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The present study was aimed at revealing the early signalling events during the interaction of the diazotrophic soil bacterium Azospirillum brasilense with its host plant Arabidopsis thaliana. Furthermore, taking advantage of the micro array technique, a comprehensive overview of Arabidopsis genes has been undertaken which are affected upon association with A. brasilense The characterization of the early responses of Arabidopsis plants upon inoculation with Azospirillum brasilense strain Sp7 clearly indicated parallels with the initial events in plant pathogen interaction. For instance, not only bacterial preprations (lysates) form Azospirillum elicited an apoplastic alkalinization of the culture medium, but also the live bacteria, which were even more effective. Besides, in a luminol based assay, the bacterial lysates triggered production of the reactive oxygen species (ROS) in the Arabidopsis leaf discs. Interestingly, the elongation factor receptor mutants (efr) were completely insensitive to Azospirillum, suggesting elongation factor Tu (EF-TU) recognition as elicitor by Arabidopsis. This hypothesis was further validated with a bioinformatic approach. The N terminus initial 26 amino acids from Azospirillum EF-TU gene (elf26) showed more similarity to the elf26 sequences of bacteria like Agrobacterium tumefaciens which elicit responses in the plants through EF-TU rather than Pseudomonas syringae where the potent elicitor is flagellin 22. Universal transcriptome profiling of Arabidopsis thaliana seedlings upon inoculation with Azospirillum brasilense over a time course of six, twenty four and ninty six hours revealed very little genetic responses in the early time points. However, a bulk of genes was differentially regulated in 96 hours post inoculation (96hpi). The nature of these genes indicated that the bacterial treatment, among others, greatly affect the processes like cell wall modification, hormone metabolism, stress and secondary metabolism. Additionally expression levels of a numer of transcription factors (TFs) related to basic helix loop helix (BHLH) and MYB domain containing TF families were altered with Azospirillum inoculation. Particularly the BHLH TFs were among the most highly regulated genes. The array results from Azospirillum treated plants were further compared with the already available data emnating from treatment with flagellin 22 (flg22), oligogalacturonides (OGs) and Agrobacterium tumefaciens. Noteworthy, very different set of genes were affected upon inoculation with Azospirillum in relation to other treatments. Secondly a cluster of proteins involved in the biosynthesis of aliphatic glucosinolates (GSL) were uniquely induced upon Sp7 exposure. Genes operating in flavonoid biosynthesis also showed a distinct regulation trend in the comparative analysis. Taken together, the study in question provides insights into the early signalling events in the context of Azospirillum-Arabidopsis association and the bacterial signals recognized by the plants. The array data, at the same time, elucidates the genetic factors of Arabidopsis triggered upon association with Azospirillum brasilense.
The phylum Tardigrada consists of about 1000 described species to date. The animals live in habitats within marine, freshwater and terrestrial ecosystems allover the world. Tardigrades are polyextremophiles. They are capable to resist extreme temperature, pressure or radiation. In the event of desiccation, tardigrades enter a so-called tun stage. The reason for their great tolerance capabilities against extreme environmental conditions is not discovered yet. Our Funcrypta project aims at finding answers to the question what mechanisms underlie these adaption capabilities particularly with regard to the species Milnesium tardigradum. The first part of this thesis describes the establishment of expressed sequence tags (ESTs) libraries for different stages of M. tardigradum. From proteomics data we bioinformatically identified 144 proteins with a known function and additionally 36 proteins which seemed to be specific for M. tardigradum. The generation of a comprehensive web-based database allows us to merge the proteome and transcriptome data. Therefore we created an annotation pipeline for the functional annotation of the protein and nucleotide sequences. Additionally, we clustered the obtained proteome dataset and identified some tardigrade-specific proteins (TSPs) which did not show homology to known proteins. Moreover, we examined the heat shock proteins of M. tardigradum and their different expression levels depending on the actual state of the animals. In further bioinformatical analyses of the whole data set, we discovered promising proteins and pathways which are described to be correlated with the stress tolerance, e.g. late embryogenesis abundant (LEA) proteins. Besides, we compared the tardigrades with nematodes, rotifers, yeast and man to identify shared and tardigrade specific stress pathways. An analysis of the 50 and 30 untranslated regions (UTRs) demonstrates a strong usage of stabilising motifs like the 15-lipoxygenase differentiation control element (15-LOX-DICE) but also reveals a lack of other common UTR motifs normally used, e.g. AU rich elements. The second part of this thesis focuses on the relatedness between several cryptic species within the tardigrade genus Paramacrobiotus. Therefore for the first time, we used the sequence-structure information of the internal transcribed spacer 2 (ITS2) as a phylogenetic marker in tardigrades. This allowed the description of three new species which were indistinguishable using morphological characters or common molecular markers like the 18S ribosomal ribonucleic acid (rRNA) or the Cytochrome c oxidase subunit I (COI). In a large in silico simulation study we also succeeded to show the benefit for the phylogenetic tree reconstruction by adding structure information to the ITS2 sequence. Next to the genus Paramacrobiotus we used the ITS2 to corroborate a monophyletic DO-group (Sphaeropleales) within the Chlorophyceae. Additionally we redesigned another comprehensive database—the ITS2 database resulting in a doubled number of sequence-structure pairs of the ITS2. In conclusion, this thesis shows the first insights (6 first author publications and 4 coauthor publications) into the reasons for the enormous adaption capabilities of tardigrades and offers a solution to the debate on the phylogenetic relatedness within the tardigrade genus Paramacrobiotus.
