavioral observations.
Taken together, the findings presented in this thesis revealed structural changes in the synaptic architecture of the mushroom body calyx associated with division of labor. For the primer pheromone ethyl oleate, which modulates the transition from nursing to foraging, the results clearly showed that it is received via the olfactory system and presumably acts via this pathway. However, manipulation experiments did not indicate a direct effect of ethyl oleate on synaptic plasticity. At the molecular level, CaMKII is a prime candidate to mediate structural synaptic plasticity in the mushroom body calyx. Future combined structural and functional experiments are needed to finally link the activity of primer pheromones like ethyl oleate to the molecular pathways mediating behavioral and synaptic plasticity associated with division of labor in Apis mellifera. The here identified underlying processes will serve as excellent models for a general understanding of fundamental mechanisms promoting behavioral plasticity.
Dietary polyphenols have been related to beneficial effects on humans’ health. Pycnogenol®, a dietary polyphenol-rich food supplement complies with the monograph “Maritime pine extract” in the United States Pharmacopeia (USP) and has demonstrated effects in different diseases. Several human trials concerning knee osteoarthritis have shown significant improvement of the symptoms like reducing the pain and the stiffness of the joint(s) upon intake of Pycnogenol®. After oral intake of multiple doses of Pycnogenol® previously low concentrations in the nanomolar range of monomeric extract constituents have been found in human plasma as well as a bioactive metabolite, δ-(3,4-dihydroxy-phenyl)-γ-valerolactone (M1), which is formed by the human intestinal flora from the procyanidins’ catechin units. It is not clear yet which compound(s) of the complex extract is (are) mainly responsible for the described clinical effects of Pycnogenol®. To gain deeper insights into the in vivo fate of the pine bark extract the distribution of its constitutents and metabolites was closer investigated in the present thesis.
Initial in vitro experiments suggested a facilitated cellular uptake of M1 into human erythrocytes, possibly via GLUT-1 transporter. For elucidating further the in vitro and in vivo metabolism of M1 in human blood cells, a metabolomic approach was performed using UPLC-ESI-qTOF-MSE analysis, which revealed a comprehensive and rapid metabolism of M1 to a variety of biotransformation products in human blood cells. Predominant metabolites were found to be conjugates of glutathione (GSH) isomers, namely M1-S-GSH and M1-N-GSH. Further sulfur-containing biotransformation products of M1 were conjugates with oxidized glutathione (M1-GSSG) and cysteine (M1-CYS) and the sulfated derivative of M1 (M1-sulfated). Other in vitro biotransformation products constituted the open-chained ester form of M1 (M1-COOH), hydroxybenzoic acid and the methylated (M1-methylated), acetylated (M1-acetylated), hydroxylated (M1-hydroxylated) and ethylated (M1-ethylated) derivatives of M1. Indeed, six of these in vitro metabolites, respectively M1-COOH, M1-sulfated, hydroxybenzoic acid, M1-S-GSH, M1-methylated and M1-acetylated, were also identified in vivo in blood cells of human volunteers after ingestion of Pycnogenol®. Related reference material was synthesized for reliable confirmation of the metabolites M1-GSH, M1-GSSG, M1-CYS and M1-COOH.
In the course of a randomized controlled clinical trial patients suffering from severe osteoarthritis ingested multiple doses of 200 mg/day Pycnogenol® for three weeks before they were scheduled for an elective knee replacement surgery. Various biological specimen, respectively blood cells, synovial fluid and serum samples, were to be analyzed to investigate the distribution and disposition of possibly bioactive constituents and metabolites. Therefore, highly sensitive methods were developed using liquid chromatography tandem mass spectrometry (LC-MS/MS)- technology because of the expected low concentrations of the analytes in the related matrices.
Initially, for each matrix different sample preparation techniques (protein precipitation, liquid-liquid extraction, solid phase extraction and useful combinations thereof) were compared to achieve maximum detection sensitivity of the analytes that were of highest interest, namely M1, ferulic acid and taxifolin. By comparing 32 various sample clean-up procedures in human serum, the highest recovery of the metabolite M1 was achieved using a liquid-liquid extraction with ethyl acetate and tert-butyl methyl ether at a serum pH-value of 3.2. A similar extraction method was also chosen for analyte detection in human synovial fluid after comparing 31 different sample preparation techniques. Whole blood or blood cells are difficult to handle because of their high viscosity and strong coloration. The QuEChERS (quick, easy, cheap, effective, rugged and safe) approach which was originally developed for the food safety and thus for the determination of pesticide residues in fruits and vegetables yielded the highest total recovery rate of M1 in human blood cells when assessing 18 different sample clean-up techniques. By applying the QuEChERS method for the first time for the simultaneous and highly sensitive quantification of selected polyphenols in human blood cells it was demonstrated that this fast and inexpensive technique can be applied in clinical fields for cleaning-up highly complex and thus challenging biological matrices. All developed methods for the different biological specimen were optimized to achieve maximum sensitivity of the target analytes. The determined lower limits of quantification (LLOQs) were sufficient for the quantification of the study samples. The LLOQs ranged from 113 pg/mL for taxifolin to 48 ng/mL for caffeic acid in blood cells and from 80 pg/mL for taxifolin to 3 ng/mL for caffeic acid in synovial fluid. In human serum the LLOQs even ranged down to 35 pg/mL for taxifolin and up to 8 ng/mL for caffeic acid. All analytical methods were subjected to a full validation according to current EMA and FDA guidelines and fulfilled those criteria, showing excellent performance and reliability of the developed and optimized methods.
Serum, blood cells and synovial fluid samples of the osteoarthritis patients were all processed with an enzymatic incubation with ß-glucuronidase/sulfatase to hydrolyse conjugates (phase-II-metabolism) prior the actual sample preparation. Additionally, serum samples of the osteoarthritis patients were prepared without enzymatic hydrolysis to determine the individual degree of conjugation with sulfate and glucuronic acid of the analytes.
All determined concentrations in the patients’ samples were in the lower ng/mL range. Notably, highest total concentrations of the polyphenols were not detected in serum, in which the degree of analyte conjugation with sulfate and glucuronic acid ranged from 54.29 ± 26.77% for catechin to 98.34 ± 4.40% for M1. The flavonoids catechin and taxifolin mainly partitioned into blood cells, whereas the metabolite M1, ferulic and caffeic acid primarily resided in the synovial fluid. The concentration of M1 in the blood cells was low, however, this could be explained by the previously observed extensive and rapid intracellular metabolism in vitro. This was now supported by the in vivo evidence in samples of patients who received Pycnogenol® in which the open-chained ester form of M1 (M1-COOH) as well as the glutathione conjugate of M1 (M1-GSH) were identified, indicating that M1 does not accumulate in its original form in vivo. Possibly, a variety of bioactive metabolites exist which might play an important role for the clinical effects of Pycnogenol®.
Although the study participants were requested to avoid polyphenol-rich food and beverages within the last two days before the blood samplings this was obviously difficult for most of the patients. Hence, no statistically significantly difference was observed in the mean polyphenol concentrations in serum, blood cells and synovial fluid between the intervention and the control group. Nevertheless, it was possible to identify marker compounds for Pycnogenol® intake under real life conditions with occasional or regular consumption of polyphenol-rich foods and beverages. Thereby, ferulic acid was found in serum samples exclusively after intake of Pycnogenol®, confirming that ferulic acid is a suitable marker of consumption of French maritime pine bark extract. Taxifolin was present in serum and synovial fluid exclusively in the intervention group indicating a role as further marker of Pycnogenol® intake. Taxifolin, ferulic acid and caffeic acid were detected in both serum and synovial fluid only in the intervention group. Moreover, the metabolite M1, taxifolin and ferulic acid were only detected simultaneously in all matrices (serum, blood cells and synovial fluid) after ingestion of Pycnogenol®.
Thus, deeper insights into the distribution of bioactive constituents and metabolites of Pycnogenol® into serum, blood cells and synovial fluid after oral administration to patients with severe osteoarthritis were gained. The present study provides the first evidence that polyphenols indeed distribute into the synovial fluid of patients with osteoarthritis where they might contribute to clinical effects.
Topological insulators belong to a new quantum state of matter that is currently one of
the most recognized research fields in condensed matter physics. Strained bulk HgTe
and HgTe/HgCdTe quantum well structures are currently one of few topological insulator
material systems suitable to be studied in transport experiments. In addition
HgTe quantum wells provide excellent requirements for the conduction of spintronic
experiments. A fundamental requirement for most experiments, however, is to reliably
pattern these heterostructures into advanced nano-devices. Nano-lithography on this
material system proves to be challenging because of inherent temperature limitations,
its high reactivity with various metals and due to its properties as a topological insulator.
The current work gives an insight into why many established semiconductor
lithography processes cannot be easily transferred to HgTe while providing alternative
solutions. The presented developments include novel ohmic contacts, the prevention
of metal sidewalls and redeposition fences in combination with low temperature
(80 °C) lithography and an adapted hardmask lithography process utilizing a sacrificial
layer. In addition we demonstrate high resolution low energy (2.5 kV) electron beam
lithography and present an alternative airbridge gating technique. The feasibility of
nano-structures on HgTe quantum wells is exemplarily verified in two separate transport
experiments. We are first to realize physically etched quantum point contacts
in HgTe/HgCdTe high mobility 2DEGs and to prove their controllability via external
top-gate electrodes. So far quantum point contacts have not been reported in TI
materials. However, these constrictions are part of many proposals to probe the nature
of the helical quantum spin Hall edge channels and are suggested as injector and
detector devices for spin polarized currents. To confirm their functionality we performed
four-terminal measurements of the point contact conductance as a function of
external gate voltage. Our measurements clearly exhibit quantized conductance steps
in 2e2/h, which is a fundamental characteristic of quantum point contacts. Furthermore
we conducted measurements on the formation and control of collimated electron beams, a key feature to realize an all electrical spin-optic device. In a second study
several of the newly developed lithography techniques were implemented to produce
arrays of nano-wires on inverted and non-inverted HgTe quantum well samples. These
devices were used in order to probe and compare the weak antilocalization (WAL) in
these structures as a function of magnetic field and temperature. Our measurements
reveal that the WAL is almost an order of magnitude larger in inverted samples. This
observation is attributed to the Dirac-like dispersion of the energy bands in HgTe quantum
wells. The described lithography has already been successfully implemented and
adapted in several published studies. All processes have been optimized to guarantee
a minimum effect on the heterostructure’s properties and the sample surface, which is
especially important for probing the topological surface states of strained HgTe bulk
layers. Our developments therefore serve as a base for continuous progress to further
establish HgTe as a topological insulator and give access to new experiments.
Ovarian cancer (OvCa) is the tumor with the most unfavourable prognosis among all gynaecological malignancies causing more than 6000 deaths per year in Germany alone. Patients with OvCa show symptoms at very advanced stages of tumor progression when the only available treatments consist on tumor debulking surgery and administration of platinum based chemotherapeutics and anthracyclins. There is an urgent need to develop new therapeutical strategies since the actual 5 year survival rate of OvCa patients does not exceed 20-40%.
Immunotherapy is a promising approach for treatment of ovarian cancer, since it has been observed that immunological parameters can influence the outcome of the patient. The aim of our research is to overcome tumor immune escape by counteracting the immunosuppressive mechanisms developed by the tumor. In particular, this work studies the influence of adenosine generated by the ectonucleotidases CD39 and CD73 in the tumor microenvironment. Cellular expression of CD39 and CD73 contributes to immunosupression as these ectonucleotidases convert immune-stimulatory extracellular ATP into immunosuppressive adenosine. This was primarily described as effector mechanism for regulatory T cells, but may also be important in the tumor microenvironment.
Having found that tumor cells from OvCa-patients express high levels of ATP-depleting ectonucleotidases CD39 and CD73 we set out to investigate a potential immunosuppressive mechanism via adenosine production in the tumor microenvironment. We could measure 30-60 times higher adenosine production by OvCa cell lines and ascites-derived cancer cells as compared to physiological normal conditions. To confirm this putative immune escape mechanism we investigated its effect on several immune cell populations. CFSE-based assays, for example, showed an inhibition of CD4+ T cell proliferation by OvCA cell-derived adenosine. In this context, we have further established an in-vitro assay, where OvCa cells modulate the function of macrophages towards a M2 or tumor associated (TAM) phenotype. Together with the phenotype modulation adenosine exerts chemotactic effects on human monocytes and is thus likely to attract myeloid precursor cells towards the tumor tissue. Moreover, in a microenvironment that is shaped by OvCa cells, human monocytes differentiate into M2 macrophages or TAMs which themselves express significant levels of the adenosine-generating ectonucleotidases CD39 and CD73.
Investigating the regulation of ectonucleotidase expression, we also observed that approaches clinically used to treat OvCa (namely application of doxorubicine or irradiation) influence CD73 and CD39 levels of OvCa and immune cells in vitro. In this study we show how this treatment-induced change in the ATP/adenosine ratio modulates the effector function of different immune cells. Furthermore, we investigate the potential benefit of clinically available small molecule inhibitors for CD39 and CD73 that could relieve immunosuppression in the tumor microenvironment especially in combination with common treatment regimes.
Analysis of discretization schemes for Fokker-Planck equations and related optimality systems
(2015)
The Fokker-Planck (FP) equation is a fundamental model in thermodynamic kinetic theories and
statistical mechanics.
In general, the FP equation appears in a number of different fields in natural sciences, for instance in solid-state physics, quantum optics, chemical physics, theoretical biology, and circuit theory. These equations also provide a powerful mean to define
robust control strategies for random models. The FP equations are partial differential equations (PDE) describing the time evolution of the probability density function (PDF) of stochastic processes.
These equations are of different types depending on the underlying stochastic process.
In particular, they are parabolic PDEs for the PDF of Ito processes, and hyperbolic PDEs for piecewise deterministic processes (PDP).
A fundamental axiom of probability calculus requires that the integral of the PDF over all the allowable state space must be equal to one, for all time. Therefore, for the purpose of accurate numerical simulation, a discretized FP equation must guarantee conservativeness of the total probability. Furthermore, since the
solution of the FP equation represents a probability density, any numerical scheme that approximates the FP equation is required to guarantee the positivity of the solution. In addition, an approximation scheme must be accurate and stable.
For these purposes, for parabolic FP equations on bounded domains, we investigate the Chang-Cooper (CC) scheme for space discretization and first- and
second-order backward time differencing. We prove that the resulting
space-time discretization schemes are accurate, conditionally stable, conservative, and preserve positivity.
Further, we discuss a finite difference discretization for the FP system corresponding to a PDP process in a bounded domain.
Next, we discuss FP equations in unbounded domains.
In this case, finite-difference or finite-element methods cannot be applied. By employing a suitable set of basis functions, spectral methods allow to treat unbounded domains. Since FP solutions decay exponentially at infinity, we consider Hermite functions as basis functions, which are Hermite polynomials multiplied by a Gaussian.
To this end, the Hermite spectral discretization is applied
to two different FP equations; the parabolic PDE corresponding to Ito processes, and the system of hyperbolic PDEs corresponding to a PDP process. The resulting discretized schemes are analyzed. Stability and spectral accuracy of the Hermite spectral discretization of the FP problems is proved. Furthermore, we investigate the conservativity of the solutions of FP equations discretized with the Hermite spectral scheme.
In the last part of this thesis, we discuss optimal control problems governed by FP equations on the characterization of their solution by optimality systems. We then investigate the Hermite spectral discretization of FP optimality systems in unbounded domains.