The Contribution of Common and Rare Variants to the Complex Genetics of Psychiatric Disorders
(2010)
Attention deficit/hyperactivity disorder (ADHD), one of the most frequent childhood-onset, chronic and lifelong neurodevelopmental diseases, affects 5 - 10% of school – aged children and adolescents, and 4% of adults. The classified basic symptoms are - according to the diagnostic system DSM-VI - inattentiveness, impulsivity and hyperactivity. Also daily life of patients is impaired by learning problems, relationship crises, conflicts with authority and unemployment, but also comorbidities like sleep - and eating problems, mood - and anxiety disorders, depression and substance abuse disorders are frequently observed. Although several twin and family studies have suggested heritability of ADHD, the likely involvement of multiple genes and environmental factors has hampered the elucidation of its etiology and pathogenesis. Due to the successful medication of ADHD with dopaminergic drugs like methylphenidate, up to now, the search for candidate genes has mainly focused on the dopaminergic and - because of strong interactions - the serotonergic system, including the already analyzed candidate genes DAT1, DRD4 and 5, DBH or 5-HTTLPR. Recently, DNA copy number changes have been implicated in the development of a number of neurodevelopmental diseases and the analysis of chromosomal gains and losses by Array Comparative Genomic Hybridization (Array CGH) has turned out a successful strategy to identify disease associated genes. Here we present the first systematic screen for chromosomal imbalances in ADHD using sub-megabase resolution Array CGH. To detect micro-deletions and -duplications which may play a role in the pathogenesis of ADHD, we carried out a genome-wide screen for copy number variations (CNVs) in a cohort of 99 children and adolescents with severe ADHD. Using high-resolution aCGH, a total of 17 potentially syndrome-associated CNVs were identified. The aberrations comprise four deletions and 13 duplications with approximate sizes ranging from 110 kb to 3 Mb. Two CNVs occurred de novo and nine were inherited from a parent with ADHD, whereas five are transmitted by an unaffected parent. Candidates include genes expressing acetylcholine-metabolising butyrylcholinesterase (BCHE), contained in a de novo chromosome 3q26.1 deletion, and a brain-specific pleckstrin homology domain-containing protein (PLEKHB1), with an established function in primary sensory neurons, in two siblings carrying a 11q13.4 duplication inherited from their affected mother. Other genes potentially influencing ADHD-related psychopathology and involved in aberrations inherited from affected parents are the genes for the mitochondrial NADH dehydrogenase 1 alpha subcomplex assembly factor 2 (NDUFAF2), the brain-specific phosphodiesterase 4D isoform 6 (PDE4D6), and the neuronal glucose transporter 3 (SLC2A3). The gene encoding neuropeptide Y (NPY) was included in a ~3 Mb duplication on chromosome 7p15.2-15.3, and investigation of additional family members showed a nominally significant association of this 7p15 duplication with increased NPY plasma concentrations (empirical FBAT, p = 0.023). Lower activation of the left ventral striatum and left posterior insula during anticipation of large rewards or losses elicited by fMRI links gene dose-dependent increases in NPY to reward and emotion processing in duplication carriers. Additionally, further candidate genes were examined via Matrix assisted laser desorption/ionization time of flight mass spectrometry (MALDI-TOF MS). This method enables the analysis of SNPs directly from human genomic DNA without the need for initial target amplification by PCR. All these findings implicate CNVs of behavior-related genes in the pathogenesis of ADHD and are consistent with the notion that both frequent and rare variants influence the development of this common multifactorial syndrome. The second part of this work concentrates on MLC1, a gene associated with Megalencephalic leukoencephalopathy with subcortical cysts, located on chromosome 22q13.33. To get more insight in the disease itself, a targeting vector for a conditional knockout mouse was constructed using homologous recombination. Furthermore, MLC1 has been suggested as a risk gene for schizophrenia, especially the periodic catatonia subtype. An initially identified missense mutation was found to be extremely rare in other patient cohorts; however, a recent report again argued for an association of two intronic MLC1 SNPs with schizophrenia and bipolar disorder. A case-control study of these polymorphisms as well as SNPs in the transcriptional control region of MLC1 was conducted in 212 chronic schizophrenic patients, 56 of which suffered from periodic catatonia, 106 bipolar patients, and 284 controls. Both intronic and promoter polymorphisms were specifically and significantly associated with periodic catatonia but not schizophrenia or bipolar disorder in general. A haplotype constructed from all polymorphisms was also associated with periodic catatonia. The MLC1 variation is associated with periodic catatonia; whether it constitutes a susceptibility or a modifier gene has to be determined.
This thesis is concerned with the statistical physics of various systems far from thermal equilibrium, focusing on universal critical properties, scaling laws and the role of fluctuations. To this end we study several models which serve as paradigmatic examples, such as surface growth and non-equilibrium wetting as well as phase transitions into absorbing states. As a particular interesting example of a model with a non-conventional scaling behavior, we study a simplified model for pulsed laser deposition by rate equations and Monte Carlo simulations. We consider a set of equations, where islands are assumed to be point-like, as well as an improved one that takes the size of the islands into account. The first set of equations is solved exactly but its predictive power is restricted to the first few pulses. The improved set of equations is integrated numerically, is in excellent agreement with simulations, and fully accounts for the crossover from continuous to pulsed deposition. Moreover, we analyze the scaling of the nucleation density and show numerical results indicating that a previously observed logarithmic scaling does not apply. In order to understand the impact of boundaries on critical phenomena, we introduce particle models displaying a boundary-induced absorbing state phase transition. These are one-dimensional systems consisting of a single site (the boundary) where creation and annihilation of particles occur, while particles move diffusively in the bulk. We study different versions of these models and confirm that, except for one exactly solvable bosonic variant exhibiting a discontinuous transition with trivial exponents, all the others display a non-trivial behavior, with critical exponents differing from their mean-field values, representing a universality class. We show that these systems are related to a $(0+1)$-dimensional non-Markovian model, meaning that in nonequilibrium a phase transition can take place even in zero dimensions, if time long-range interactions are considered. We argue that these models constitute the simplest universality class of phase transition into an absorbing state, because the transition is induced by the dynamics of a single site. Moreover, this universality class has a simple field theory, corresponding to a zero dimensional limit of direct percolation with L{\'e}vy flights in time. Another boundary phenomena occurs if a nonequilibrium growing interface is exposed to a substrate, in this case a nonequilibrium wetting transition may take place. This transition can be studied through Langevin equations or discrete growth models. In the first case, the Kardar-Parisi-Zhang equation, which defines a very robust universality class for nonequilibrium moving interfaces, is combined with a soft-wall potential. While in the second, microscopic models, in the corresponding universality class, with evaporation and deposition of particles in the presence of hard-wall are studied. Equilibrium wetting is related to a particular case of the problem, corresponding to the Edwards-Wilkinson equation with a potential in the continuum approach or to the fulfillment of detailed balance in the microscopic models. In this thesis we present the analytical and numerical methods used to investigate the problem and the very rich behavior that is observed with them. The entropy production for a Markov process with a nonequilibrium stationary state is expected to give a quantitative measure of the distance form equilibrium. In the final chapter of this thesis, we consider a Kardar-Parisi-Zhang interface and investigate how entropy production varies with the interface velocity and its dependence on the interface slope, which are quantities that characterize how far the stationary state of the interface is away from equilibrium. We obtain results in agreement with the idea that the entropy production gives a measure of the distance from equilibrium. Moreover we use the same model to study fluctuation relations. The fluctuation relation is a symmetry in the large deviation function associated to the probability of the variation of entropy during a fixed time interval. We argue that the entropy and height are similar quantities within the model we consider and we calculate the Legendre transform of the large deviation function associated to the height for small systems. We observe that there is no fluctuation relation for the height, nevertheless its large deviation function is still symmetric.
Integrating neurobiological markers of depression: an fMRI-based pattern classification approach
(2010)
While depressive disorders are, to date, diagnosed based on behavioral symptoms and course of illness, the interest in neurobiological markers of psychiatric disorders has grown substantially in recent years. However, current classification approaches are mainly based on data from a single biomarker, making it difficult to predict diseases such as depression which are characterized by a complex pattern of symptoms. Accordingly, none of the previously investigated single biomarkers has shown sufficient predictive power for practical application. In this work, we therefore propose an algorithm which integrates neuroimaging data associated with multiple, symptom-related neural processes relevant in depression to improve classification accuracy. First, we identified the core-symptoms of depression from standard classification systems. Then, we designed and conducted three experimental paradigms probing psychological processes known to be related to these symptoms using functional Magnetic Resonance Imaging. In order to integrate the resulting 12 high-dimensional biomarkers, we developed a multi-source pattern recognition algorithm based on a combination of Gaussian Process Classifiers and decision trees. Applying this approach to a group of 30 healthy controls and 30 depressive in-patients who were on a variety of medications and displayed varying degrees of symptom-severity allowed for high-accuracy single-subject classification. Specifically, integrating biomarkers yielded an accuracy of 83% while the best of the 12 single biomarkers alone classified a significantly lower number of subjects (72%) correctly. Thus, integrated biomarker-based classification of a heterogeneous, real-life sample resulted in accuracy comparable to the highest ever achieved in previous single biomarker research. Furthermore, investigation of the final prediction model revealed that neural activation during the processing of neutral facial expressions, large rewards, and safety cues is most relevant for over-all classification. We conclude that combining brain activation related to the core-symptoms of depression using the multi-source pattern classification approach developed in this work substantially increases classification accuracy while providing a sparse relational biomarker-model for future prediction.