Within the framework of Hermite discretization, we obtain sparse-band systems of ordinary differential equations. We analyze the accuracy of the discretization schemes by showing spectral convergence in approximating the state, the adjoint, and the control variables that appear in the FP optimality systems.
To validate our theoretical estimates, we present results of numerical experiments.
This thesis focuses on the investigation of the electronic structure of amino acids and
salts in aqueous solution using X-ray spectroscopic methods. Both material groups are
of fundamental importance with regards to many physiological reactions, especially
for the Hofmeister effect which describes the solubility of proteins in salt solutions.
Hence, the investigation of the electronic structure of amino acids and the influence of
ions on the hydrogen bonding network of liquid water are important milestones to a
deeper understanding of the Hofmeister series.
Besides investigating the electronic structure of amino acids in aqueous solution,
the spectra were used to develop a building block model of the spectral fingerprints of
the functional groups and were compared to spectral signatures of suitable reference
molecules. In the framework of this thesis, it is shown that the building block approach
is a useful tool with allows the interpretation of spectral signatures of considerably
more complex molecules
In this work, the focus lies on the investigation of the occupied and unoccupied
electronic states of molecules in solid state, as well as in aqueous solution. Hereby,
different X-ray spectroscopic methods were applied. X-ray emission spectroscopy
(XES) was used to probe the occupied electronic structure of the solution, while the
unoccupied electronic structure was addressed by using X-ray absorption spectroscopy
(XAS). Finally, resonant inelastic X-ray scattering (RIXS) as a combination of XAS
and XES measurements provides the combined information about the unoccupied and
occupied molecular levels. The element specific character of the three measurement
methods is a feature which allows the investigation of the local electronic structure of
a single functional group. With RIXS, also non-equivalent atoms of the same element
can be addressed separately.
Within this thesis firstly, a library of the XE spectra of all 20 proteinogenic amino
acids in zwitterionic form is presented. From this sample-set XES fingerprints of
the protonated alpha-amino group NH3+ and the deprotonated carboxylic group COO- were evaluated and used to identify the XES fingerprints of the nitrogen and oxygen
containing functional groups of the side chains of the amino acids. The data is discussed
based on a building block approach. Furthermore, the XE spectra of the functional
groups of lysine and histidine, namely the NH2 group and the C3N2H4 ring structure,
are both compared to XE spectra of suitable reference molecules (imidazole, ammonia
and methylamine). It is found that the XE and RIXS spectra of the side chains of lysine
and histidine show large similarities to the XE spectra of the reference molecules. This
agreement in the XE and RIXS spectra allows a qualitative investigation of XE and
RIXS spectra of more complex amino acids using the XE and RIXS spectra of suitable
reference molecules.
The chemical structure of histidine and proline is quite different from the structures
of the other proteinogenic amino acids. Due to the unique chemical structure of
the side chain which in both cases consists of a heterocyclic ring structure, these two
amino acids were investigated in more detail. Zubavichus et al. [1] have shown that
amino acids are decomposing while exposed to X-ray radiation of the experiment. The
damage is irreversible and molecular fragments can adsorb on the membrane of the
experimental setup. This contamination can also create a spectral signature which
then overlaps with the signal of the solution and which complicates the interpretation
of the data. To record spectra which are free from contributions of adsorbed molecular
fragments on the membrane, the adsorption behavior was investigated.
In contrast to the solid phase in which the amino acids are present as salts in one
electronic conformation, the charge state of the amino acids can be manipulated in
aqueous solution by tuning the pH-value. By doing this, all possible charge states are
accessible (cation, anion, zwitterion). In this work it is shown that also the spectra
of the different charge states can be modeled by the spectra of suitable reference
molecules using the building block approach. The spectral changes occurring upon
protonation and deprotonation of the functional groups are explored and verified by
comparing them to theoretical calculations.
The comparison with measurements of pyrrolidine show that the electronic structure
which surrounds the nitrogen atom of proline is strongly influenced by the
ring structure of the side chain. Furthermore, the proline, pyrrolidine, and histidine
molecules are also degrading during the liquid sample measurements. This can be
observed by the detection of a new spectral component which increases with the
measurement time originating from the window membrane. In all cases, the speed of
the agglomeration of molecular fragments at the membrane was observed to be highly
sensitive to the pH value of the solution.
To understand the Hofmeister series, also the impact of the salt ions have to be
investigated. In this study the influence of potassium chloride (KCl) on the hydrogen
bond network of water was studied by using non-resonantly excited XES as well as
RIXS. A decreased dissociation of hydrogen molecules and changes in the molecular
vibrations could be detected. These changes were interpreted with a molecular
reorganization of the water molecules and a decreased number of hydrogen bonds.
\textbf{Molecular Determinants of Drug-Target Residence Times of Bacterial Enoyl-ACP Reductases.} Whereas optimization processes of early drug discovery campaigns are often affinity-driven, the drug-target residence time $t_R$ should also be considered due to an often strong correlation with \textit{in vivo} efficacy of compounds. However, rational optimization of $t_R$ is not straightforward and generally hampered by the lack of structural information about the transition states of ligand association and dissociation. The enoyl-ACP reductase FabI of the fatty acid synthesis (FAS) type II is an important drug-target in antibiotic research. InhA is the FabI enzyme of \textit{Mycobacterium tuberculosis}, which is known to be inhibited by various compound classes. Slow-onset inhibition of InhA is assumed to be associated with the ordering of the most flexible protein region, the substrate binding loop (SBL). Diphenylethers are one class of InhA inhibitors that can promote such SBL ordering, resulting in long drug-target residence times. Although these inhibitors are energetically and kinetically well characterized, it is still unclear how the structural features of a ligand affect $t_R$.
Using classical molecular dynamics (MD) simulations, recurring conformational families of InhA protein-ligand complexes were detected and structural determinants of drug-target residence time of diphenyl\-ethers with different kinetic profiles were described. This information was used to deduce guidelines for efficacy improvement of InhA inhibitors, including 5'-substitution on the diphenylether B-ring. The validity of this suggestion was then analyzed by means of MD simulations.
Moreover, Steered MD (SMD) simulations were employed to analyze ligand dissociation of diphenylethers from the FabI enzyme of \textit{Staphylococcus aureus}. This approach resulted in a very accurate and quantitative linear regression model of the experimental $ln(t_R)$ of these inhibitors as a function of the calculated maximum free energy change of induced ligand extraction. This model can be used to predict the residence times of new potential inhibitors from crystal structures or valid docking poses.
Since correct structural characterization of the intermediate enzyme-inhibitor state (EI) and the final state (EI*) of two-step slow-onset inhibition is crucial for rational residence time optimization, the current view of the EI and EI* states of InhA was revisited by means of crystal structure analysis, MD and SMD simulations. Overall, the analyses affirmed that the EI* state is a conformation resembling the 2X23 crystal structure (with slow-onset inhibitor \textbf{PT70}), whereas a twist of residues Ile202 and Val203 with a further opened helix $\alpha 6$ corresponds to the EI state. Furthermore, MD simulations emphasized the influence of close contacts to symmetry mates in the SBL region on SBL stability, underlined by the observation that an MD simulation of \textbf{PT155} chain A with chain B' of a symmetry mate in close proximity of the SBL region showed significantly more stable loops, than a simulation of the tetrameric assembly. Closing Part I, SMD simulations were employed which allow the delimitation of slow-onset InhA inhibitors from rapid reversible ligands.
\textbf{Prediction of \textit{Mycobacterium tuberculosis} Cell Wall Permeability.} The cell wall of \textit{M. tuberculosis} hampers antimycobacterial drug design due to its unique composition, providing intrinsic antibiotic resistance against lipophilic and hydrophilic compounds. To assess the druggability space of this pathogen, a large-scale data mining endeavor was conducted, based on multivariate statistical analysis of differences in the physico-chemical composition of a normally distributed drug-like chemical space and a database of antimycobacterial--and thus very likely permeable--compounds. The approach resulted in the logistic regression model MycPermCheck, which is able to predict the permeability probability of small organic molecules based on their physico-chemical properties. Evaluation of MycPermCheck suggests a high predictive power. The model was implemented as a freely accessible online service and as a local stand-alone command-line version.
Methodologies and findings from both parts of this thesis were combined to conduct a virtual screening for antimycobacterial substances. MycPermCheck was employed to screen the chemical permeability space of \textit{M. tuberculosis} from the entire ZINC12 drug-like database. After subsequent filtering steps regarding ADMET properties, InhA was chosen as an exemplary target. Docking to InhA led to a principal hit compound, which was further optimized. The quality of the interaction of selected derivatives with InhA was subsequently evaluated using MD and SMD simulations in terms of protein and ligand stability, as well as maximum free energy change of induced ligand egress. The results of the presented computational experiments suggest that compounds with an indole-3-acethydrazide scaffold might constitute a novel class of InhA inhibitors, worthwhile of further investigation.
Cancer is one of the leading causes of death. 90% of all deaths are caused by the effects of metastases. It is of major importance to successfully treat the primary tumor and metastases. Tumors and metastases often differ in their properties and therefore, treatment is not always successful. In contrast, those therapeutic agents can even promote formation and growth of metastases. Hence, it is indispensable to find treatment options for metastatic disease. One promising candidate represents the oncolytic virus therapy with vaccinia viruses.
The aim of this work was to analyze two cell lines regarding their metastatic abilities and to investigate whether oncolytic vaccinia viruses are useful therapy options. The cell lines used were the human cervical cancer cell line C33A implanted into immune-compromised mice and the murine melanoma cell line B16F10, implanted into immune-competent mice.
The initial point of the investigations was the observation of enlarged lumbar und renal lymph nodes in C33A tumor-bearing mice 35 days post implantation of C33A cells subcutaneously into immune-compromised nude mice. Subsequently, the presence of human cells in enlarged lymph nodes was demonstrated by RT-PCR. To facilitate the monitoring of cancer cell spreading, the gene encoding for RFP was inserted into the genome of C33A cells. In cell culture experiments, it was possible to demonstrate that this insertion did not negatively affect the susceptibility of the cells to virus infection, replication and virus-mediated cell lysis. The analysis of the metastatic process in a xenografted mouse model revealed the continuous progression of lumbar (LN) and renal (RN) lymph node metastasis after C33A-RFP tumor cell implantation. The lymph node volume and the amount of RFP-positive LNs and RNs was increasing from week to week in accordance with the gain of the primary tumor volume. Moreover, the metastatic spread of cancer cells in lymph vessels between lumbar and renal lymph nodes was visualized. Additionally, the haematogenous way of cancer cell migration was demonstrated by RFP positive cancer cells in blood vessels. The haematogenous route of spreading was confirmed by detecting micrometastases in lungs of tumor bearing mice.
The next step was to investigate whether the recombinant oncolytic vaccinia virus GLV-1h68 is a suitable candidate to cure the primary tumor and metastases. Therefore, GLV-1h68 was systemically injected into C33A-RFP tumor bearing mice 21 days after tumor cell implantation. It was demonstrated that the volume of the primary tumor was drastically reduced, and the volume and the amount of RFP positive lumbar and renal lymph nodes were significantly decreasing compared to the untreated control group. Subsequently, this process was analyzed further by investigating the colonization pattern in the C33A-RFP model. It was shown that first the primary tumor was colonized with highest detectable virus levels, followed by LN and RN lymph nodes. Histological analyses revealed the proliferative status of tumor cells in the tumor and lymph nodes, the amount of different immune cell populations and the vascular permeability in primary tumors and lymph nodes having an influence on the colonization pattern of the virus. Whereby, the vascular permeability seems to have a crucial impact on the preferential colonization of tumors compared to lymph node metastases in this tumor model.
C33A turned out to be a useful model to study the formation and therapy of metastases. However, a metastatic model in which the influence of the immune system on tumors and especially on tumor therapy can be analyzed would be preferable. Therefore, the aim of the second part was to establish a syngeneic metastatic mouse model.
Accordingly, the murine melanoma cell line B16F10 was analyzed in immunocompetent mice. First, the highly attenuated GLV 1h68 virus was compared to its parental strain LIVP 1.1.1 concerning infection, replication and cell lysis efficacy in cell culture. LIVP 1.1.1 was more efficient than GLV-1h68 and was subsequently used for following mouse studies. Comparative studies were performed, comparing two different implantation sites of the tumor cells, subcutaneously and footpad, and two different mouse strains, FoxN1 nude and C57BL/6 mice. Implantation into the footpad led to a higher metastatic burden in lymph nodes compared to the subcutaneous implantation site. Finally, the model of choice was the implantation of B16F10 into the footpad of immune-competent C57BL/6 mice. Furthermore, it was inevitable to deliver the virus as efficient as possible to the tumor and metastases. Comparison of two different injection routes, intravenously and intratumorally, revealed, that the optimal injection route was intratumorally. In summary, the murine B16F10 model is a promising model to study the effects of the immune system on vaccinia virus mediated therapy of primary tumors and metastases.
This investigation deals with the history of the reception of phenomenological philosophy in cognitive science and how this reception has altered and continues to shape the traditional view of cognition inspired by the computer metaphor of mind. The claim will be espoused that cognitive science is not devoid of a philosophical perspective and cognitivism will be characterized precisely as the philosophy behind much work in cognitive science. In conclusion, the irreducibility of philosophical questioning to cognitive science will be defended and reasons will be given as to why it matters to mount such defense.
Opioids have been, since centuries, the gold standard for pain treatment and relief. They exert their effects after binding to opioid receptors (OP) that are expressed and functional in the central (CNS) and peripheral nervous system (PNS). As their systemic application has many side effects, including sedation and respiratory depression, a peripheral application of opioids and selective targeting of µ-OP (MOP) in nociceptive axons would be extremely beneficial. MOP presence and function has been conclusively demonstrated at nerve terminals; however it is still controversial whether functional MOPs are available on the membrane of peripheral nociceptive axons to mediate opioid-induced antinociception. While under pathologic conditions (i.e. nerve injury) exogenous as well as endogenous MOP agonists applied at the damaged nerve can elicit potent antinociception or anti-allodynia, under physiological conditions no antinociception was seen in rats. This could be caused by either a lack of functional opioid receptors in the axonal membranes or by the inability of injected opioids to cross the intact perineurial barrier and to reach nociceptors. Previous behavioral test results showed an antinociceptive effect (up to 5h) following perisciatic application of the hydrophilic DAMGO (MOP agonist) if coinjected with hypertonic saline solution (HTS; 10% NaCl), a treatment suited to open the perineural barrier. The effect was inhibited by naloxone, a MOP antagonist, documenting its specific action via MOP. Fentanyl, a lipophilic opioid, elicited an effect, which was enhanced by HTS treatment, indicating that HTS may act not only on the barrier but also directly on axonal MOP presence and/or functionality. To provide a basis for testing this hypothesis, the present work was designed to study the axonal localization of MOP in experimental animals under different conditions using molecular and morphological methods.