The aim of the present thesis was to explore how food deprivation and reward expectancy versus frustrative nonreward change implicit and explicit food-liking and food-wanting. As a result, Experiment 1-3 were successful in revealing that liking- and wanting-related associations toward food stimuli dissociate as a function of food deprivation, given that participants were not rewarded with real food during the experiment. More specifically, whereas food-deprived participants showed more wanting-related associations toward food stimuli than satiated participants, the liking-related associations did not differ across both conditions of hunger. Overall, this effect could be replicated in 3 experiments using different manipulations of nonreward versus reward expectancy. However, neither food deprivation nor nonreward were found to influence participants’ self-reported mood and frustration. Moreover, participants of Experiment 2 anticipating food consumption showed the same liking- and wanting-related responses due to food deprivation than participants in the nonreward condition. But providing participants with individual control over food consumption abolished the dissociation of liking- and wanting-related associations. In this condition, however, participants’ liking- and wanting-related associations were not moderated by need state, maybe due to the (partial) consumption of snack food before the implicit attitude assessment. This, in turn, may have reduced participants’ disposition to respond with more liking- and wanting-related associations when being hungry. Finally, Experiment 4 revealed that the presentation of need-relevant vs. need-irrelevant stimuli prompted different liking-related associations depending on the time participants had fasted before the experiment. Specifically, it could be demonstrated that whereas moderately-hungry compared to satiated participants responded with more positive associations toward need-relevant stimuli, 15 hours food-deprived participants responded with more negative associations compared to moderately-hungry and satiated participants. Respectively, a significant curvilinear function of need state was obtained. In addition, participants were found to immediately respond more negatively to need-irrelevant stimuli as soon as they became moderately hungry, evidencing devaluation effects (see Brendl, Markman, & Messner, 2003) to also occur on an implicit level of responding. Contrary to the implicit liking- and wanting-related evaluations, self-reported explicit food-liking and food-wanting did not dissociate as a function of food deprivation and nonreward, revealing that participants’ explicit self-reports of food-liking and food-wanting did not mirror their implicit responses. As the most important result, it could be demonstrated that explicit food-liking and food-wanting varied positively as a function of need state. The results were discussed on the background of different theoretical assumptions on the malleability of implicit and explicit need-relevant attitudes (e.g. motivational theories, frustrative nonreward).
Macrophages are important effector cells of the innate and adaptive immune response and exert a wide variety of immunological functions which necessitates a high level of plasticity on the chromatin level. In response to pathogen-associated molecular patterns (PAMPs) or inflammatory signals macrophages undergo a process of cellular activation which is associated with morphologic, functional and biochemical changes. Toll-like receptors (TLR) are able to sense many different PAMPs. TLR4 is an important sensor for lipopolysaccharide (LPS) which elicits a major portion of the host’s inflammatory response through the activation of many different signaling pathways such as the NF-κB and the MAPK protein kinase pathways RASRAF- MEK-ERK, p38 and JNK. Polycomb group (PcG) proteins are well known chromatin modifiers which function in large complexes and are required to maintain chromatin structure in a transcriptionally repressed state. It has previously been shown that the PcG protein Bmi1 is phosphorylated by 3pK, a downstream effector kinase of the MAPK protein kinase pathways RAS-RAF-MEK-ERK, p38 and JNK. In this work I analyzed the role of Bmi1 as a downstream effector of MAPK signaling during macrophage activation. Unexpectedly a rapid up-regulation on the Bmi1 protein level was observed in bone marrow derived macrophages (BMDMs) after LPS treatment. The Bmi1 induction was associated with transient protein phosphorylation that occured downstream of MAPK signaling. LPS treatment of BMDMs in the absence of Bmi1 resulted in a pronounced increase of IL-10 secretion. This secretion of the anti-inflammatory cytokine IL-10 was associated with increased IL-10 mRNA levels. Furthermore, siRNA mediated knock down of Bmi1 in J774A.1 macrophages also resulted in elevated IL-10 mRNA levels in response to LPS. ChIP analysis revealed that Bmi1 binds to throughout the il-10 locus. Alternative activation of wild type BMDMs via concomitant TLR4 and FcγR activation which triggers high IL-10 expression is paralleled by an attenuated Bmi1 protein expression. These results identify Bmi1 as a repressor of IL-10 expression during activation of macrophages.
The present thesis deals with surface treatment, material improvement, and the electronic structure of the diluted magnetic semiconductor (Ga,Mn)As. The two key issues are the preparation of clean surfaces and the observation of potential valence hybridizations in (Ga,Mn)As by means of photoemission spectroscopy. Several cleaning methods are applied individually to (Ga,Mn)As and their e ects are compared in detail by various methods. Based on the results of each method, a sophisticated recipe has been elaborated, which provides clean, stoichiometric, and reconstructed surfaces, even if the sample was exposed to air prior to preparation. Moreover, the recipe works equally well for intentionally oxidized surfaces. The individual advantages of ex-situ wet- chemical etching and in situ ion-milling and tempering can be combined in an unique way. In regard to the post-growth annealing in order to optimize the electronic and magnetic properties of (Ga,Mn)As, the effect of surface segregation of interstitial Mn was quantifed. It turns out that the Mn concentration at the surface increases by a factor 4.3 after annealing at 190 C for 150 h. The removal of the segregated and oxidized species by wet-chemical etching allows a tentative estimate of the content of interstitial Mn. 19-23% of the overall Mn content in as-grown samples resides on interstitial positions. The complementary results of core level photoemission spectroscopy and resonant photoemission spectroscopy give hints to the fact that a sizeable valence hybridization of Mn is present in (Ga,Mn)As. This outlines that the simple Mn 3d5-con guration is too naive to refect the true electronic structure of substitutional Mn in (Ga,Mn)As. Great similarities in the core level spectra are found to MnAs. The bonding is thus dominantly of covalent, not ionic, character. Transport measurements, in particular for very low temperatures (<10 K), are in agreement with previous results. This shows that at low temperature, the conduction is mainly governed by variable-range hopping which is in line with the presence of an impurity band formed by substitutional Mn. In the light of the presented results, it is therefore concluded that a double-exchange interaction is the dominant mechanism leading to ferromagnetic coupling in (Ga,Mn)As. The valence hybridization and the presents of an impurity band, both of which are inherent properties of substitutional Mn, are indications for a double-exchange scenario, being at variance to a RKKY-based explanation. Contributions from a RKKY-like mechanism cannot definitely be excluded, however, they are not dominant.
In today's Internet, building overlay structures to provide a service is becoming more and more common. This approach allows for the utilization of client resources, thus being more scalable than a client-server model in this respect. However, in these architectures the quality of the provided service depends on the clients and is therefore more complex to manage. Resource utilization, both at the clients themselves and in the underlying network, determine the efficiency of the overlay application. Here, a trade-off exists between the resource providers and the end users that can be tuned via overlay mechanisms. Thus, resource management and traffic management is always quality-of-service management as well. In this monograph, the three currently significant and most widely used overlay types in the Internet are considered. These overlays are implemented in popular applications which only recently have gained importance. Thus, these overlay networks still face real-world technical challenges which are of high practical relevance. We identify the specific issues for each of the considered overlays, and show how their optimization affects the trade-offs between resource efficiency and service quality. Thus, we supply new insights and system knowledge that is not provided by previous work.
The Popeye domain containing (Popdc) gene family of membrane proteins is predominantly expressed in striated and smooth muscle tissues and has been shown to act as novel cAMP-binding proteins. In mice, loss of Popdc1 and Popdc2, respectively, affects sinus node function in the postnatal heart in an age and stress-dependent manner. In this thesis, I examined gene expression pattern and function of the Popdc gene family during zebrafish development with an emphasis on popdc2. Expression of the zebrafish popdc2 was exclusively present in cardiac and skeletal muscle during cardiac development, whereas popdc3 was expressed in striated muscle tissue and in distinct regions of the brain. In order to study the function of these genes, an antisense morpholino-based knockdown approach was used. Knockdown of popdc2 resulted in aberrant development of facial and tail musculature. In the heart, popdc2 morphants displayed irregular ventricular contractions with 2:1 and 3:1 ventricular pauses. Recordings of calcium transients using a transgenic indicator line Tg(cmlc2:gCaMP)s878 and selective plane illumination microscopy (SPIM) revealed the presence of an atrioventricular (AV) block in popdc2 morphants as well as a complete heart block. Interestingly, preliminary data revealed that popdc3 morphants developed a similar phenotype. In order to find a morphological correlate for the observed AV conduction defect, I studied the structure of the AV canal in popdc2 morphants using confocal analysis of hearts of the transgenic line Tg(cmlc2:eGFP-ras)s883, which outlines individual cardiac myocytes with the help of membrane-localized GFP. However, no evidence for morphological alterations was obtained. To ensure that the observed arrhythmia phenotype in the popdc2 morphant was based on a myocardial defect and not caused by defective valve development, live imaging was performed revealing properly formed valves. Thus, in agreement with the data obtained in knockout mice, popdc2 and popdc3 genes in zebrafish are involved in the regulation of cardiac electrical activity. However, both genes are not required for cardiac pacemaking, but they play essential roles in AV conduction. In order to elucidate the biological importance of cAMP-binding, wild type Popdc1 as well as mutants with a significant reduction in binding affinity for cAMP in vitro were overexpressed in zebrafish embryos. Expression of wild type Popdc1 led to a cardiac insufficiency phenotype characterized by pericardial edema and venous blood retention. Strikingly, the ability of the Popdc1 mutants to induce a cardiac phenotype correlated with the binding affinity for cAMP. These data suggest that cAMP-binding represents an important biological property of the Popdc protein family.
Cardiovascular disease is the most common mortality risk in the industrialized world. Myocardial infarction (MI) results in the irreversible loss of cardiac muscle, triggering pathophysiological remodelling of the ventricle and development of heart failure. Insufficient myocardial capillary density within the surviving myocardium after MI has been identified as a critical event in this process, although the underlying molecular signalling pathways of cardiac angiogenesis are mechanistically not well understood. The discovery of microRNAs (miRNAs, miRs), small non-coding RNAs with 19-25 nucleotides in length, has introduced a new level of the regulation of cardiac signalling pathways. MiRNAs regulate gene expression post-transcriptionally by binding to their complementary target messenger RNAs (mRNAs) and represent promising therapeutic targets for gene therapy. Here, it is shown that cardiac miR-24 is primarily expressed in cardiac endothelial cells and upregulated following MI in mice and hypoxic conditions in vitro. Enhanced miR-24 expression induces endothelial cell apoptosis and impairs endothelial capillary network formation. These effects on endothelial cell biology are at least in part mediated through targeting of transcription factor GATA2, histone deacetylase H2A.X, p21-activated kinase PAK4 and Ras p21 protein activator RASA1. Mechanistically, target repression abolishes respective and secondary downstream signalling cascades. Here it is shown that endothelial GATA2 is an important mediator of cell cycle, apoptosis and angiogenesis at least in part by regulation of cytoprotective heme oxygenase 1 (HMOX1). Moreover, additional control of endothelial apoptosis is achieved by the direct miR-24 target PAK4. Its kinase function is essential for anti-apoptotic Bad phosphorylation in endothelial cells. In a mouse model of MI, blocking of endothelial miR-24 by systemic administration of a specific antagonist (antagomir) enhances capillary density in the infarcted heart and preserves cardiac function. The current findings indicate miR-24 to act as a critical regulator of endothelial cell apoptosis and angiogenesis. Modulation of miR-24 may be potentially a suitable strategy for therapeutic intervention in the setting of ischemic heart diseases.
Neisseria meningitidis is a facultatively pathogenic human commensal and strictly adapted to its niche within the human host, the nasopharynx. Not much is known about the regulatory processes required for adaptation to this environment. Therefore the role of the transcriptional regulator NMB1843, one of the two predicted regulators of the MarR family in the meningococcal genome, was investigated. As this gene displayed a high sequence homology to FarR, the Fatty acid resistance Regulator in N. gonorrhoeae, we designated the meningococcal protein FarR (NmFarR). Homology modeling of this protein revealed a dimeric structure with the characteristic winged helix-turn-helix DNA binding motif of the MarR family. NmFarR is highly conserved among meningococcal strains and expression of farR during exponential growth is controlled post-transcriptionally, being highest in the late exponential phase. By means of electrophoretic mobility shift assays (EMSAs) the direct and specific binding of FarR to the farAB promoter region was shown, comparable to its homologue in gonococci. As FarR is involved in fatty acid resistance in N. gonorrhoeae, susceptibility assays with the medium chain lauric acid (C12:0), the long chain saturated palmitic acid (C16:0) and the long chain unsaturated linoleic acid (C18:2) were performed, testing a wide variety of strains of both species. In contrast to the unusually susceptible gonococci, a high intrinsic fatty acid resistance was detected in almost all meningococcal isolates. The molecular basis for this intrinsic resistance in N. meningitidis was elucidated, showing that both a functional FarAB efflux pump system as well as an intact lipopolysaccharide (LPS) are responsible for palmitic acid resistance. However, even despite circumvention of the intrinsic resistance, FarR could not be connected with fatty acid resistance in meningococci. Instead, FarR was shown to directly and specifically repress expression of the Neisseria adhesin A (nadA), a promising vaccine candidate absent in N. gonorrhoeae. Microarray analyses verified these results and disclosed no further similarly regulated genes, rendering the FarR regulon the smallest regulon in meningococci reported until now. The exact FarR binding site within the nadA promoter region was identified as a 16 bp palindromic repeat and its influence on nadA transcription was proved by reporter gene fusion assays. This repression was also shown to be relevant for infection as farR deficient mutant strains displayed an increased attachment to epithelial cells. Furthermore, farR transcription was attested to be repressed upon contact with active complement components within human serum. Concluding, it is shown that FarR adopted a role in meningococcal host niche adaptation, holding the balance between immune evasion by repressing the highly antigenic nadA and host cell attachment via this same adhesin.