Initially four different commercial antibodies were tested for MOP detection. Immunoreactions with these antibodies specifically detected MOP in the hippocampus and in amygdala, while in the peripheral nervous system the reactions showed varying labeling patterns pointing towards less specificity with low signal-to-noise ratio. Double labelling with calcitonin gene related peptide (CGRP), a neuropeptide expressed in sensory fibers, with the non-compacted myelin marker S100 or with the neuronal marker PGP9.5 documented significant immunoreaction signals outside sensory nerve fibers. Therefore, none of these antibodies appeared suitable. Taking advantage of a new commercial monoclonal rabbit antibody (RabMAb) and of genetically modified mice in which the fluorescent protein mcherry was inserted in the C-tail of MOP (MOP-mcherry knock-in mice), MOP fusion protein expression in rat and mouse CGRP+ sciatic nerve fibers and fiber bundles was confirmed by immunofluorescence labeling. Immunoelectron microscopic analysis indicated MOP/MOP-mcherry-localization in the cytoplasm and the membranes of unmyelinated axons organized in Remak bundles. Both antibodies detected bands of appropriate size in Western Blot in the CNS and additional larger bands in the PNS. Quantitative analyses 60 min after HTS-treatment revealed no change in MOP mRNA in the sciatic nerve and DRG as well as no change in MOP immunoreactivity in the sciatic nerve. Thus, the opioid-induced long lasting antinociception enhanced by perisciatic injection of HTS were not due to a sustained increased MOP expression or content in sensory, putative nociceptive axons.
In summary, the current study succeeded to unequivocally document the presence of MOP protein in intact sensory axons of rat and mouse sciatic nerve. Thus, axonal MOPs may indeed mediate antinociceptive opioid effects observed in behavioral studies in naive animals possibly via activation of potassium or calcium channels. As HTS treatment does not lead to a sustained increase in axonal MOP protein or MOP mRNA expression, other mechanisms might enhance MOP function, including inhibition of MOP recycling or changes in functional coupling. Future studies should further explore the axonal mechanisms of antinociception by opioids and enhancing treatments.
The combination of a topological insulator (TI) and a superconductor (S), which together
form a TI/S interface, is expected to influence the possible surface states in the
TI. It is of special interest, if the theoretical prediction of zero energy Majorana states
in this system is verifiable. This thesis presents the experimental realization of such
an interface between the TI strained bulk HgTe and the S Nb and studies if the afore
mentioned expectations are met.
As these types of interfaces were produced for the first time the initial step was
to develop a new lithographic process. Optimization of the S deposition technique as
well as the application of cleaning processes allowed for reproducible fabrication of
structures. In parallel the measurement setup was upgraded to be able to execute the
sensitive measurements at low energy. Furthermore several filters have been implemented
into the system to reduce high frequency noise and the magnetic field control
unit was additionally replaced to achieve the needed resolution in the μT range.
Two kinds of basic geometries have been studied: Josephson junctions (JJs) and
superconducting quantum interference devices (SQUIDs). A JJ consists of two Nb contacts
with a small separation on a HgTe layer. These S/TI/S junctions are one of the
most basic structures possible and are studied via transport measurements. The transport
through this geometry is strongly influenced by the behavior at the two S/TI
interfaces. In voltage dependent differential resistance measurements it was possible
to detect multiple Andreev reflections in the JJ, indicating that electrons and holes are
able to traverse the HgTe gap between both interfaces multiple times while keeping
phase coherence. Additionally using BTK theory it was possible to extract the interface
transparency of several junctions. This allowed iterative optimization for the highest
transparency via lithographic improvements at these interfaces. The increased transparency
and thus the increased coupling of the Nb’s superconductivity to the HgTe
results in a deeper penetration of the induced superconductivity into the HgTe. Due
to this strong coupling it was possible to enter the regime, where a supercurrent is
carried through the complete HgTe layer. For the first time the passing of an induced
supercurrent through strained bulk HgTe was achieved and thus opened the area for
detailed studies. The magnetic dependence of the supercurrent in the JJ was recorded,
which is also known as a Fraunhofer pattern. The periodicity of this pattern in magnetic
field compared to the JJ geometry allowed to conclude how the junction depends
on the phase difference between both superconducting contacts. Theoretical calculations
predicted a phase periodicity of 4p instead of 2p, if a TI is used as weak link
material between the contacts, due to the presence of Majorana modes. It could clearly
be shown that despite the usage of a TI the phase still was 2p periodic. By varying
further influencing factors, like number of modes and phase coherence length in the
junction, it might still be possible to reach the 4p regime with bound Majorana states
in the future. A good candidate for further experiments was found in capped HgTe
samples, but here the fabrication process still has to be developed to the same quality
as for the uncapped HgTe samples.
The second type of geometry studied in this thesis was a DC-SQUID, which consists
of two parallel JJs and can also be described as an interference device between two JJs.
The DC-SQUID devices were produced in two configurations: The symmetric SQUID,
where both JJs were identical, and the asymmetric SQUID, where one JJ was not linear,
but instead has a 90° bent. These configurations allow to test, if the predicted
uniformity of the superconducting band gap for induced superconductivity in a TI
is valid. While the phase of the symmetric SQUID is not influenced by the shape of
the band gap, the asymmetric SQUID would be in phase with the symmetric SQUID
in case of an uniform band gap and out of phase if p- or d-wave superconductivity
is dominating the transport, due to the 90° junction. As both devices are measured
one after another, the problem of drift in the coil used to create the magnetic field has
to be overcome in order to decide if the oscillations of both types of SQUIDs are in
phase. With an oscillation period of 0.5 mT and a drift rate in the range of 5.5 μT/h
the measurements on both configurations have to be conducted in a few hours. Only
then the total shift is small enough to compare them with each other. For this to be
possible a novel measurement system based on a real time micro controller was programmed,
which allows a much faster extraction of the critical current of a device. The
measurement times were reduced from days to hours, circumventing the drift problems
and enabling the wanted comparison. After the final system optimizations it has
been shown that the comparison should now be possible. Initial measurements with
the old system hinted that both types of SQUIDs are in phase and thus the expected
uniform band gap is more likely. With all needed optimizations in place it is now up
to the successors of this project to conclusively prove this last point.
This thesis has proven that it is possible to induce superconductivity in strained
bulk HgTe. It has thus realized the most basic sample geometry proposed by Fu and
Kane in 2008 for the appearance of Majorana bound states. Based on this work it is
now possible to further explore induced superconductivity in strained bulk HgTe to
finally reach a regime, where the Majorana states are both stable and detectable.
Effect of cytokine inhibition on peripheral memory B cells in patients with Rheumatoid arthtritis
(2015)
Objective: Rheumatoid arthritis (RA) is a chronic, systemic, inflammatory autoimmune disease. Enhanced B cell activity has been proposed in the pathogenesis of RA along with different pro-inflammatory cytokines such as interleukin 6 (IL-6) and tumor necrosis factor alpha (TNF-α), critically involved in chronic inflammation. Biological agents targeting these cytokines IL-6 and TNF-α have considerably advanced treatment of autoimmunity. Enhanced B cell activity, particularly memory B cells gained particularly interest in evaluating response during therapies from biologics. Human peripheral memory B cells can be distinguished by the phenotypic expression of CD27 and IgD defining three major B cell subpopulations: CD27+IgD+ pre-switch, CD27+IgD- post-switch and CD27-IgD- double negative (DN) memory B cells. Therefore, we analyzed different memory populations during cytokine inhibition by using tocilizumab (anti-IL-6R, TCZ) and adalimumab (anti-TNF-α, ADA), with focus on DN B cells Suspended. DN B cells lacking the conventional memory marker CD27, but due to their mutational Ig repertoire (IgR) considered in the memory compartment. However, only scare data are available for this DN subpopulation in RA.
Methods: Phenotype analysis of activation markers (CD95 and ki-67) of B cell and their subsets were compared in RA patients (median age ~56 years) and in HD. DN memory B cells were phenotypically analyzed from RA patients during IL-6R or TNF-α inhibition at baseline week 12, week 24 and 1 year. Single B cell PCR approach was used to study Ig- receptors VH genes and isotype specific genes. Nonparametric Wilcoxon matched pair test and Mann-Whitney U test was used for statistical analysis by using GraphPadPrism 5. Univariate logistic regression was used to calculate odd ratios and correlation using Pearson r using SPSS statistics 22.
Results: Surface and intracellular staining of B cells showed a significantly higher percentage of CD95 and ki-67 expressions in RA, which was highest in post-switch memory B cells followed by pre-switch and DN memory B cells. During cytokines (IL-6R & TNF-α) inhibition, both CD95 and ki-67 expression were significantly reduced at week 12 and 24 along with reduction in their clinical parameters like DAS28, CRP, ESR. Furthermore, the phenotypic analysis in 107 RA patients and 49 healthy donors (HD) showed a significantly expanded population of DN B cells in RA which contain a heterogeneous mixture of IgA, IgG and IgM expressing cells with a clear dominance of IgG+ cells. Pre-therapy analysis of rearranged IgR sequences from patients (n=9) revealed that DN B cells carry rearranged heavy chain gene sequences with a diversified mutational pattern consistent with memory B cells. In contrast to tumor necrosis factor alpha (TNF-alpha) inhibition, a significant reduction in mutational frequency of BCR gene rearrangements at week 12, 24 and 1 year (p < 0.0001) was observed by in vivo IL-6R inhibition. These changes were observed for all BCR isotypes IgG, IgA and IgM at week 12, 24 and 1 year (p < 0.0001). IgA-RF, IgA serum level and IgA+ DN B cells decreased significantly (p < 0.05) at week 12 and week 24 during TCZ. Patients with a good European league against rheumatism (EULAR) response to TCZ had less DN B cells at baseline as compared to moderate responders (p = 0.006). Univariate logistic regression analysis revealed that the frequency of DN B cells at baseline is inversely correlated to a subsequent good EULAR response (p = 0.024) with an odds ratio of 1.48 (95% confidence interval as 1.05-2.06).
Conclusion: Both anti-TNF-α and anti-IL-6R could reduce higher B cell activity and improve disease activity tremendously in RA patients. The heterogeneous DN B cell compartment is expanded in RA and dominated by IgG isotype. TCZ can modulate the mutational status of DN Ig isotype receptors over 1 year. Interestingly, the frequency of DN B cells in RA may serve as a baseline predictor of subsequent EULAR response to TCZ.
The purpose of confidence and prediction intervals is to provide an interval estimation for an unknown distribution parameter or the future value of a phenomenon. In many applications, prior knowledge about the distribution parameter is available, but rarely made use of, unless in a Bayesian framework. This thesis provides exact frequentist confidence intervals of minimal volume exploiting prior information. The scheme is applied to distribution parameters of the binomial and the Poisson distribution. The Bayesian approach to obtain intervals on a distribution parameter in form of credibility intervals is considered, with particular emphasis on the binomial distribution. An application of interval estimation is found in auditing, where two-sided intervals of Stringer type are meant to contain the mean of a zero-inflated population. In the context of time series analysis, covariates are supposed to improve the prediction of future values. Exponential smoothing with covariates as an extension of the popular forecasting method exponential smoothing is considered in this thesis. A double-seasonality version of it is applied to forecast hourly electricity load under the use of meteorological covariates. Different kinds of prediction intervals for exponential smoothing with covariates are formulated.
In summary, we have prepared single-wall carbon nanotube (SWNT) thin films by the method of evaporation-induced self-assembly (EISA). Using the scalable two-plate or lens setups, sorts of different film types or patterns of SWNTs has been successfully fabricated directly from the evaporation of solvents and could be precisely controlled by the concentrations of SWNT in ambient conditions. The special geometry of meniscus as the capillary bridge has not only given rise to a much higher efficiency of fabrication than what previously reported but also allowed us to monitor the pinning and depinning process carefully and further investigate the mechanism underlying the formation of different film morphologies.
In contrast with the conventional "stick-slip" model, we have provided the new dynamical pinning and zipping model for the contact line (CL) behavior. By analyzing the motion of CL and varying deposited patterns, the traditionally so-called "stick" state should be treated as a dynamical pinning process due to the interfacial tension contrast between SWNT-covered and bare silicon surface. Besides, the plausible one-step "slip" motion could be dominated by the zipping-like kink propagation.
In addition, the experiments with heated substrates at higher temperatures between 30°C and 50 °C have shown that the striped pattern could be fabricated by both much lower SWNT and SDS concentrations than that in room temperature, which is consistent with our model of interfacial tension contrast. In this situation, the deposition rate was increased but the quality of SWNT alignment was undermined because the corresponding moving velocity of SWNT was also too fast for SWNTs to rotate when the evaporative rate was high.
The similar results were identified by the SWNT/polymer conjugates dispersed in chloroform under the similar setups and other identical conditions. The typical breathing motion of dynamical pinning and zipping-like propagation for depinning were confirmed by the new suspensions despite that some morphological parameters changed dramatically compared with that from the aqueous solution. For example, the spacing between stripes reached 100 µm ~ 200 µm because the large contact angle contrast between HDMS- and SWNT-covered surface accompanies with the high evaporation rate of chloroform in the pinning and depinning process. Likewise the average CL velocity for fabrication reached around 20 µm/s due to the much higher evaporation rate of chloroform than water.
Using alike suspensions, the modified EISA method called dose-controlled floating evaporative self-assembly (DFES) was employed to implement the self-assembly of SWNTs on the water/air interface and then deposit them on solid substrate by directed floating. Although the stripes were fabricated successfully by drops with certain doses and SWNT concentrations, there inevitably existed randomly oriented SWNTs from the water surface that built networks between the stripes containing well-aligned tubes. In order to slow down the evaporation rate and monitor the process detailedly, we used chlorobenzene as the solvent instead of chloroform and find the typical pinning/depinning movement of the CL. A preliminary analysis of the results in terms of chlorobenzene implied that the CL possibly followed the similar pinning/depinning process in consistence with our model with capillary bridge.
In the last part of the thesis, the primary research on the optical properties of these stripes of ultrahigh purity semiconducting nanotubes was conducted by fluorescence microscopy and photoluminescence excitation (PLE) spectroscopy. The energy transfer of the photogenerated excitons was confirmed between different tube species with controlled band gaps.
In short, the experiments performed in this thesis allowed to gain new insights about the fabrication of large-area SWNT thin films by the cost-effective solution-processed method and most importantly to uncover its intrinsic mechanism as well. Combined with the separation and selection technique like density gradient centrifugation or polyfluorene derivatives assisted method, highly monodisperse semiconducting nanotubes could be deposited into organized, controllable and functional arrays.
Beyond the ambient conditions, precise control for the evaporation under preset temperature and vapor pressure could possibly extend the technique to the industry level. Assisted by some other mature techniques such as roll-to-roll printing, the cost-effective method could be widely used in the manufacture of various thin film devices. More complex 2D or even 3D structures could be designed and accomplished by the method for the functional or stretchable requirements. Further research on the fundamental exciton transition and diffusion in different networks or structures of SWNTs will be the significant precondition for the real applications.
Looking ahead, from the individual carbon nanotube to its thin film, this promising material with outstanding properties had many challenges to overcome before the real-world applications. Thanks to the availability of pure and well-defined materials, the scalable solution-processed approaches for fabrication of thin films should be able to unlock the potential of carbon nanotubes and exploit them in (opto-)electronic devices in the foreseeing future.
Pulsars (in short for Pulsating Stars) are magnetized, fast rotating neutron stars. The basic picture of a pulsar describes it as a neutron star which has a rotation axis that is not aligned with its magnetic field axis. The emission is assumed to be generated near the magnetic poles of the neutron star and emitted along the open magnetic field lines. Consequently, the corresponding beam of photons is emitted along the magnetic field line axis. The non-alignment of both, the rotation and the magnetic field axis, results in the effect that the emission of the pulsar is only seen if its beam points towards the observer.
The emission from a pulsar is therefore perceived as being pulsed although its generation is not. This rather simple geometrical model is commonly referred to as Lighthouse Model and has been widely accepted. However, it does not deliver an explanation of the precise mechanisms behind the emission from pulsars (see below for more details).