The Apologetic revisited: Exonerating Luke from an Ancestral Exegetical and Theological Burden
(2010)
The trend in the scholarship of Luke has been that of presenting Luke as a theologian interested in the survival of Christianity in the Roman world. Becuase of this aim, he seems to overlook the wrongdoings of the Powerful in his time inorder not to endanger the peace of Christianity. However, the intention of this work is to show the defiance and fearlessness of Luke in his dealings with the Rich and the Powerful. He never compromised with the basic teachings of Christianity. A second proper look opens the critical dynamics of his Gospel and the acts, beginning with the Magnificat running through the angelic annunciation scene and the temptation and ending with the punishment of Herod Agrippa in the Acts. The reader beholds a hitherto unknown Luke, who operates within a particular critical stance to the Powerful.
Bone Morphogenetic Proteins (BMPs) are secreted multifunctional signaling proteins that play an important role during development, maintenance and regeneration of tissues and organs in almost all vertebrates and invertebrates. BMPs transmit their signals by binding to two types of serine-/threonine-kinase receptors. BMPs bind first to their high affinity receptor, thereby recruiting their low affinity receptor into the complex. This receptor assembly starts a Smad (Small mothers against decapentaplegic) protein signaling cascade which regulates the transcription of responsive genes. Up to date, only seven type I and five type II receptors are known for more than 30 ligands. Therefore, many BMP ligands can recruit more than one receptor subtype. Vice versa, receptors can bind to several ligands, indicating a highly promiscuous ligand-receptor interaction. This raises the following questions: (i) How are BMPs able to induce ligand-specific signals, despite forming complexes with identical receptor composition and (ii) how are they able to recognize and bind various binding partners in a highly specific manner. From the ligand’s point of view, heterodimeric BMPs are valuable tools for studying the interplay between different sets of receptors, thereby providing new insights into how the various BMP signals can be generated. This study describes the expression and purification of the heterodimers BMP-2/6 and -2/7 from E.coli cells. BIAcore interaction studies and various in vitro cell activity assays revealed that the generated heterodimers are biologically active. Furthermore, BMP-2/6 and -2/7 exhibit a higher biological activity in most of the cell assays compared to their homodimeric counterparts. In addition, the BMP type I receptor BMPR-IA is involved in heterodimeric BMP signaling. However, the usage of other type I receptor subtypes (e.g. ActR-I) building a heteromeric ligand-receptor type I complex as indicated in previous works could not be determined conclusively. Furthermore, BMP heterodimers seem to require only one type I receptor for signaling. From the receptors’ point of view, the BMP type I receptor BMPR-IA is a prime example for its promiscuous binding to different BMP ligands. The extracellular binding interface of BMPR-IA is mainly unfolded in its unbound form, requiring a large induced fit to adopt the conformation when bound to its ligand BMP-2. In order to unravel whether the binding promiscuity of BMPR-IA is linked to structural plasticity of its binding interface, the interaction of BMPR-IA bound to an antibody Fab fragment was investigated. The Fab fragment was selected because of its ability to recognize the BMP-2 binding epitope on BMPR-IA, thus neutralizing the BMP-2 mediated receptor activation. This study describes the crystal structure of the complex of the extracellular domain of BMPR-IA bound to the antibody Fab fragment AbyD1556. The crystal structure revealed that the contact surface of BMPR-IA overlaps extensively with the contact surface of BMPR-IA for BMP-2 interaction. Although the contact epitopes of BMPR-IA to both binding partners coincide, the three-dimensional structures of BMPR-IA in both complexes differ significantly. In contrast to the structural differences, alanine-scanning mutagenesis of BMPR-IA showed that the functional determinants for binding to both the antibody and BMP-2 are almost identical. Comparing the structures of BMPR-IA bound to BMP-2 or to the Fab AbyD1556 with the structure of unbound BMPR-IA revealed that binding of BMPR-IA to its interaction partners follows a selection fit mechanism, possibly indicating that the ligand promiscuity of BMPR-IA is inherently encoded by structural adaptability.
In this thesis the electronic and magnetic structure of the transition metal oxyhalides TiOCl, TiOBr and VOCl is investigated. The main experimental methods are photoemission (PES) and x-ray absorption (XAS) spectroscopy as well as resonant inelastic x-ray scattering (RIXS). The results are compared to density-functional theory, and spectral functions from dynamical mean-field theory and different kinds of model calculations. Questions addressed here are those of the dimensionality of the magnetic and electronic interactions, the suitability of the oxyhalides as prototypical strongly correlated model systems, and the possibility to induce a filling-controlled insulator-metal transition. It turns out that TiOCl is a quasi-one-dimensional system with non-negligible two-dimensional coupling, while the one-dimensional character is already quite suppressed in TiOBr. In VOCl no signatures of such one-dimensional behavior remain, and it is two-dimensional. In all cases, frustrations induced by the crystal lattice govern the magnetic and electronic properties. As it turns out, although the applied theoretical approaches display improvements compared to previous studies, the differences to the experimental data still are at least partially of qualitative instead of quantitative nature. Notably, using RIXS, it is possible for the first time in TiOCl to unambiguously identify a two-spinon excitation, and the previously assumed energy scale of magnetic excitations can be confirmed. By intercalation of alkali metal atoms (Na, K) the oxyhalides can be doped with electrons, which can be evidenced and even quantified using x-ray PES. In these experiments, also a particular vertical arrangement of dopants is observed, which can be explained, at least within experimental accuracy, using the model of a so-called "polar catastrophe". However, no transition into a metallic phase can be observed upon doping, but this can be understood qualitatively and quantitatively within an alloy Hubbard model due to the impurity potential of the dopants. Furthermore, in a canonical way a transfer of spectral weight can be observed, which is a characteristic feature of strongly correlated electron systems. Overall, it can be stated that the transition metal oxyhalides actually can be regarded as prototypical Mott insulators, yet with a rich phase diagram which is far from being fully understood.
Several epidemiological studies found that hypertensive patients have an increased risk to develop kidney cancer. Hyperaldosteronism frequently results in arterial hypertension and contributes to the development and progression of kidney injury, with reactive oxygen species (ROS) playing an important role. ROS are thought to be associated with many pathological conditions such as cancer and other disorders, like cardiovascular complications , which often go along with hypertension. The aim of the present work was to investigate whether the effects of elevated aldosterone concentrations might be involved in the increased cancer incidence of hypertensive individuals. First, the potential capacity of aldosterone to induce oxidative stress and DNA damage was investigated in vitro and in vivo. In LLC-PK1 porcine kidney cells and MDCK canine kidney cells the significant formation of ROS, and especially of superoxide (O2˙ˉ) was assessed. With two genotoxicity tests, the comet assay and the micronucleus frequency test, the DNA damaging potential of aldosterone was quantified. In both genotoxicity tests a dose-dependent increase in aldosterone-induced structural DNA damage was observed. Oxidative stress and DNA damage were prevented by antioxidants, suggesting ROS as a major cause of DNA damage. Furthermore, the oxidatively modified DNA lesion 8-oxo-7,8-dihydro-2´-deoxyguanosine (8-oxodG), was found to be significantly elevated. In kidneys of rats with desoxycorticosterone acetate (DOCA)/salt-induced hypertension, which is a model of severe mineralocorticoid-dependent hypertension, elevated levels of ROS and superoxide were found, compared to kidneys of sham rats. Also DNA strand breaks, measured with the comet assay and double strand breaks, visualized with antibodies against the double strand break-marker gamma-H2AX were significantly elevated in kidneys of DOCA/salt-treated rats. In addition, significantly increased amounts of 8-oxodG were detected. Proliferation of kidney cells was found to be increased, which theoretically enables the DNA damage to manifest itself as mutations, since the cells divide. Second, the effects of aldosterone on the activation of transcription factors and signaling pathways were investigated. A significant activation of the potentially protective transcription factor Nrf2 was observed in LLC-PK1 cells. This activation was triggered by an increase of ROS or reactive nitrogen species (RNS). In response to oxidative stress, glutathione synthesis and detoxifying enzymes, such as the subunits of the glutathione-cysteine-ligase or heme oxygenase 1 were rapidly induced after 4 h. Nevertheless, after 24 h a decrease of glutathione levels was observed. Since ROS levels were still high after 24 h, but Nrf2 activation decreased, this adaptive survival response seems to be transient and quickly saturated and overwhelmed by ROS/RNS. Furthermore, Nrf2 activation was not sufficient to protect cells against oxidative DNA damage, because the amounts of double strand breaks and 8-oxodG lesions steadily rose up to 48 h of aldosterone treatment. The second transcription factor that was time- and dose-dependently activated by aldosterone in LLC-PK1 and MDCK cells was NF-kappaB. Furthermore, a significant cytosolic and nuclear activation of ERK was detected. Aldosterone induced the phosphorylation of the transcription factors CREB, STAT1 and STAT3 through ERK. Third, the underlying mechanisms of oxidant production, DNA damage and activation of transcription factors and signaling pathways were studied. Aldosterone exclusively acted via the MR, which was proven by the MR antagonists eplerenone, spironolactone and BR-4628, whereas the glucocorticoid receptor (GR) antagonist mifepristone did not show any effect. Furthermore, aldosterone needed cytosolic calcium to exert its negative effects. Calcium from intracellular stores and the influx of calcium across the plasma membrane was involved in aldosterone signaling. The calcium signal activated on the one hand, the prooxidant enzyme complex NAD(P)H oxidase through PKC, which subsequently caused the generation of O2˙ˉ. On the other hand, nitric oxide synthase (NOS) was activated, which in turn produced NO. NO and O2˙ˉ can react to the highly reactive species ONOO- that can damage the DNA more severely than the less reactive O2˙ˉ. In the short term, the activation of transcription factors and signaling pathways could be a protective response against aldosterone-induced oxidative stress and DNA damage. However, a long-term NF-B and ERK/CREB/STAT activation by persistently high aldosterone levels could unfold the prosurvival activity of NF-kappaB and ERK/CREB/STAT in aldosterone-exposed cells. DNA damage caused by increased ROS might become persistent and could be inherited to daughter cells, probably initiating carcinogenesis. If these events also occur in patients with hyperaldosteronism, these results suggest that aldosterone could be involved in the increased cancer incidence of hypertensive individuals.
In this thesis we apply recently developed, as well as sophisticated quantum Monte Carlo methods to numerically investigate models of strongly correlated electron systems on honeycomb structures. The latter are of particular interest owing to their unique properties when simulating electrons on them, like the relativistic dispersion, strong quantum fluctuations and their resistance against instabilities. This work covers several projects including the advancement of the weak-coupling continuous time quantum Monte Carlo and its application to zero temperature and phonons, quantum phase transitions of valence bond solids in spin-1/2 Heisenberg systems using projector quantum Monte Carlo in the valence bond basis, and the magnetic field induced transition to a canted antiferromagnet of the Hubbard model on the honeycomb lattice. The emphasis lies on two projects investigating the phase diagram of the SU(2) and the SU(N)-symmetric Hubbard model on the hexagonal lattice. At sufficiently low temperatures, condensed-matter systems tend to develop order. An exception are quantum spin-liquids, where fluctuations prevent a transition to an ordered state down to the lowest temperatures. Previously elusive in experimentally relevant microscopic two-dimensional models, we show by means of large-scale quantum Monte Carlo simulations of the SU(2) Hubbard model on the honeycomb lattice, that a quantum spin-liquid emerges between the state described by massless Dirac fermions and an antiferromagnetically ordered Mott insulator. This unexpected quantum-disordered state is found to be a short-range resonating valence bond liquid, akin to the one proposed for high temperature superconductors. Inspired by the rich phase diagrams of SU(N) models we study the SU(N)-symmetric Hubbard Heisenberg quantum antiferromagnet on the honeycomb lattice to investigate the reliability of 1/N corrections to large-N results by means of numerically exact QMC simulations. We study the melting of phases as correlations increase with decreasing N and determine whether the quantum spin liquid found in the SU(2) Hubbard model at intermediate coupling is a specific feature, or also exists in the unconstrained t-J model and higher symmetries.
While developing modern applications, it is necessary to ensure an efficient and performant communication between different applications. In current environments, a middleware software is used, which supports the publish/subscribe communication pattern. Using this communication pattern, a publisher sends information encapsulated in messages to the middleware. A subscriber registers its interests at the middleware. The monograph describes three different steps to determine the performance of such a system. In a first step, the message throughput performance of a publish/subscribe in different scenarios is measured using a Java Message Service (JMS) based implementation. In the second step the maximum achievable message throughput is described by adapted models depending on the filter complexity and the replication grade. Using the model, the performance characteristics of a specific system in a given scenario can be determined. These numbers are used for the queuing model described in the third part of the thesis, which supports the dimensioning of a system in realistic scenarios. Additionally, we introduce a method to approximate an M/G/1 system numerically in an efficient way, which can be used for real time analysis to predict the expected performance in a certain scenario. Finally, the analytical model is used to investigate different possibilities to ensure the scalability of the maximum achievable message throughput of the overall system.