Nowadays more than 2000 pulsars are known. They are observed at various wavelengths. Multiwavelength studies have shown that some pulsars are visible only at certain wavelengths while the emission from others can be observed throughout large parts of the electromagnetic spectrum. An example of the latter case is the Crab pulsar which is also the main object of interest in this thesis. Originating from a supernova explosion observed in 1054 A.D. and discovered in 1968, the Crab pulsar has been the central subject of numerous studies. Its pulsed emission is visible throughout the whole electromagnetic spectrum which makes it a key figure in understanding the possible mechanisms of multiwavelength emission from pulsars.
The Crab pulsar is also well known for its radio emission strongly varying on long as well as on short time scales. While long time scale behaviour from a pulsar is usually examined through the use of its average profile (a profile resulting from averaging of a large number of individual pulses resulting from single rotations), short time scale behaviour is examined via its single pulses. The short time scale anomalous behaviour of its radio emission is commonly referred to as Giant Pulses and represents the central topic of this thesis.
While current theoretical approaches place the origin of the radio emission from a pulsar like the Crab near its magnetic poles (Polar Cap Model) as already indicated by the Lighthouse model, its emission at higher frequencies, especially its gamma-ray emission, is assumed to originate further away in the geometrical region surrounding a pulsar which is commonly referred to as a pulsar magnetosphere (Outer Gap Model). Consequently, the respective emission regions are usually assumed not to be connected. However, past observational results from the Crab pulsar represent a contradiction to this assumption.
Radio giant pulses from the Crab pulsar have been observed to emit large amounts of energy on very short time scales implying small emission regions on the surface of the pulsar. Such energetic events might also leave a trace in the gamma-ray emission of the Crab pulsar.
The aim of this thesis is to search for this connection in the form of a correlation study between radio giant pulses and gamma-photons from the Crab pulsar.
To make such a study possible, a multiwavelength observational campaign was organized for which radio observations were independently applied for, coordinated and carried out with the Effelsberg radio telescope and the Westerbork Synthesis Radio Telescope and gamma-ray observations with the Major Atmospheric Imaging Cherenkov telescopes. The corresponding radio and gamma-ray data sets were reduced and the correlation analysis thereafter consisted of three different approaches:
1) The search for a clustering in the differences of the times of arrival of radio giant pulses and gamma-photons;
2) The search for a linear correlation between radio giant pulses and gamma-photons using the Pearson correlation approach;
3) A search for an increase of the gamma-ray flux around occurring radio giant pulses.
In the last part of the correlation study an increase of the number of gamma-photons centered on a radio giant pulse by about 17% (in contrast with the number of gamma-photons when no radio giant pulse occurs in the same time window) was discovered. This finding suggests that a new theoretical approach for the emission of young pulsars like the Crab pulsar, is necessary.
A series of combustion relevant species like radicals, carbenes and polycyclic aromatic hydrocarbons were characterized in the gas phase by vacuum UV synchrotron radiation and their ionization energies (IE) and further spectroscopic details of the respective cations were retrieved from threshold photoelectron spectra. The reactive intermediates were generated by flash vacuum pyrolysis from stable precursor molecules. Furthermore three polycyclic aromatic hydrocarbons were investigated by threshold photoelectron spectroscopy, too. The experiment was performed at the VUV beamline of the Swiss Light Source in Villigen/Switzerland and the iPEPICO (imaging photoelectron photoion coincidence) setup was applied to correlate ions and electrons from the same ionization event. From the threshold photoelectron spectra and from quantum chemical computations the vibrational structure of the molecule cations and the geometry changes upon ionization were assigned. The ionization energies of the two C4H5 isomers 2-butyn-1-yl and 1-butyn-3-yl were assigned to 7.94±0.02 eV and 7.97±0.02 eV, respectively. The isomerization between the two isomers was computed to have a barrier of 2.20 eV, so a rearrangement between the two radicals cannot be excluded. From the threshold photoelectron spectra of the two constitutional C4H7 isomers 1-methylallyl and 2-methylallyl the ionization energies were assigned to 7.48±0.02 eV and to 7.59±0.02 eV for 1-E-methylallyl and 1-Z-methylallyl, as well as to 7.88±0.01 eV for 2-methylallyl. The two radicals 9-fluorenyl, C13H9, and benzhydryl, C13H11, were observed to ionize at 7.01±0.02 eV and 6.7 eV. The threshold photoelectron spectrum of benzhydryl also incorporated the signal of the diphenylmethyl carbene, C13H10, which has an IE at 6.8 eV. In addition, the head-to-head dimers of 9-fluorenyl and benzhydryl were observed as products in the pyrolysis. C26H18 has an IE at 7.69±0.04 eV and C26H22 has an IE at 8.13±0.04 eV. The three polycyclic aromatic hydrocarbon DHP (C14H16) 1-PEN (C18H22) and THCT (C22H16) were investigated in an effusive beam. The ionization energies were determined to IE(DHP)= 7.38±0.02 eV, IE(1-PEN)=7.58±0.05 eV and IE(THCT)=6.40±0.02 eV. Furthermore the thermal decomposition and the dissociative photoionization of diazomeldrum’s acid was investigated. The pyrolysis products yielded beside several other products the two not yet (by photoelectron spectroscopy) characterized molecules E-formylketene, C3O2H2 and 2-diazoethenone, N2C2O. The dissociative photoionization showed the Wolff rearrangement to occur at higher internal energies.
Brain-computer interfaces (BCIs) could provide a muscle-independent communication channel to persons with severe paralysis by translating brain activity into device commands. As a means of communication, in particular BCIs based on event-related potentials (ERPs) as control signal have been researched. Most of these BCIs rely on visual stimulation and have been investigated with healthy participants in controlled laboratory environments. In proof-of-principle studies targeted end users gained control over BCI systems; however, these systems are not yet established as an assistive technology for persons who would most benefit from them. The main aim of this thesis is to advance the usability of ERP-BCIs for target users. To this end, five studies with BCIs have been conducted that enabled users to communicate by focusing their attention on external stimuli.
Two studies were conducted in order to demonstrate the advantages and to further improve the practical application of visual BCIs. In the first study, mental workload was experimentally manipulated during prolonged BCI operation. The study showed the robustness of the visual ERP-BCI since users maintained a satisfactory level of control despite constant distraction in the form of background noise. Moreover, neurophysiological markers that could potentially serve as indicators of high mental workload or fatigue were revealed. This is a first step towards future applications in which the BCI could adapt to the mental state of the user (e.g. pauses if high mental workload is detected to prevent false selections). In the second study, a head-mounted display (HMD), which assures that stimuli are presented in the field of view of the user, was evaluated. High accuracies and information transfer rates, similar to a conventional display, were achieved by healthy participants during a spelling task. Furthermore, a person in the locked-in state (LIS) gained control over the BCI using the HMD. The HMD might be particularly suited for initial communication attempts with persons in the LIS in situations, where mounting a conventional monitor is difficult or not feasible.
Visual ERP-BCIs could prove valuable for persons with residual control over eye muscles and sufficient vision. However, since a substantial number of target users have limited control over eye movements and/or visual impairments, BCIs based on non-visual modalities are required. Therefore, a main aspect of this thesis was to improve an auditory paradigm that should enable motor impaired users to spell by focusing attention on different tones. The two conducted studies revealed that healthy participants were able to achieve high spelling performance with the BCI already in the first session and stress the importance of the choice of the stimulus material. The employed natural tones resulted in an increase in performance compared to a previous study that used artificial tones as stimuli. Furthermore, three out of five users with a varying degree of motor impairments could gain control over the system within the five conducted sessions. Their performance increased significantly from the first to the fifth session - an effect not previously observed for visual ERP-BCIs. Hence, training is particularly important when testing auditory multiclass BCIs with potential users.
A prerequisite for user satisfaction is that the BCI technology matches user requirements. In this context, it is important to compare BCIs with already established assistive technology. Thus, the fifth study of this dissertation evaluated gaze dependent methods (EOG, eye tracking) as possible control signals for assistive technology and a binary auditory BCI with a person in the locked-in state. The study participant gained control over all tested systems and rated the ease of use of the BCI as the highest among the tested alternatives, but also rated it as the most tiring due to the high amount of attention that was needed for a simple selection. Further efforts are necessary to simplify operation of the BCI.
The involvement of end users in all steps of the design and development process of BCIs will increase the likelihood that they can eventually be used as assistive technology in daily life. The work presented in this thesis is a substantial contribution towards the goal of re-enabling communication to users who cannot rely on motor activity to convey their thoughts.
Following the early experiences in aviation, medical simulation has rapidly
evolved into one of the most novel educational tools of the last three decades. In addition to its
use in training individuals or teams in crisis resource management, simulation has been studied as
a tool to evaluate technical and non-technical skills of individuals as well as, more recently,
entire medical teams.
It is usually fairly difficult to obtain clinical reference data from critical events to refute
claims that the management of actual events fell below what could reasonably be expected and we
demonstrated the use of rank order statistics to calculate quantiles with confidence limits for
management times of critical obstetrical events using data from realistic simulation. This approach
could be used to describe the distribution of treatment times in order to assist in deciding what
performance may constitute an outlier. It can also identify particular challenges of clinical
practice and allow the development of educational curricula. While the information derived from
simulation has to be interpreted with a high degree of caution for a clinical context, it may
represent a further ‘added value’ or important step in establishing simulation as a training tool
and to provide information that could be used in an appropriate clinical context for adverse
events. Large amounts of data (such as from a simulation registry) would allow the calculation of
acceptable confidence intervals for the required
outcome parameters as well as actual tolerance limits.
Aim of this thesis was to combine the versatility of sulfur-chemistry, regarding redox-sensitivity as well as chemo- and site-specific conjugation, with multifunctionality of poly(glycidol)s as an alternative to poly(ethylene glycol).
First the homo- and copolymerizations of EEGE and AGE were performed with respect to molar-mass distribution and reaction kinetics. A detailed study was given, varying the polymerization parameters such as DP, counter ion, solvent and monomer influence. It can be concluded that in general the rates for all polymerizations are higher using K+, in contrast to Cs+, as counter ion for the active alkoxide species. Unfortunately, K+ as counter ion commonly leads to a reduced control over polymer dispersity. In this thesis it was shown that the broad molar-mass distributions might be reduced by adding the monomer in a step-wise manner. In experiments with a syringe pump, for continuously adding the monomer, a significant reduction of the dispersities could be found using K+ as counter ion.
In analogy to the oxyanionic polymerization of epoxides, the polymerization of episulfides via a thioanionic mechanism with various DPs was successful with thiols/DBU as initiator. In most experiments bimodality could be observed due to the dimerization, caused by oxidation processes by introduced oxygen during synthesis. Reducing this was successful by modifying the degassing procedure, e.g. repeated degassing cycles after each step, i.e. initiation, monomer addition and quenching. Unfortunately, it was not always possible to completely avoid the dimerization due to oxidation. Thiophenol, butanethiol, mercaptoethanol and dithiothreitol were used as thiol initiators, all being capable to initiate the polymerization. With the prediction and the narrow molar-mass distributions, the living character of the polymerization is therefore indicated.
Homo- and copolymers of poly(glycidol) were used to functionalize these polymers with side-chains bearing amines, thiols, carboxylic acids and cysteines. The cysteine side-chains were obtained using a newly synthesized thiol-functional thiazolidine. For this, cysteine was protected using a condensation reaction with acetone yielding a dimethyl-substituted thiazolidine. Protection of the ring-amine was obtained via a mixed-anhydride route using formic acid and acetic anhydride. The carboxylic acid of 2,2-dimethylthiazolidine-4-carboxylic acid was activated with CDI and cysteamine attached. The obtained crystalline mercaptothiazolidine was subjected to thiol-ene click chemistry with allyl-functional poly(glycidol). A systematic comparison of thermal- versus photo-initiation showed a much higher yield and reaction rate for the UV-light mediated thiol-ene synthesis with DMPA as photo-initiator. Hydrolysis of the protected thiazolidine-functionalities was obtained upon heating the samples for 5 d at 70 °C in 0.1 M HCl. Dialysis against acetic acid lead to cysteine-functional poly(glycidol)s, storable as the acetate salt even under non-inert atmosphere. An oxidative TNBSA assay was developed to quantify the cysteine-content without the influence of the thiol-functionality. A cooperation partner coupled C-terminal thioester peptides with the cysteine-functional poly(glycidol)s and showed the good accessibility and reactivity of the cysteines along the backbone. SDS-PAGE, HPLC and MALDI-ToF measurements confirmed the successful coupling.
It is generally agreed upon the fact that the Standard Model of particle physics can only be viewed as an effective theory that needs to be extended as it leaves some essential questions unanswered. The exact realization of the necessary extension is subject to discussion. Supersymmetry is among the most promising approaches to physics beyond the Standard Model as it can simultaneously solve the hierarchy problem and provide an explanation for the dark matter abundance in the universe. Despite further virtues like gauge coupling unification and radiative electroweak symmetry breaking, minimal supersymmetric models cannot be the ultimate answer to the open questions of the Standard Model as they still do not incorporate neutrino masses and are besides heavily constrained by LHC data. This does, however, not derogate the beauty of the concept of supersymmetry. It is therefore time to explore non-minimal supersymmetric models which are able to close these gaps, review their consistency, test them against experimental data and provide prospects for future experiments.
The goal of this thesis is to contribute to this process by exploring an extraordinarily well motivated class of models which bases upon a left-right symmetric gauge group. While relaxing the tension with LHC data, those models automatically include the ingredients for neutrino masses.
We start with a left-right supersymmetric model at the TeV scale in which scalar \(SU(2)_R\) triplets are responsible for the breaking of left-right symmetry as well as for the generation of neutrino masses. Although a tachyonic doubly-charged scalar is present at tree-level in this kind of models, we show by performing the first complete one-loop evaluation that it gains a real mass at the loop level. The constraints on the predicted additional charged gauge bosons are then evaluated using LHC data, and we find that we can explain small excesses in the data of which the current LHC run will reveal if they are actual new physics signals or just background fluctuations. In a careful evaluation of the loop-corrected scalar potential we then identify parameter regions in which the vacuum with the phenomenologically correct symmetry-breaking properties is stable. Conveniently, those regions favour low left-right symmetry breaking scales which are accessible at the LHC.
In a slightly modified version of this model where a \(U(1)_R × U(1)_{B−L}\) gauge symmetry survives down to the TeV scale, we implement a minimal gauge-mediated supersymmetry breaking mechanism for which we calculate the boundary conditions in the presence of gauge kinetic mixing. We show how the presence of the extended gauge group raises the tree-level Higgs mass considerably so that the need for heavy supersymmetric spectra is relaxed. Taking the constraints from the Higgs sector into account, we then explore the LHC phenomenology of this model and point out where the expected collider signatures can be distinguished from standard scenarios.
In particular if neutrino masses are explained by low-scale seesaw mechanisms as is done throughout this work, there are potentially spectacular signals at low-energy experiments which search for charged lepton flavour violation. The last part of this thesis is dedicated to the detailed exploration of processes like μ → e γ, μ → 3 e or μ−e conversion in nuclei in a supersymmetric framework with an inverse seesaw mechanism. In particular, we disprove claims about a non-decoupling effect in Z-mediated three-body decays and study the prospects for discovering and distinguishing signals at near-future experiments. In this context we identify the possibility to deduce from ratios like BR(\(τ → 3 μ\))/BR(\(τ → μ e^+ e^−\)) whether the contributions from ν − W loops dominate over supersymmetric contributions or vice versa.
Protected areas are the central strategy for preserving biodiversity in the face of overexploitation and global change. To ensure their long-term survival, however, these areas may not be regarded as last havens of wilderness, but as complex social-ecological systems. Modern approaches of protected area (PA) management support this view by balancing conservation and development issues in a sustainable way and adapted to the local context. However, success of these strategies in achieving their aims so far remains limited.
This study therefore aimed at analysing processes and outcomes of PA co-management approaches implemented in a large transfrontier conservation area in West Africa. The W-Arly-Pendjari (WAP) complex spans over more than 30.000 square km in Benin, Burkina Faso and Niger and is composed of approximately 20 subunits. Due to national legal and administrative variety as well as a high diversity of local (project) implementation approaches, the general setting resembled a quasi-experimental design facilitating comparative studies.
A mix of quantitative (e.g. survey of 549 households) and qualitative (e.g. expert interviews, literature review) methods was used to evaluate the institutional and organisational differences of PA management approaches implemented in the different parts of WAP belonging to Benin and Burkina Faso. I included an analysis of contextual factors (e.g. land-cover-change) and ecological data, but concentrated on the role of local resource users within the co-management arrangements and the effectiveness of governance regimes to deliver positive socio-economic outputs. Exploring the question whether promotion of development in PA surroundings indeed stipulates conservation success (and vice versa) remained challenging: the lack of sound ecological data, a general mismatch of spatial scale in existing data sets, as well as the high complexity of realities on the ground made me refrain from using simplified proxy indicators and (statistical) modelling approaches.
I found that the Sudano-Sahelian context is a very difficult one for the implementation of effective participation approaches in the short-term. Political, demographic, socio-economic as well as ecological factors generated a very dynamic situation characterized by limited financial and natural resources as well as weak institutional and organisational settings.
Arenas of interaction were often marked rather by a high degree of distrust and competition than by cooperation among actors. Amid all rhetoric, participation in most cases was hence limited to the transfer of (sparse) information, regulated resource access and financial funds. Options for participation of local resource users in decision-making arenas were generally scarce. Underlying processes were dominated by opacity and often low accountability of actors on all levels. Negative, but also positive affection of local residents by PA existence and management hence was high.
Governance regimes of the complex performed very differently with regard to their ability of effectively empowering local village participatory bodies (vpb), generating and distributing benefits to individuals and village communities as well as providing mechanisms of conflict resolution. People around Pendjari enjoyed a relative wealth of high value benefits, while negative impacts caused by human-wildlife conflicts were widespread around the complex. Autochthonous farmers usually were better integrated in incentive schemes than were newcomers or herders.
While there was functional separation of actors’ roles in all parts of WAP, these roles differed significantly between blocks. Existence and functioning of village participatory bodies ameliorated the situation for local resource users fundamentally, as they acted as cut-points between different networks (governmental hierarchies, private concessionaires and local resource users). Vpbs in the Pendjari region proved to be most advanced in their capacity to push resource users’ claims in action arenas on the micro-level. Via their union, these associations also managed to impact arenas on the meso- and the macro scale.
Project interventions often had catalyst functions to empower local resource users and their vbps. However, they also contributed to social imbalance and intra-organisational competition.
My results represent a snapshot of an ongoing process to establish effective co-governance regimes in the WAP-area. Though I identified a large scope of shortcomings, there were also very promising initiatives underway. This work is therefore meant to foster future research and further positive development by giving guidance scholars and decision-makers form the local to the global level alike.
Glioblastoma multiforme (GBM) is one of the most frequent and malignant forms of brain cancer in adults. The prognosis is poor with a median survival time of 12-15 months. There is a broad range of alternative treatment options studied in preclinical and clinical trials for GBM. One alternative treatment option is oncolytic virotherapy, defined as the use of replication‐competent viruses that selectively infect and destroy cancer cells while leaving, non‐transformed cells unharmed. Vaccinia virus (VACV) is one favorable candidate. Although oncolytic viruses can kill tumor cells grown in vitro with high efficiency, they often exhibit reduced replication capacity in vivo suggesting that physiological aspects of the tumor microenvironment decrease the virus’ therapeutic potential. The percentage and composition of immune cells varies between cancer types and patients and is investigated as a biomarker in several studies. Making oncolytic virotherapy successful for GBM, it is necessary to understand the individual tumor biology, the interaction with the microenvironment and immune system.
It was demonstrated that the attenuated VACV wild-type (wt) isolate LIVP 1.1.1 replicate and lyse the murine GL261 glioma cell line in vitro. In the following, the replication efficacy was characterized in a comparative approach in vivo. Immunocompetent C57BL/6 (wt) mice and immunodeficient mouse strains of different genetic background C57BL/6 athymic and Balb/c athymic mice were used. In addition, subcutaneous and intracranial locations were compared. The results revealed viral replication exclusively in Balb/c athymic mice with subcutaneous tumors but in none of the other models.
In the following, the tumor microenvironment of the subcutaneous tumor models at the time of infection was performed. The study showed that implantation of the same tumor cells in different mouse strains resulted in a different tumor microenvironment with a distinct composition of immune cells. Highest differences were detected between immunodeficient and immunocompetent mice. The study showed major differences in the expression of MHCII with strongest expression in C57BL/6 wt and weakest in Balb/c athymic tumors. In the following, the influence of the phenotypic change associated with the upregulation of MHCII on GL261 tumor cells on viral replication was analyzed. Comparison of C57BL/6 wt and C57BL/6 IFN-γ knockout mice revealed endogenous IFN-γ levels to upregulate MHCII on GL261 tumor cells and to reduce viral replication in C57BL/6 wt mice. Analysis of single cell suspensions of tumor homogenates of C57BL/6 and Balb/c athymic mice showed that the IFN-γ-mediated anti-tumor effect was a reversible effect. Furthermore, reasons for inhibition of virus replication in orthotopic glioma models were elucidated. By immunohistochemical analysis it was shown that intratumoral amounts of Iba1+ microglia and GFAP+ astrocytes in Gl261 gliomas was independent from intratumoral VACV injection. Based on these findings virus infection in glioma, microglia and astrocytes was compared and analyzed in cell culture. In contrast to the GL261 glioma cells, replication was barely detectable in BV-2 microglia and IMA2.1 astrocytic cells. Co-culture experiments revealed that microglia compete for virus uptake in cell culture. It was further shown that BV-2 cells showed apoptotic characteristics after VACV infection while GL261 cells showed signs of necrotic cell death. Additionally, in BV-2 cells with M1-phenotype a further reduction of viral replication and inhibition of cell lysis was detected. Infection of IMA 2.1 cells was independent of the M1/M2-phenotype. Application of BV-2 microglia with M1-phenotype onto organotypic slice cultures with implanted GL261 tumors resulted in reduced infection of BV-2 cells with LIVP 1.1.1, whereas GL261 cells were significantly infected.
Taken together, the analyzed GL261 tumors were imprinted by the immunologic and genetic background in which they grow. The experimental approach applied in this thesis can be used as suitable model which reflects the principles of personalized medicine
In an additional project, based on gene expression data and bioinformatic analyses, the biological role and function of the anti-apoptotic factor AVEN was analyzed with regard to oncolytic VACV therapy. Besides a comparison of the replication efficacy of GLV-1h68 and VACV-mediated cell killing of four human tumor cell lines, it was shown that AVEN was expressed in all analyzed cells. Further, shown for HT-29 and 1936-MEL, the knockdown of AVEN by siRNA in cell culture resulted in an increase of apoptotic characteristics and a decrease of VACV infection. These findings provide essential insights for future virus development.
Within the framework of this thesis, photolysis reactions in the liquid phase were investigated by means of ultrafast optical spectroscopy. Apart from molecular studies dealing with the highly spin-dependent reactivity of diphenylcarbene (DPC) in binary solvent
mixtures and ligand dissociation reactions of so-called CO-releasing molecules (CORMs),
special emphasis was put on the implementation and characterization of methods improving
and extending the signal detection in conventional pump–probe transient absorption setups.
The assumption of DPC being an archetypal triplet-ground-state arylcarbene was recently questioned by matrix-isolation studies at low temperatures. DPC embedded in argon matrices revealed a hitherto unknown reactivity when the carbene environment was modified by small amounts of methanol dopant molecules. To complement these findings with liquid-phase experiments at room temperature, femtosecond pump–probe transient absorption spectroscopy with probing in the visible and ultraviolet regime was employed to unravel primary reaction processes of DPC in solvent mixtures. Supported by quantum chemical simulations conducted by our collaborators, it was shown that a competition between the reaction pathways occurs that not only depends on the solvent molecule near-by but also on its interaction with other solvent molecules. In-depth analysis of the solvation dynamics and the amount of nascent intermediates corroborates the importance of a hydrogen-bonded complex with a protic solvent molecule, in striking analogy to complexes found at cryogenic temperatures.
Probing the transient absorption of molecules in the mid-infrared spectral range benefits from the high chemical specificity of molecules’ vibrational signatures. The technique of chirped-pulse upconversion (CPU) constitutes a promising alternative to standard direct multichannel MCT detection when accessing this spectral detection window. Hence, one chapter of this thesis is dedicated to a direct comparison between both detection methods. By conducting an exemplary pump–probe transient absorption experiment, it became evident, that the additional nonlinear interaction step is responsible for increased noise levels when using CPU. However, a correction procedure capable of removing these additional noise contributions—stemming from the fundamental laser radiation used for upconversion—was successfully tested. Perhaps most importantly for various spectroscopic applications, CPU scored with a significantly extended detection bandwidth owing to the high pixel numbers of modern CCD cameras.
Transition-metal complexes capable of releasing small molecular messengers upon photoactivation are promising sources of gasotransmitters such as carbon monoxide (CO) or nitric oxide (NO) in biological applications. However, only little is known about the characteristic time scales of ligand dissociation in this class of molecules. For this purpose, two complexes were investigated with femtosecond time resolution: [Mn(CO)3(tpm)]Cl with tpm=tris(2-pyrazolyl)methane, a manganese tricarbonyl complex which has proven to be selective and cytotoxic to cancer cells, and [Mo(CO)2(NO)(iPr3tacn)]PF6 with iPr3tacn=1,4,7-triisopropyl-1,4,7-triazacyclononane, a molybdenum complex containing both carbonyl and nitrosyl ligands. By conducting pump–probe transient absorption measurements in different spectral probing windows supported by quantum chemical calculations and linear absorption spectroscopy, it was shown that both complexes are able to release one CO ligand within the first few picoseconds after UV excitation. The results complement existing studies which focused on the molecules’ ligand-releasing properties upon long-term exposure. The additional information gained on an ultrafast time scale provides a comprehensive understanding of individual reaction steps connected with ligand release in this class of molecules. Hence, the studies might create new incentives to develop modified molecules for specific applications.
Context-specific Consistencies in Information Extraction: Rule-based and Probabilistic Approaches
(2015)
Large amounts of communication, documentation as well as knowledge and information are stored in textual documents. Most often, these texts like webpages, books, tweets or reports are only available in an unstructured representation since they are created and interpreted by humans. In order to take advantage of this huge amount of concealed information and to include it in analytic processes, it needs to be transformed into a structured representation. Information extraction considers exactly this task. It tries to identify well-defined entities and relations in unstructured data and especially in textual documents.
Interesting entities are often consistently structured within a certain context, especially in semi-structured texts. However, their actual composition varies and is possibly inconsistent among different contexts. Information extraction models stay behind their potential and return inferior results if they do not consider these consistencies during processing. This work presents a selection of practical and novel approaches for exploiting these context-specific consistencies in information extraction tasks. The approaches direct their attention not only to one technique, but are based on handcrafted rules as well as probabilistic models.
A new rule-based system called UIMA Ruta has been developed in order to provide optimal conditions for rule engineers. This system consists of a compact rule language with a high expressiveness and strong development support. Both elements facilitate rapid development of information extraction applications and improve the general engineering experience, which reduces the necessary efforts and costs when specifying rules.
The advantages and applicability of UIMA Ruta for exploiting context-specific consistencies are illustrated in three case studies. They utilize different engineering approaches for including the consistencies in the information extraction task. Either the recall is increased by finding additional entities with similar composition, or the precision is improved by filtering inconsistent entities. Furthermore, another case study highlights how transformation-based approaches are able to correct preliminary entities using the knowledge about the occurring consistencies.
The approaches of this work based on machine learning rely on Conditional Random Fields, popular probabilistic graphical models for sequence labeling. They take advantage of a consistency model, which is automatically induced during processing the document. The approach based on stacked graphical models utilizes the learnt descriptions as feature functions that have a static meaning for the model, but change their actual function for each document. The other two models extend the graph structure with additional factors dependent on the learnt model of consistency. They include feature functions for consistent and inconsistent entities as well as for additional positions that fulfill the consistencies.
The presented approaches are evaluated in three real-world domains: segmentation of scientific references, template extraction in curricula vitae, and identification and categorization of sections in clinical discharge letters. They are able to achieve remarkable results and provide an error reduction of up to 30% compared to usually applied techniques.
The successful synthesis of a family of donor-iridium complex-acceptor triads (T1–T6, pMV1 and mMV1) and their electrochemical and photophysical properties were presented in this work. Triarylamines (TAA) were used as donors and naphthalene diimide (NDI) as acceptor. A bis-cyclometalated phenylpyrazole iridium dipyrrin complex acts as a photosensitiser. In addition, a molecular structure of T1 was obtained by single crystal X-ray diffraction.
Transient absorption spectroscopy experiments of these triads resembled that upon excitation a photoinduced electron transfer efficiently generates long-lived, charge-separated (CS) states. Thereby, the electron-transfer mechanism depends on the excitation energy.
The presence of singlet and triplet CS states was clarified by magnetic-field dependent transient-absorption spectroscopy in the nanosecond time regime. It was demonstrated that the magnetic field effect of charge-recombination kinetics showed for the first time a transition from the coherent to the incoherent spin-flip regime.
The lifetime of the CS states could be drastically prolonged by varying the spacer between the iridium complex and the NDI unit by using a biphenyl instead of a phenylene unit in T4.
A mixed-valence (MV) state of two TAA donors linked to an iridium metal centre were generated upon photoexcitation of triad pMV1 and mMV1. The mixed-valence character in these triads was proven by the analysis of an intervalence charge-transfer (IV-CT) band in the (near-infrared) NIR spectral region by femtosecond pump-probe experiments. These findings were supported by TD-DFT calculations.
The synthesis of dyads (D1–D4) was performed. Thereby the dipyrrin ligand was substituted with electron withdrawing groups. The electrochemical and photophysical characterisation revealed that in one case (D4) it was possible to generate a CS state upon photoexcitation.
The pathogenic role of endogenous antibodies in a mouse model for Charcot-Marie-Tooth 1B neuropathy
(2015)
Charcot-Marie-Tooth (CMT) type 1 neuropathies are a genetically heterogeneous group of non-treatable inherited disorders affecting the peripheral nervous system that lead to sensory and motor dysfunction. Secondary low grade inflammation, implicating the innate and adaptive immune system, could previously be identified as a substantial disease modifier in two mouse models for CMT1, CMT1B and 1X, respectively. However, the exact mechanism how the adaptive immune system contributes to disease pathogenesis is not completely understood. Based on observations that the accumulation of endogenous antibodies to myelin components is important for rapid myelin clearance after nerve injury during Wallerian degeneration, a possibly similar mechanism was considered for endogenous antibodies as disease amplifier in mice heterozygously deficient for P0 (P0het), mimicking some typical features of CMT1B.