Stem cells with the particular potential to self renew and to differentiate into multiple cell lineages are fascinating cell types for basic and applied research. Pluripotent embryonic stem (ES) cells are derived from the inner cell mass (ICM) of preimplantation embryos. Upon differentiation ES cells can give rise to cells of ecto-, meso- and endoderm including germ cells. In contrast, multipotent adult stem cells are more restricted in their differentiation outcomes,they differentiate into cells of their tissue of origin. For example, hematopoietic stem cells (HSCs) that reside in hemogenic tissues such as the bone marrow (BM) differentiate into hemato-/lymphoid cell lineages. Upon differentiation of stem cells not the genome, but the epigenetic regulation changes. Differentiation-associated epigenetic changes generate cell types with distinct phenotypes and functions. For stem cell-based therapies it is important to deeper understand the relation between epigenome and cellular function. In the scope of this thesis I aimed to analyze cultures of differentiating stem cells with respect to gene expression, chromatin regulation and differentiation potential. For the analysis of global histone modification levels, which represent one mechanism for epigenetic regulation, fow cytometric protocols were established that allow single cell measurements. By applying this methodology decreased histone acetylation levels were shown in differentiated ES cell populations. In contrast, comparable histone acetylation levels were observed in differentiated and undifferentiated BM cells. In addition, I investigated effects of the histone deacetylase (HDAC) inhibitor trichostatin A (TSA) on murine BM cells, comprising also HSCs. Upon TSA treatment the frequency of cells with in vitro and in vivo hematopoietic activity was increased, while lineage committed cells underwent apoptosis. Next, the loss of pluripotency was assessed in differentiating ES cell cultures. Using short-term in vitro differentiation protocols marker-based analyses and functional assays were performed.Functionally pluripotency was diminished after 2 days of differentiation as assessed by colony formation, embryoid body (EB) formation and cardiomyogenic differentiation approaches. In contrast, pluripotency marker expression was reduced at later time points. Further, the application of distinct differentiation systems (aggregation EB, clonal EB or monolayer (ML) culture) had an impact on the progression and homogeneity of differentiation cultures. To further study the end of pluripotency, differentiated ES cells were placed under ES cell culture conditions. The data suggest that 3 days differentiated ES cells had passed a point of no return and failed to regain Oct4-eGFP expression and that HDAC inhibitor treatment selectively killed differentiated ES cells. Finally, I aimed to study the effect of EED - a core subunit of the histone methylating Polycomb repressive complex 2 (PRC2) - on ES cell chromatin and function. ES cells lacking EED showed loss of histone H3 lysine 27 trimethylation (H3K27me3) accompanied by increased histone acetylation and reduced H3K9me3 levels. Despite typical ES cell morphology and pluripotency marker expression, EED knockout (KO) ES cells exhibited altered nuclear heterochromatin organization, delayed chromatin mobility and a failure in proper differentiation. Conclusively, my data provide insights into the epigenetic regulation of stem cells. Particularly, the results suggest that HDAC inhibitor treatment was detrimental for differentiated BM as well as for differentiated ES cells and that ES cells after 3 days of differentiation had lost pluripotency. Further, the data demonstrate that EED KO ES cells self renewed, exhibited morphology and pluripotency marker expression similar to wild type ES cells, but failed to differentiate. This indicates an important role of EED not only for undifferentiated but also for differentiating ES cells.
One key scientific program of the MAGIC telescope project is the discovery and detection of blazars. They constitute the most prominent extragalactic source class in the very high energy (VHE) Gamma-ray regime with 29 out of 34 known objects (as of April 2010). Therefore a major part of the available observation time was spent in the last years on high-frequency peaked blazars. The selection criteria were chosen to increase the detection probability. As the X-ray flux is believed to be correlated to the VHE Gamma-ray flux, only X-ray selected sources with a flux F(X) > 2 μJy at 1 keV were considered. To avoid strong attenuation of the Gamma-rays in the extragalactic infrared background, the redshift was restricted to values between z < 0.15 and z < 0.4, depending on the declination of the objects. The latter determines the zenith distance during culmination which should not exceed 30° (for z < 0.4) and 45° (for z < 0.15), respectively. Between August 2005 and April 2009, a sample of 24 X-ray selected high-frequency peaked blazars has been observed with the MAGIC telescope. Three of them were detected including 1ES 1218+304 being the first high-frequency peaked BL Lacertae object (HBL) to be discovered with MAGIC in VHE Gamma-rays. One previously detected object was not confirmed as VHE emitter in this campaign by MAGIC. A set of 20 blazars previously not detected will be treated more closely in this work. In this campaign, during almost four years ~ 450 hrs or ~ 22% of the available observation time for extragalactic objects were dedicated to investigate the baseline emission of blazars and their broadband spectral properties in this emission state. For the sample of 20 objects in a redshift range of 0.018 < z < 0.361 integral flux upper limits in the VHE range on the 99.7% confidence level (corresponding to 3 standard deviations) were calculated resulting in values between 2.9% and 14.7% of the integral flux of the Crab Nebula. As the distribution of significances of the individual objects shows a clear shift to positive values, a stacking method was applied to the sample. For the whole set of 20 objects, an excess of Gamma-rays was found with a significance of 4.5 standard deviations in 349.5 hours of effective exposure time. For the first time a signal stacking in the VHE regime turned out to be successful. The measured integral flux from the cumulative signal corresponds to 1.4% of the Crab Nebula flux above 150 GeV with a spectral index α = −3.15±0.57. None of the objects showed any significant variability during the observation time and therefore the detected signal can be interpreted as the baseline emission of these objects. For the individual objects lower limits on the broad-band spectral indices αX−Gamma between the X-ray range at 1 keV and the VHE Gamma-ray regime at 200 GeV were calculated. The majority of objects show a spectral behaviour as expected from the source class of HBLs: The energy output in the VHE regime is in general lower than in X-rays. For the stacked blazar sample the broad-band spectral index was calculated to αX−Gamma = 1.09, confirming the result found for the individual objects. Another evidence for the revelation of the baseline emission is the broad-band spectral energy distribution (SED) comprising archival as well as contemporaneous multi-wavelength data from the radio to the VHE band. The SEDs of known VHE Gamma-ray sources in low flux states matches well the SED of the stacked blazar sample.