In this study an increased antibody deposition was detected in the affected peripheral nerves of P0het myelin mutant mice. By crossbreeding P0het mutants with mice specifically lacking B-lymphocytes, and therefore antibodies (JHD-/-), a decline of endoneurial macrophages together with a substantially ameliorated demyelination could be demonstrated in 6-month-old mutant mice. Moreover, reconstitution with murine IgGs reverted the neuropathic phenotype, substantiating that endogenous antibodies are potentially pathogenic at this early stage of disease. Unexpectedly, in 12-months-old P0het mutants, JHD deficiency resulted in disease aggravation accompanied by an increased inflammatory reaction and M2-polarized macrophage response.
These observations suggest that in a mouse model for CMT1B, the lack of endogenous antibodies has a dichotomous effect: ameliorating early macrophage-mediated demyelination, as opposed to increasing inflammatory reactions leading to disease aggravation at older ages.
Intraperitoneal adhesions are fibrous bands that connect tissues in the peritoneal cavity that are usually separated. These adhesions form as a consequence of trauma, inflammation or surgical interventions and often result in severe consequences such as chronic pain, small bowel obstructions or female infertility.
The aim of this thesis was to develop a synthetic barrier device for adhesion prevention made of modified poly(lactide) [PLA]. Solid PLA films (SurgiWrap®) are already successfully in clinical use due to the good biocompatibility and the biodegradability of the material resulting in non-toxic degradation products since lactic acid is naturally part of the metabolic circles of the human body. Considering the brittleness and stiffness of the films, the long degradation time of several months as well as the need for suturing, there is potential for optimization. Through a copolymerization with the hydrophilic poly(ethylene glycol) [PEG], a reduction of the degradation time was intendend. Moreover, the copolymerization should also lead to an improvement of the mechanical properties of the films since PEG acts as plasticizer for PLA. Linear PLA-PEG-PLA triblock copolymers as well as star-shaped PEG-PLA copolymers were synthesized via standard ring opening polymerization to tailor the barrier properties. Besides solid films, solution electrospun meshes from PLA and the synthesized PEG-PLA copolymers were investigated for a potential application as well. Since suturing of a barrier additionally induces adhesion formation, alginate coated membranes were prepared in order to achieve self-adhesiveness. With the intention to reduce infections and consequently inflammation, electrospun meshes and solvent cast films were loaded with the antibacterial drug triclosan and drug release as well as antibacterial efficacy was investigated.
Mechanical tests confirmed that through the variation of the PEG content and branching the mechanical properties can be tailored and are in good accordance with the glass transition temperatures [Tg] of the polymers. Consequently, potentially adequate mechanical properties for surgical handling as well as for the performance within the patient’s body were successfully achieved. Degradation studies revealed that the degradation time was significantly shorter for PEG-PLA membranes than for PLA films and with an appropriate PEG content could be adjusted to the intended time frame. Cell adhesion and viability tests confirmed the non-toxicity of the clinically used PLA films as well as of PEG-PLA films and meshes. With a bioadhesion test the benefit of an alginate coated side towards the pure PLA film concerning self-adhesiveness was successfully demonstrated. Moreover, optical evaluations and a T-peel test of different alginate coated PLA films showed that the cohesion between the chemically different layers was distinctly enhanced by the use of an appropriate PEG-PLA mesh as intermediate cohesion promoting layer. In in vitro release studies with triclosan loaded films a higher release was determined for PEG-PLA than for PLA films. In agar diffusion tests a higher and longer inhibition of staphylococcus aureus growth was observed confirming the release results. Moreover, drug loaded meshes (especially drug loaded after electrospinning) showed enhanced and elongated bacterial inhibition in comparison to films.
Anxiety is an affective state characterized by a sustained, long-lasting defensive response, induced by unpredictable, diffuse threat. In comparison, fear is a phasic response to predictable threat. Fear can be experimentally modeled with the help of cue conditioning. Context conditioning, in which the context serves as the best predictor of a threat due to the absence of any conditioned cues, is seen as an operationalization of sustained anxiety.
This thesis used a differential context conditioning paradigm to examine sustained attention processes in a threat context compared to a safety context for the first time. In three studies, the attention mechanisms during the processing of contextual anxiety were examined by measuring heart rate responses and steady-state-visually evoked potentials (ssVEPs). An additional focus was set on the processing of social cues (i.e. faces) and the influence of contextual information on these cues. In a last step, the correlates of sustained anxiety were compared to evoked responses by phasic fear, which was realized in a previously established paradigm combining predictable and unpredictable threat.
In the first study, a contextual stimulus was associated with an aversive loud noise, while a second context remained unpaired. This conditioning paradigm created an anxiety context (CTX+) and a safety context (CTX-). After acquisition, a social agent vs. an object was presented as a distractor in both contexts. Heart rate and cortical responses, with ssVEPs by using frequency tagging, to the contexts and the distractors were assessed. Results revealed enhanced ssVEP amplitudes for the CTX+ compared to the CTX− during acquisition and during presentation of distractor stimuli. Additionally, the heart rate was accelerated in the acquisition phase, followed by a heart rate deceleration as a psychophysiological marker of contextual anxiety.
Study 2 used the same context conditioning paradigm as Study 1. In contrast to the first study, persons with different emotional facial expressions were presented in the anxiety and safety contexts in order to compare the differential processing of these cues within periods of threat and safety. A similar anxiety response was found in the second study, although only participants who
Abstract
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were aware of the contingency between contexts and aversive event showed a sensory amplification of the threat context, indicated by heart rate response and ssVEP activation. All faces irrespective of their emotional expression received increased attentional resources when presented within the anxiety context, which suggests a general hypervigilance in anxiety contexts.
In the third study, the differentiation of predictable and unpredictable threat as an operationalization of fear and anxiety was examined on a cortical and physiological level. In the predictable condition, a social cue was paired with an aversive event, while in the unpredictable condition the aversive event remained unpaired with the respective cue. A fear response to the predictable cue was found, indicated by increased oscillatory response and accelerated heart rate. Both predictable and unpredictable threat yielded increased ssVEP amplitudes evoked by the context stimuli, while the response in the unpredictable context showed longer-lasting ssVEP activation to the threat context.
To sum up, all three studies endorsed anxiety as a long-lasting defensive response. Due to the unpredictability of the aversive events, the individuals reacted with hypervigilance in the anxiety context, reflected in a facilitated processing of sensory information and an orienting response. This hypervigilance had an impact on the processing of novel cues, which appeared in the anxiety context. Considering the compared stimuli categories, the stimuli perceived in a state of anxiety received increased attentional resources, irrespective of the emotional arousal conveyed by the facial expression. Both predictable and unpredictable threat elicited sensory amplification of the contexts, while the response in the unpredictable context showed longer-lasting sensory facilitation of the threat context.
Based on the work of Eisenberg and Noe [2001], Suzuki [2002], Elsinger [2009] and Fischer [2014], we consider a generalization of Merton's asset valuation approach where n firms are linked by cross-ownership of equities and liabilities. Each firm is assumed to have a single outstanding liability, whereas its assets consist of one system-exogenous asset, as well as system-endogenous assets comprising some fraction of other firms' equity and liability, respectively. Following Fischer [2014], one can obtain no-arbitrage prices of equity and the recovery claims of liabilities as solutions of a fixed point problem, and hence obtain no-arbitrage prices of the `firm value' of each firm, which is the value of the firm's liability plus the firm's equity.
In a first step, we consider the two-firm case where explicit formulae for the no-arbitrage prices of the firm values are available (cf. Suzuki [2002]). Since firm values are derivatives of exogenous asset values, the distribution of firm values at maturity can be determined from the distribution of exogenous asset values. The Merton model and most of its known extensions do not account for the cross-ownership structure of the assets owned by the firm. Therefore the assumption of lognormally distributed exogenous assets leads to lognormally distributed firm values in such models, as the values of the liability and the equity add up to the exogenous asset's value (which has lognormal distribution by assumption). Our work therefore starts from lognormally distributed exogenous assets and reveals how cross-ownership, when correctly accounted for in the valuation process, affects the distribution of the firm value, which is not lognormal anymore. In a simulation study we examine the impact of several parameters (amount of cross-ownership of debt and equity, ratio of liabilities to expected exogenous assets value) on the differences between the distribution of firm values obtained from our model and correspondingly matched lognormal distributions. It becomes clear that the assumption of lognormally distributed firm values may lead to both over- and underestimation of the “true" firm values (within the cross-ownership model) and consequently of bankruptcy risk, too.
In a second step, the bankruptcy risk of one firm within the system is analyzed in more detail in a further simulation study, revealing that the correct incorporation of cross-ownership in the valuation procedure is the more important, the tighter the cross-ownership structure between the two firms. Furthermore, depending on the considered type of cross-ownership (debt or equity), the assumption of lognormally distributed firm values is likely to result in an over- resp. underestimation of the actual probability of default. In a similar vein, we consider the Value-at-Risk (VaR) of a firm in the system, which we calculate as the negative α-quantile of the firm value at maturity minus the firm's risk neutral price in t=0, i.e. we consider the (1-α)100%-VaR of the change in firm value. If we let the cross-ownership fractions (i.e. the fraction that one firm holds of another firm's debt or equity) converge to 1 (which is the supremum of the possible values that cross-ownership fractions can take), we can prove that in a system of two firms, the lognormal model will over- resp. underestimate both univariate and bivariate probabilities of default under cross-ownership of debt only resp. cross-ownership of equity only. Furthermore, we provide a formula that allows us to check for an arbitrary scenario of cross-ownership and any non-negative distribution of exogenous assets whether the approximating lognormal model will over- or underestimate the related probability of default of a firm. In particular, any given non-negative distribution of exogenous asset values (non-degenerate in a certain sense) can be transformed into a new, “extreme" distribution of exogenous assets yielding such a low or high actual probability of default that the approximating lognormal model will over- and underestimate this risk, respectively.
After this analysis of the univariate distribution of firm values under cross-ownership in a system of two firms with bivariately lognormally distributed exogenous asset values, we consider the copula of these firm values as a distribution-free measure of the dependency between these firm values. Without cross-ownership, this copula would be the Gaussian copula. Under cross-ownership, we especially consider the behaviour of the copula of firm values in the lower left and upper right corner of the unit square, and depending on the type of cross-ownership and the considered corner, we either obtain error bounds as to how good the copula of firm values under cross-ownership can be approximated with the Gaussian copula, or we see that the copula of firm values can be written as the copula of two linear combinations of exogenous asset values (note that these linear combinations are not lognormally distributed). These insights serve as a basis for our analysis of the tail dependence coefficient of firm values under cross-ownership. Under cross-ownership of debt only, firm values remain upper tail independent, whereas they become perfectly lower tail dependent if the correlation between exogenous asset values exceeds a certain positive threshold, which does not depend on the exact level of cross-ownership. Under cross-ownership of equity only, the situation is reverse in that firm values always remain lower tail independent, but upper tail independence is preserved if and only if the right tail behaviour of both firms’ values is determined by the right tail behaviour of the firms’ own exogenous asset value instead of the respective other firm’s exogenous asset value.
Next, we return to systems of n≥2 firms and analyze sensitivities of no-arbitrage prices of equity and the recovery claims of liabilities with respect to the model parameters. In the literature, such sensitivities are provided with respect to exogenous asset values by Gouriéroux et al. [2012], and we extend the existing results by considering how these no-arbitrage prices depend on the cross-ownership fractions and the level of liabilities. For the former, we can show that all prices are non-decreasing in any cross-ownership fraction in the model, and by use of a version of the Implicit Function Theorem we can also determine exact derivatives. For the latter, we show that the recovery value of debt and the equity value of a firm are non-decreasing and non-increasing in the firm's nominal level of liabilities, respectively, but the firm value is in general not monotone in the firm's level of liabilities. Furthermore, no-arbitrage prices of equity and the recovery claims of liabilities of a firm are in general non-monotone in the nominal level of liabilities of other firms in the system. If we confine ourselves to one type of cross-ownership (i.e. debt or equity), we can derive more precise relationships. All the results can be transferred to risk-neutral prices before maturity.
Finally, following Gouriéroux et al. [2012] and as a kind of extension to the above sensitivity results, we consider how immediate changes in exogenous asset values of one or more firms at maturity affect the financial health of a system of n initially solvent firms. We start with some theoretical considerations on what we call the contagion effect, namely the change in the endogenous asset value of a firm caused by shocks on the exogenous assets of firms within the system. For the two-firm case, an explicit formula is available, making clear that in general (and in particular under cross-ownership of equity only), the effect of contagion can be positive as well as negative, i.e. it can both, mitigate and exacerbate the change in the exogenous asset value of a firm. On the other hand, we cannot generally say that a tighter cross-ownership structure leads to bigger absolute contagion effects. Under cross-ownership of debt only, firms cannot profit from positive shocks beyond the direct effect on exogenous assets, as the contagion effect is always non-positive. Next, we are concerned with spillover effects of negative shocks on a subset of firms to other firms in the system (experiencing non-negative shocks themselves), driving them into default due to large losses in their endogenous asset values. Extending the results of Glasserman and Young [2015], we provide a necessary condition for the shock to cause such an event. This also yields an upper bound for the probability of such an event. We further investigate how the stability of a system of firms exposed to multiple shocks depends on the model parameters in a simulation study. In doing so, we consider three network types (incomplete, core-periphery and ring network) with simultaneous shocks on some of the firms and wiping out a certain percentage of their exogenous assets. Then we analyze for all three types of cross-ownership (debt only, equity only, both debt and equity) how the shock intensity, the shock size, and network parameters as the number of links in the network and the proportion of a firm's debt or equity held within the system of firms influences several output parameters, comprising the total number of defaults and the relative loss in the sum of firm values, among others. Comparing our results to the studies of Nier et al. [2007], Gai and Kapadia [2010] and Elliott et al. [2014], we can only partly confirm their results with respect to the number of defaults. We conclude our work with a theoretical comparison of the complete network (where each firm holds a part of any other firm) and the ring network with respect to the number of defaults caused by a shock on a single firm, as it is done by Allen and Gale [2000]. In line with the literature, we find that under cross-ownership of debt only, complete networks are “robust yet fragile" [Gai and Kapadia, 2010] in that moderate shocks can be completely withstood or drive the firm directly hit by the shock in default, but as soon as the shock exceeds a certain size, all firms are simultaneously in default. In contrast to that, firms default one by one in the ring network, with the first “contagious default" (i.e. a default of a firm not directly hit by the shock) already occurs for smaller shock sizes than under the complete network.
Photoinduced processes are nowadays studied with a huge variety of spectroscopic methods. In the liquid phase, transient absorption spectroscopy is probably the most versatile pump–probe technique used to study light-induced molecular phenomena. Optical time-resolved spectroscopy is established in a large number of laboratories and is still further being developed with respect to many technical aspects. Nevertheless, the full potential of shortening the data-acquisition time—necessary for the investigation of rapidly photodegrading samples and observation of macroscopically fast processes—achievable with high-repetition-rate laser systems and shot-to-shot detection was not fully exploited. Especially, shot-to-shot detection is highly beneficial due to the high correlation of subsequent laser pulses.
The development and implementation of 100 kHz broadband shot-to-shot data acquisition was presented in Chapter 3. For an established laser dye as a benchmark system, ultrafast excited-state dynamics were measured for the first time with broadband shot-to-shot detection at 100 kHz. An analysis of both the noise characteristics of the employed laser and the correlation of subsequent pulses quantified the advantage of shot-to-shot data acquisition. In the utilized software environment, the time for measuring a complete data set could be sped up by a factor of three or even higher compared to a laser system working at 1 kHz. So far, the limiting factor is the data processing and the movement of the mechanical delay stage. Nevertheless, the new shot-to-shot detection has the potential to shorten the measurement time up to a factor of 100. The data quality is improved by a factor of three when the hitherto conventional averaging scheme is compared to shot-to-shot acquisition for the same number of laser pulses. The expansion of shot-to-shot data acquisition for high repetition rates will allow studies on sensitive samples as exposure times can strongly be reduced to achieve the same signal-to-noise ratio. In addition, multidimensional spectroscopy can also be extended to high-repetition shot-to-shot readout allowing an efficient recording of data. Therefore, in future experiments, dynamics and couplings in sensitive samples and kinetic processes could be studied in more detail.
Complex photophysical and photochemical phenomena are subject of many fields of research. Many of these multifaceted processes are not yet fully understood. Therefore, a possible approach is the elucidation of single reaction steps with the combination of transient absorption spectroscopy and a suitable, less complex model system. The systematic variation of the model system’s properties and environments, e.g., by chemical substitution or adequate choice of the solvent allows the determination of essential entities and reactivities thereof. Proper knowledge of an individual intermediate step and its determining factors can enhance the understanding of the complete photoreaction process.
The application of transient absorption spectroscopy was shown for the optically-induced electron transfer in a series of donor–acceptor oligomers in Chapter 4. In general, the solvent relaxation times were isolated from the back-electron-transfer dynamics by a global lifetime analysis. For the smallest oligomeric structure where complete charge separation is possible, an ultrafast equilibration leads to charge recombination from the configuration showing the lowest barrier for recombination. The back-electron transfer strongly depends on the utilized solvent. Whereas in dichloromethane the back-electron transfer occurs with the maximum rate in the barrierless optimal region, the dynamics in toluene are governed by a Marcus inverted-region effect. The experimentally observed rates were also estimated by theoretical calculations of the respective barriers. The study did not only successfully unravel charge transfer in the oligomeric systems but also improved the understanding of the electron-transfer properties of larger polymers from an earlier study. Therefore, the combination of length variation and time-resolved spectroscopy is an important step towards the correct prediction of charge-carrier dynamics in macroscopic devices, e.g., for photovoltaics.
The bond dissociation of a carbon-monoxide-releasing molecule in aqueous solution was studied in Chapter 5 as a prototype reaction for the photo-triggered breaking of a bond. It was shown that upon excitation only one carbon-monoxide ligand of the tricarbonyl complex is dissociated. A fraction of the photolyzed molecules restore the intact initial complex by geminate recombination within the temporal resolution of the experiment. However, the recombination could be detected by the hot ground-state infrared absorption of the complex. The detectable dicarbonyl formed upon CO release distributes excess energy from the absorbed photon into low-frequency modes which result in broadened absorption bands like for the recombined tricarbonyl. The free coordination site in the ligand sphere is filled with a solvent water molecule. Despite numerous studies of metal carbonyls studied in alkaneous solutions, the elucidation of the dynamics of a CORM in aqueous solution added another important detail to the photochemistry of this class of compounds. Experiments employing a second ultraviolet pump pulse did not trigger further CO dissociation and hence no formation of a monocarbonyl species; this might either be due to a different release mechanism without a further photochemical step or a strong spectral shift of the dicarbonyl’s absorption. Both reasons could explain why degenerate pump–repump–probe spectroscopy is inefficient. However, further experiments with ultraviolet probe pulses could substantiate whether the intermediate dicarbonyl reacts further photochemically or not. Apart from the model-system character of the CORM for bond dissociation, the study could determine exactly how many CO ligands are initially photolyzed off. Detailed knowledge of the release mechanism will affect the previous use and application as well as the further development of CORMs as therapeutic prodrugs to deliver high local concentrations of CO in cancerous or pathological tissue. Hence, the study of two-photon absorption properties which are important for in vivo applications of CORMs should be the main focus in further spectroscopic experiments.
In Chapter 6, both abovementioned molecular phenomena—electron transfer and bond dissociation—were studied in combination. The photochemistry of a tetrazolium salt was studied in detail in a variety of different solvents. Being a relatively small molecule, the studied tetrazolium cation shows a multifaceted photochemistry and is therefore a textbook example for the combination of ultrafast molecular phenomena studied in different environments. Within femtoseconds, the tetrazolium ring is opened. The biradicalic species is then reduced via uptake of an electron from the solvent. The formation of the ring-open formazan photoproduct from this point of the reaction sequence on was excluded by experiments with acidic pH value of the solution. The ring-open radical is stabilized by ring-closure. The resulting tetrazolinyl radical was already observed in experiments with microsecond time resolution. However, its formation was observed in real time for the first time in this study. Irradiation of a tetrazoliumsalt solution yields different photoproduct distributions depending on the solvent. However, it was shown that all photoproducts have a tetrazolinyl radical as a common precursor on an ultrafast time scale. In combination with studies from the literature, the complete photochemical conversion of a tetrazolium salt was clarified in this study. Apart from the prototype character of the reaction sequence, the reaction mechanism will have impact on research associated with life science where tetrazolium assays are used on a daily basis without taking into account of photochemical conversion of the indicating tetrazolium ion and its photochemically formed reactive intermediates. On the basis of the tetrazolium-ion photochemistry, the rich photochemistry of the formazan photoproduct, including structural rearrangements and subsequent reformation of the tetrazolium ion, might be the subject of future studies.
This thesis shows a method advancement and application of transient absorption spectroscopy to exemplary molecular model systems. The insights into each respective field did not only enlighten singular aspects, but have to be seen in a much larger context. Understanding complex photoinduced processes bottom-up by learning about their constituting steps—microscopically and on an ultrafast time scale—is an ideal method to approach understanding and prediction of phenomena in large molecular systems like biological or artificial architectures as for example used in photosynthetic light-harvesting and photovoltaics.
The oncogenic MYC protein is a transcriptional regulator of multiple cellular processes and is aberrantly activated in a wide range of human cancers. MYC is an unstable protein rapidly degraded by the ubiquitin-proteasome system. Ubiquitination can both positively and negatively affect MYC function, but its direct contribution to MYC-mediated transactivation remained unresolved.
To investigate how ubiquitination regulates MYC activity, a non-ubiquitinatable MYC mutant was characterized, in which all lysines are replaced by arginines (K-less MYC). The absence of ubiquitin-acceptor sites in K-less MYC resulted in a more stable protein, but did not affect cellular localization, chromatin-association or the ability to interact with known MYC interaction partners.
Unlike the wild type protein, K-less MYC was unable to promote proliferation in immortalized mammary epithelial cells. RNA- and ChIP-Sequencing analyses revealed that, although K-less MYC was present at MYC-regulated promoters, it was a weaker transcriptional regulator. The use of K-less MYC, a proteasomal inhibitor and reconstitution of individual lysine residues showed that proteasomal turnover of MYC is required for MYC target gene induction. ChIP-Sequencing of RNA polymerase II (RNAPII) revealed that MYC ubiquitination is dispensable for RNAPII recruitment and transcriptional initiation but is specifically required to promote transcriptional elongation. Turnover of MYC is required to stimulate histone acetylation at MYC-regulated promoters, which depends on a highly conserved region in MYC (MYC box II), thereby enabling the recruitment of BRD4 and P-TEFb and the release of elongating RNAPII from target promoters. Inhibition of MYC turnover enabled the identification of an intermediate in MYC-mediated transactivation, the association of MYC with the PAF complex, a positive elongation factor, suggesting that MYC acts as an assembly factor transferring elongation factors onto RNAPII. The interaction between MYC and the PAF complex occurs via a second highly conserved region in MYC’s amino terminus, MYC box I.
Collectively, the data of this work show that turnover of MYC coordinates histone acetylation with recruitment and transfer of elongation factors on RNAPII involving the cooperation of MYC box I and MYC box II.
Background
GDF-15 is a divergent member of the TGF-superfamily, which was first described as macrophage inhibitory cytokine-1 (MIC-1), revealing an immune modulatory function. GDF-15 is a soluble protein which is, under physiological conditions, highly expressed in the placenta and found in elevated levels in blood sera of pregnant women. Apart from the placenta, GDF-15 is expressed in healthy tissue, albeit to a lower extent and overexpressed in many solid tumors. A variety of different functions are attributed to GDF-15 in healthy as well as diseased humans. On the one hand, GDF-15 is required for successful pregnancy and low GDF-15 serum levels during pregnancy correlate with fetal abortion. On the other hand, overexpression of GDF-15, which can be observed in several malignancies is correlated with a poor prognosis. Furthermore, tumor derived GDF-15 leads to cancer associated anorexia-cachexia syndrome in mice. The aim of my PhD thesis was to further investigate the role of GDF-15 as an immune modulatory factor in cancer, in particular, by inhibiting the target molecule in vitro and in vivo. Therefore, the main focus was placed on the generation and characterization of monoclonal GDF-15 specific blocking antibodies, which were tested in vitro and in vivo, which represents a substantial part of my work.
Results
Here, GDF-15 was shown to be highly expressed in human gynecological cancer and brain tumors. We could then demonstrate that GDF-15 modulates effector immune cells in vitro. GDF-15 mediated a slight downregulation of the activating NKG2D receptor on NK and CD8+ T cells, which is crucial for proper anti-tumoral immune responses. Furthermore, we could demonstrate that GDF-15 reduces the adhesion of CD4+ and CD8+ T cells on endothelial cells in vitro. A negatively affected trans-endothelial migration of leukocytes into inflamed tissue could explain the low T cell infiltration in GDF-15 expressing tumors, which were observed in vivo, where mice bearing (shRNA mediated) GDF-15 deficient glioma cells revealed enhanced immune cell infiltrates in the tumor microenvironment, compared with the GDF-15 expressing control group. Those animals further exhibited a decreased tumor growth and prolonged survival. GDF-15 is a soluble protein, secreted by more than 50 % of solid tumors and associated with grade of malignancy. Therefore a neutralizing monoclonal antibody to GDF-15 was assumed to be an auspicious therapeutically anti-cancer tool. Such an antibody was thus generated in GDF-15 knock out mice against human GFD-15. Amongst many clones, the GDF-15 antibody clone B1-23 was found to be applicable in Western Blot as well as in ELISA techniques, detecting a three-dimensional epitope of the mature GDF-15 dimer with high affinity and specificity. To enable the humanization for a later administration in humans, the variable regions of antibody B1-23 were identified by a special PCR method using degenerate primers and cloned into a sequencing vector. The sequence obtained thereby enabled the generation of chimeric and humanized B1-23 variants. After further comprehensive characterization, the original mouse antibody B1-23 as well as the chimeric antibody (ChimB1-23) and the humanized B1-23 antibody (H1L5) were applied in a melanoma xenograft study in vivo. None of the antibodies could significantly inhibit tumor growth. .However of utmost importance, body weight loss mediated by tumor derived GDF-15 could be significantly prevented upon administration of all three GDF-15 specific antibodies, which confirmed the antagonizing functionality of the immunoglobulin.
Conclusion
GDF-15 is a promising cancer target, involved in tumor progression and cancer related cachexia. A monoclonal GDF-15 antibody was generated, which served on one hand as a tool for molecular biological applications (Western Blot, ELISA, etc.) and on the other hand was applied as an antagonizing antibody in vitro and in vivo. Even though tumor growth inhibition by GDF-15 depletion in T cell deficient athymic mice failed using B1-23, the same antibody and derivates thereof (chimeric and humanized) impressively prevented tumor associated cachexia in UACC-257 melanoma bearing nude mice. The missing anti-tumor effect in our own melanoma model in nude mice can only partially be explained by the missing secondary immunity, in particular cytotoxic T cells, in the athymic animals, since in a similar melanoma model, performed by an external company, a tumor reduction in immunocompromised animals was observed, when B1-23 was administered. These findings support the idea that T cells are substantial for an effective tumor immunity and are in line with the results of the syngeneic, T cell comprising, mouse glioma model, where silencing of tumor expressed GDF-15 led to an enhanced intratumoral T cell infiltration and a prolonged survival.
Taken together our data allow for the conclusion that tumor associated cachexia can be combatted with the GDF-15 antibody B1-23. Further, B1-23 might elicit direct anti-tumor effects in immune competent models, which contain T cells, rather than in an athymic, T cell deficient nude mouse model.
The Corona® charged aerosol detector (CAD) is an aerosol-based detector first de-scribed by Dixon and Peterson in 2002. It is capable of detecting compounds inde-pendent from their physico-chemical properties presumed the analyte is sufficiently non-volatile. Consequently, the CAD is often applied to the analysis of substances that do not possess a suitable UV chromophore. Major drawbacks are however, the detector signal is non-linear and depending on the content of organic solvent in the mobile phase.
This thesis tried to explore possible applications of the CAD for pharmaceutical analysis. Therefore, several substances from different compound classes were in-vestigated. Newly developed or existing methods were validated. Thus the perfor-mance of the CAD could be examined. Both assay and impurity determination were evaluated for their compliance with ICH Q2(R1) “Validation of Analytical Proce-dures” and the “Technical Guide for the Elaboration of Monographs”.
In the course of the establishment of reference substances at the EDQM, a generic screening method for the identification of organic and inorganic pharmaceutical counterions was needed. An HPLC-CAD method developed by Zhang et al. was therefore investigated for its suitability for pharmacopoeial purpose. Method valida-tion was performed. It was found that 23 ions could be separated and detected. Iden-tification was achieved via retention time of an authentic standard of the corre-sponding ions. Alternatively, peak assignment was performed by determination of the exact mass using TOF-MS. Ions could be quantified as impurities or for stoichi-ometric purpose.
For the impurity control in topiramate, the performance characterstics of the CAD were compared to that of an ELSD. CAD was superior to ELSD in terms of repeata-bility, sensitivity and linearity. However, impurities could be quantified with satisfac-tory accuracy with both detectors. The application of the ELSD was not feasible due to non-reproducible spike peaks eluting after the principle peak in the chromatogram of the test solution. One of the impurities, topiramate impurity A (diacetonide), gave no or a vastly diminished signal in the ELSD and the CAD, respectively. It is evapo-rated during the detection process due to its relatively high vapor pressure. The re-sponse could be enhanced by a factor of nine via post-column addition of acetoni-trile and a lower nebulizer temperature. As the response of topiramate impurity A was still about thousand-fold lower than the response of all other impurities, its quantification was not feasible. Additionally, the HPLC-CAD was successfully vali-dated as an assay procedure for topiramate.
There seems to be a great potential in the application of the CAD to the analysis of excipients as most compounds do not possess a suitable UV chromophore. Here, a simple and rapid HPLC-CAD method for the determination of polidocanol (PD) was developed. The method was successfully validated as a potential assay procedure for the Ph. Eur. as none is described in either of the two PD monographs. The same method was applied to the determination of the PD release from a pharmaceutical polymer matrix.
A method for the determination of the fatty acid (FA) composition of polysorbate 80 (PS80) was developed and validated. Using the CAD and mass spectrometry, we were able to identify two new FAs in 16 batches from four manufacturers. All batch-es complied with pharmacopoeial specification. Furthermore, the overall composi-tion of the different PS80 species (“fingerprinting”) and the peroxide content were determined. In addition to the chemical characterization, functionality related charac-teristics (FRCs) were determined. Correlations between chemical composition and FRCs were found.
The validation data of the above mentioned methods suggests that the CAD repre-sents a viable detection technique for pharmaceutical analysis. The CAD was suffi-ciently sensitive for non-volatile analytes. Impurity control down to concentrations of 0.05 or 0.03%, as demanded by ICH Q3A (R2), is achievable. However, the response of semi-volatile compounds may be drastically diminished. It could be confirmed that the response of the CAD is linear when the range does not exceed two orders of magnitude. Exceptions may be observed depending on the actual method setup. When the measuring range is sufficiently narrow, quantification can be done using single-point calibration which is common practice in pharmaceutical anlysis. Impuri-ties may also be quantified against a single calibration solution. However, correction factors may be needed and the accuracy is considerably lower compared to an as-say method. If a compound is to be quantified over a large concentration range, log-log transformation of the calibration curve is needed and a decreased accuracy has to be accepted.
Wasps of the genus Polistes comprise over 200 species and are nearly cosmopolitan. They show a lack of physiological caste differentiation and are therefore considered as primitively eusocial. Furthermore, paper wasps are placed between the solitary living Eumenidae and the highly social organized Vespinae. Hence, they are often called a “key genus” for understanding the evolution of sociality. Particularly, Polistes dominula, with its small easy manageable nests and its frequent occurrence and wide distribution range is often the subject of studies.
In Europe, the invasion of this species into northern regions is on the rise. Since little was known about the nesting behaviour of P. dominula in Central Europe, the basic principles about nesting were investigated in Würzburg, Germany (latitude 49°) by conducting a comprehensive field-study spanning three consecutive years. Furthermore, the thermoregulation of individual wasps in their natural habitat had not yet been investigated in detail. Therefore, their ability to respond to external hazards with elevated thorax temperatures was tested. In addition, different types of nest thermoregulation were investigated using modern methods such as infrared thermography and temperature data logger.
In the present work, the investigation of basic nesting principles revealed that foundress groups (1-4 foundresses) and nests are smaller and that the nesting season is shorter in the Würzburg area than in other regions. The mean size of newly founded nests was 83 cells and the average nesting season was around 4.6 months. The queens neither preferred single (54%) nor multiple founding (46%) in this study. The major benefit of multiple founding is an increased rate of survival. During the three years of observation, only 47% of single-foundress colonies survived, whereas 100% of colonies that were built by more than two queens, survived. However, an influence of the number of foundresses on the productivity of colonies in terms of number of cells and pupae per nest has not shown up. However, the length of the nesting season as well as the nest sizes varied strongly depending on the climatic conditions of the preceding winter during the three consecutive years.
In order to investigate the thermoregulatory mechanisms of individual adult P. dominula wasps, I presented artificial threats by applying smoke or carbon dioxide simulating fire and predator attacks, respectively, and monitored the thorax temperature of wasps on the nest using infrared thermography. The results clearly revealed that P. dominula workers recognized smoke and CO2 and reacted almost instantaneously and simultaneously with an increase of their thorax temperature. The maximal thorax temperature was reached about 65 s after the application of both stressors, but subsequently the wasps showed a different behaviour pattern. They responded to a longer application of smoke with moving to the exit and fled, whereas in case of CO2 the wasps started flying and circling the nest without trying to escape. No rise of the thorax temperature was detectable after an air blast was applied or in wasps resting on the nest. Additionally, the thorax temperatures of queens were investigated during dominance battles. I found that the thorax temperature of the dominant queens rose up to 5°C compared to that of subordinate queens that attacked the former.
The study of active mechanisms for nest thermoregulation revealed no brood incubation or clustering behaviour of P. dominula. Furthermore, I found out that wing fanning for cooling the nest was almost undetectable (4 documented cases). However, I could convincingly record that water evaporation is most effective for nest cooling. By the direct comparison of active (with brood and adults) and non-active (without brood and adults) nests, the start of cooling by water evaporation was detected above maximum outside temperatures of 25°C or at nest temperatures above 35°C. The powerful role of water in nest cooling was manifested by an average decrease of temperature of a single cell of about 8°C and a mean duration of 7 min until the cell reached again its initial temperature. The investigation of passive thermoregulatory mechanisms revealed that the nest site choice as well as nest orientation appears to be essential for P. dominula wasps. Furthermore, I was able to show that the architecture of the nests plays an important role. Based on the presented results, it can be assumed that the vertical orientation of cells helps maintaining the warmth of nests during the night, whereas the pedicel assists in cooling the nest during the day.
The photoionization of several nitrogen-containing reactive intermediates relevant in combustion processes was investigated in the gas phase employing VUV synchrotron radiation. The intermediates were either freshly prepared and stored under cryogenic temperatures during the experiment or generated in situ by vacuum flash pyrolysis of suitable precursor molecules. The iPEPICO (imaging photoelectron photoion coincidence) setups of the VUV beamlines at the Swiss Light Source and Synchrotron SOLEIL were then used to record mass-selected threshold photoelectron (TPE) spectra. TPE spectra reveal the ionization energy and vibrational structure in the cationic states can often be resolved, which enables to distinguish different isomers. Accurate ionization energies for the radicals carbonyl amidogen, pyrrolyl, and 3-picolyl, and for the closed shell molecules isocyanic acid and cyanovinylacetylene were obtained. The analysis of the dissociative photoionization of the pyrolysis precursors enables in some cases to retrieve thermochemical data. Beyond, the absolute photoionization cross section of the cyclic carbene cyclopropenylidene was determined, NEXAFS and normal Auger spectra of isocyanic acid were recorded and analyzed at the O1s, N1s, and C1s edges, and the dissociative photoionization and pyrolysis of 1,4-di-tert-butyl-1,4-azaborinine was studied.
Brain-computer interfaces (BCIs) are devices that translate signals from the brain into control commands for applications. Within the last twenty years, BCI applications have been developed for communication, environmental control, entertainment, and substitution of motor functions. Since BCIs provide muscle independent communication and control of the environment by circumventing motor pathways, they are considered as assistive technologies for persons with neurological and neurodegenerative diseases leading to motor paralysis, such as amyotrophic lateral sclerosis (ALS), muscular dystrophy, spinal muscular atrophy and stroke (Kübler, Kotchoubey, Kaiser, Wolpaw, & Birbaumer, 2001). Although most researcher mention persons with severe motor impairment as target group for their BCI systems, most studies include healthy participants and studies including potential BCI end-users are sparse. Thus, there is a substantial lack of studies that investigate whether results obtained in healthy participants can be transferred to patients with neurodegenerative diseases. This clearly shows that BCI research faces a translational gap between intense BCI research and bringing BCI applications to end-users outside the lab (Kübler, Mattia, Rupp, & Tangermann, 2013). Translational studies are needed that investigate whether BCIs can be successfully used by severely disabled end-users and whether those end-users would accept BCIs as assistive devices. Another obvious discrepancy exists between a plethora of short-term studies and a sparse number of long-term studies. BCI research thus also faces a reliability gap (Kübler, Mattia, et al., 2013). Most studies present only one BCI session, however the few studies that include several testing sessions indicate high inter- and intra-individual variance in the end-users’ performance due to non-stationarity of signals. Long-term studies, however, are needed to demonstrate whether a BCI can be reliably used as assistive device over a longer period of time in the daily-life of a person. Therefore there is also a great need for reliability studies.
The purpose of the present thesis was to address these research gaps and to bring BCIs closer to end-users in need, especially into their daily-lives, following a user-centred design (UCD). The UCD was suggested as theoretical framework for bringing BCIs to end-users by Kübler and colleagues (Kübler et al., 2014; Zickler et al., 2011). This approach aims at the close and iterative interaction between BCI developers and end-users with the final goal to develop BCI systems that are accepted as assistive devices by end-users. The UCD focuses on usability, that is, how well a BCI technology matches the purpose and meets the needs and requirements of the targeted end-users and was standardized with the ISO 9241-210.
Within the UCD framework, usability of a device can be defined with regard to its effectiveness, efficiency and satisfaction. These aspects were operationalized by Kübler and colleagues to evaluate BCI-controlled applications. As suggested by Vaughan and colleagues, the number of BCI sessions, the total usage duration and the impact of the BCI on the life of the person can be considered as indicators of usefulness of the BCI in long-term daily-life use (Vaughan, Sellers, & Wolpaw, 2012). These definitions and metrics for usability and usefulness were applied for evaluating BCI applications as assistive devices in controlled settings and independent use. Three different BCI applications were tested and evaluated by in total N=10 end-users: In study 1 a motor-imagery (MI) based BCI for gaming was tested by four end-users with severe motor impairment. In study 2, a hybrid P300 event-related (ERP) based BCI for communication was tested by four severely motor restricted end-users with severe motor impairment. Study 1 and 2 are short-term studies conducted in a controlled-setting. In study 3 a P300-ERP BCI for creative expression was installed for long-term independent use at the homes of two end-users in the locked-in state. Both end-users are artists who had gradually lost the ability to paint after being diagnosed with ALS.
Results reveal that BCI controlled devices are accepted as assistive devices. Main obstacles for daily-life use were the not very aesthetic design of the EEG-cap and electrodes (cap is eye-catching and looks medical), low comfort (cables disturb, immobility, electrodes press against head if lying on a head cushion), complicated and time-consuming adjustment, low efficiency and low effectiveness, and not very high reliability (many influencing factors). While effectiveness and efficiency in the MI based BCI were lower compared to applications using the P300-ERP as input channel, the MI controlled gaming application was nevertheless better accepted by the end-users and end-users would rather like to use it compared to the communication applications. Thus, malfunctioning and errors, low speed, and the EEG cap are rather tolerated in gaming applications, compared to communication devices. Since communication is essential for daily-life, it has to be fast and reliable. BCIs for communication, at the current state of the art, are not considered competitive with other assistive devices, if other devices, such as eye-gaze, are still an option. However BCIs might be an option when controlling an application for entertainment in daily-life, if communication is still available. Results demonstrate that BCI is adopted in daily-life if it matches the end-users needs and requirements. Brain Painting serves as best representative, as it matches the artists’ need for creative expression. Caveats such as uncomfortable cap, dependence on others for set-up, and experienced low control are tolerated and do not prevent BCI use on a daily basis. Also end-users in real need of means for communication, such as persons in the locked-in state with unreliable eye-movement or no means for independent communication, do accept obstacles of the BCI, as it is the last or only solution to communicate or control devices. Thus, these aspects are “no real obstacles” but rather “challenges” that do not prevent end-users to use the BCI in their daily-lives. For instance, one end-user, who uses a BCI in her daily-life, stated: “I don’t care about aesthetic design of EEG cap and electrodes nor amplifier”. Thus, the question is not which system is superior to the other, but which system is best for an individual user with specific symptoms, needs, requirements, existing assistive solutions, support by caregivers/family etc.; it is thereby a question of indication. These factors seem to be better “predictors” for adoption of a BCI in daily-life, than common usability criterions such as effectiveness or efficiency. The face valid measures of daily-life demonstrate that BCI-controlled applications can be used in daily-life for more than 3 years, with high satisfaction for the end-users, without experts being present and despite a decrease in the amplitude of the P300 signal. Brain Painting re-enabled both artists to be creatively active in their home environment and thus improved their feelings of happiness, usefulness, self-esteem, well-being, and consequently quality of life and supports social inclusion. This thesis suggests that BCIs are valuable tools for people in the locked-in state.
Alveolar and cystic echinococcosis, caused by Echinococcus multilocularis and Echinococcus
granulosus respectively, are severe zoonotic diseases with limited treatment
options. The sole curative treatment is the surgical removal of the complete parasite
material. Due to late diagnosis, chemotherapeutic treatment often is the only treatment
option. Treatment is based on benzimidazoles, which merely act parasitostatic
and often display strong side effects. Therefore, new therapeutic drugs are urgently
needed.
Evolutionarily conserved signalling pathways are known to be involved in hostparasite
cross-communication, parasite development and survival. Moreover, they
represent potential targets for chemotherapeutic drugs. In this context the roles of
the serotonin- and cAMP-signalling pathways in Echinococcus were studied.
Genes encoding serotonin receptors, a serotonin transporter and enzymes involved in
serotonin biosynthesis could be identified in the E. multilocularis and E. granulosus
genomes indicating that these parasites are capable of synthesizing and perceiving
serotonin signals. Also the influence of exogenous serotonin on parasite development
was studied. Serotonin significantly increased metacestode vesicle formation
from primary cells and re-differentiation of protoscoleces. Inhibition of serotonin
transport with citalopram significantly reduced metacestode vesicle formation from
primary cells and caused death of protoscoleces and metacestodes. Furthermore, it
could be shown that serotonin increased phosphorylation of protein kinase A substrates.
Taken together, these results show that serotonin and serotonin transport
are essential for Echinococcus development and survival. Consequently, components
of the serotonin pathway represent potential drug targets.
In this work the cAMP-signalling pathway was researched with focus on G-protein
coupled receptors and adenylate cyclases. 76 G-protein coupled receptors, including
members of all major families were identified in the E. multilocularis genome.
Four genes homologous to adenylate cyclase IX were identified in the E. multilocularis
genome and three in the E. granulosus genome. While glucagon caused
no significant effects, the adenylate cyclase activator forskolin and the adenylate
cyclase inhibitor 2’, 5’ didesoxyadenosine influenced metacestode vesicle formation
from primary cells, re-differentiation of protoscoleces and survival of metacestodes.
It was further shown that forskolin increases phosphorylation of protein kinase A
substrates, indicating that forskolin activates the cAMP-pathway also in cestodes.
These results indicate that the cAMP signalling pathway plays an important role in
Echinococcus development and survival.
To complement this work, the influence of different media and additives on E. granulosus protoscoleces was investigated. Anaerobic conditions and the presence of FBS
prolonged protoscolex survival while different media influenced protoscolex activation
and development.
Taken together, this work provided important insights into developmental processes
in Echinococcus and potential drug targets for echinococcosis chemotherapy.
The correct regulation of cell growth and proliferation is essential during normal animal development. Myc proteins function as transcription factors, being involved in the con-trol of many growth- and proliferation-associated genes and deregulation of Myc is one of the main driving factors of human malignancies.
The first part of this thesis focuses on the identification of directly regulated Myc target genes in Drosophila melanogaster, by combining ChIPseq and RNAseq approaches. The analysis results in a core set of Myc target genes of less than 300 genes which are mainly involved in ribosome biogenesis. Among these genes we identify a novel class of Myc targets, the non-coding small nucleolar RNAs (snoRNAs). In vivo studies show that loss of snoRNAs not only impairs growth during normal development, but that overexpression of several snoRNAs can also enhance tumor development in a neu-ronal tumor model. Together the data show that Myc acts as a master regulator of ribo-some biogenesis and that Myc’s transforming effects in tumor development are at least partially mediated by the snoRNAs.
In the second part of the thesis, the interaction of Myc and the Zf-protein Chinmo is described. Co-immunoprecipitations of the two proteins performed under endogenous and exogenous conditions show that they interact physically and that neither the two Zf-domains nor the BTB/POZ-domain of Chinmo are important for this interaction. Fur-thermore ChIP experiments and Myc dependent luciferase assays show that Chinmo and Myc share common target genes, and that Chinmo is presumably also involved in their regulation. While the exact way of how Myc and Chinmo genetically interact with each other still has to be investigated, we show that their interaction is important in a tumor model. Overexpression of the tumor-suppressors Ras and Chinmo leads to tu-mor formation in Drosophila larvae, which is drastically impaired upon loss of Myc.