In the first part of the work three polycarbazoles poly[N-((4-dimesitylboryl)-3,5-dimethylphenyl)-carbazole]-2,7-diyl P1, poly[N-((4-dimesitylboryl)-3,5-dimethylphenyl)-carbazole]-3,6-diyl P2 and poly[N-(4-(diphenylmethylene)-phenyl)- carbazole]-2,7-diyl P3 were synthesized by Yamamoto coupling reaction and their spectroscopic and electrochemical properties were investigated. Absorption and fluorescence characteristics of P1 and P3 were found to be similar to other 2,7-linked polycarbazoles, whereas P2 shows a CT absorption band arising from a shift of electron density from the nitrogen of the carbazole donor to the triarylborane acceptor. This causes a negative solvatochromic absorption and a positive solvatochromic fluorescence behaviour and is responsible for the significantly enlarged fluorescence quantum efficiency in solution and solid state compared to other 3,6-linked polycarbazoles. Thus the spectroscopic properties are governed by the connection pattern: the 2,7-linked polycarbazoles are not affected by the acceptor substituent due to the rigid poly-para-phenylene-like backbone structure, whereas the 3,6-linked polycarbazole P2 is dominated by the properties of the monomer unit due to its more flexible (less conjugated) structure. The oxidative processes of P1-P3 have been investigated in detail by cyclic voltammetry, which are similar to known 2,7- and 3,6-polycarbazoles. The reversible reduction found for P1 and P2, respectively, is attributed to the reduction of the triarylborane moiety. No reduction process referring to the carbazole moiety was observed. Due to its better solubility compared to P1 and P3 only P2 was used as active layer in an OLED device (ITO/P2/Al). The electroluminescence spectrum revealed CIE coordinates of (0.17, 0.21). In the second part of the work the low band gap polyradical poly{[((2,3,4,5,6-pentachlorophenyl)-bis(2,3,5,6-tetrachlorophenyl)methyl radical)-4,4’-diyl]-alt-4,4’-bis(vinylphenyl)-4-(2-ethylhexyloxy)phenylamin} P4 was synthesized by Horner-Emmons reaction. It shows an IV-CT band in the NIR, which arises from an ET from the triarylamine donor to the PCTM radical acceptor. This transition is confined to one monomer unit as deduced from comparison with the monomer spectra. HOMO and LUMO of P4 determined by cyclic voltammetry are at -5.5 and -4.5 eV, respectively. The smaller electrochemical band gap (1.0 eV) compared to the optical band gap (1.2 eV) is probably caused by ion pairing effects in the electrochemical experiments and indicates a low exciton binding energy. Femtosecond-pump-probe transient absorption spectroscopy revealed the spectral features of the oxidized triarylamine donor and the reduced PCTM acceptor similar to the spectra obtained separately for positive and negative potentials by spectroelectrochemistry. Thus the ET event causing the IV-CT absorption band could unambiguously be identified. The decay of the IV-CT state was found to be biexponential. The fast solvent dependent decay component is ascribed to the direct decay from the IV-CT state to the ground state, whereas the slow solvent independent decay component is tentatively attributed to an equilibrium formation of the IV-CT state and a completely charge separated state formed by charge migration along the polymer backbone. Well balanced ambipolar charge transport with hole and electron mobilities of ca. 3 × 10-5 cm2 V-1 s-1 was found in OFET devices (BG/TC structure) comprising an additional insulating organic PPcB layer. Polymer/polymer BHJ solar cell devices with the structure glass/ITO/PEDOT:PSS/(P3HT/P4)/Ca/Al yielded a power conversion efficiency of 3.1 × 10-3 %, VOC = 0.38 V, JSC = 2.8 × 10-2 mA cm-2 and FF = 0.29 for the 1:4 (P3HT/P4) blend ratio. The improper solid state morphology of P4 that causes the unsatisfying performance of OFET and solar cell devices renders P4 less suitable for these applications, whereas the hypothesis of charge migration in the excited state is worth to be investigated in more detail.
Semaphorin receptors in the immunological synapse: regulation and measles virus-driven modulation
(2010)
Measles virus (MV) infection causes approximately 164,000 deaths per year worldwide (WHO, 2008). The main cause of death is MV-induced immunosuppression but the underlying mechanisms are not fully understood. It has been suggested that MV renders T cells dysfunctional by disrupting the integrity of actin dynamics while MV infection of dendritic cells results in their inability to sustain T cell activation. During neuronal development, semaphorins (SEMAs), especially SEMA3A, induce a collapse of growing dendrites via the binding to plexin-A1 (plexA1) and its coreceptor neuropilin-1 (NP-1). The collapse results from a disruption of actin dynamics. In this study, the roles of these three molecules were investigated in human immune cells and their possible role in MV induced immunosuppression. The present data have shown that plexA1 is an important component of human immunological synapse (IS). It translocated transiently to the surface of T cells after CD3/28 ligation and accumulated at the stimulatory interface between T cells and DCs (or CD3/28 coated beads). When plexA1 expression was inhibited (RNAi) or its function was disrupted (exogenous blocking or dominant negative expression), T cell expansion was reduced. Upon MV exposure, translocation of plexA1 and NP-1, another important component of IS, towards the stimulatory interface in T cells was abrogated. Moreover, MV infection interfered with plexA1/NP-1 turnover in maturing DCs and promoted early and substantial release of SEMA3A from these cells, particularly in the presence of allogenic T cells. As revealed by scanning electron microscopy, the release of SEMA3A caused a transient loss of actin-based protrusions on T cells. SEMA3A affected chemotactic migration of T cells and DCs, and reduced formation of allogenic DC/T cell conjugates. In conclusion, MV targeted SEMA receptor function both by disrupting their recruitment to the IS and by promoting a premature release of their repulsive ligand, SEMA3A. Both of which could contribute to MV-induced immunosuppression.
The inhaled pharmacotherapy is fundamental in the management of obstructive lung diseases such as asthma bronchiale or chronic obstructive pulmonary disease. In this context short- and long-acting β2-agonists play a prominent role as relieve and control medication. Regarding the risk-benefit profile of an inhaled drug, the pattern of pulmonary deposition and the rate and extent of absorption into systemic circulation are essential parameters. New developments of drugs are characterized by high lung retention and improved efficacy. The aim of the present thesis was the parallel evaluation the pharmacokinetic (PK) and -dynamic (PD) properties of inhaled β2-agonists employing an isolated human lung perfusion model (IPL). The short-acting β2-agonist salbutamol and the newly developed ultra long-acting β2-agonist GW597901 were chosen for the analysis of pulmonary drug absorption and bronchodilation. In a pharmacokinetic enabling study an established human IPL setting was modified to monitor the pharmacokinetics of the β2-agonists by measuring the concentrations in perfusion fluid, lung tissue and BAL samples obtained during and after the experiments. The IPL model revealed differences in the pulmonary absorption behaviour of GW597901 and salbutamol. The lipophilic compound GW597901 was distributed to a lower extent into the perfusion fluid compared to the more hydrophilic compound salbutamol. The analyzed time profiles of nebulized salbutamol in the perfusate were consistent to with a clinical study if considering experimental conditions as the actual deposited doses and the differing volume of distribution. Thus, the suitability of the IPL model for the PK analysis of inhaled β2-agonists was confirmed. In a PK/PD study the human ex vivo model was employed for the first time for the evaluation of the clinical relevant bronchodilating effect induced by inhaled β2-agonists in addition to the analysis of their pharmacokinetics. Thereby the focus was to determine the onset and extent of bronchodilation. A new method was established to monitor changes in lung function parameters due to pharmacodynamic interventions over the duration of the experiment that allowed permanent online recording of the ventilation volume and lung mechanic parameters. Bronchial challenges with aerolised MCh were performed successfully in isolated ventilated human lung lobes, even though the responder rate was lower than expected despite high administered doses. The administration of the short acting agent salbutamol led to an immediate onset of action recognized as a sudden increase of the ventilation volumes. The bronchodilation following the application of GW597901 was observed delayed after about 6 min. Monitored lung function parameters considerably improved by both β2 - agonists in the IPL setting but not significantly different. Thus, in regard of the different applied doses GW597901 had a higher intrinsic activity and bronchodilating potency than salbutamol. The concentrations of salbutamol and GW597901 in the perfusate determined in the PK/PD study were significantly lower than those observed in the pharmacokinetic enabling study, while the tmax values and the course of the distribution profiles remained similar. Most likely, the application of nebulized MCh prior to the administration of the β2 - agonists had a substantial influence on their pharmacokinetic behaviour. It is yet not clear whether pharmacodynamic effects or molecular competition processes for the passage to the systemic circulation or both influenced the redistribution of the β2 - agonists as seen in the PK/PD study. The potential clinical relevance of this observation has to be further investigated. The development of pulmonary edema during the experiment was one limitation of the IPL model. For the determination of the onset of edema formation four potential biochemical markers, specifically surfactant-protein A (SP-A), angiotensin-converting enzyme (ACE), urea and lactate dehydrogenase, were measured in perfusion fluids. In this context, an ELISA method for the quantification of human SP-A in biological matrices was successfully established. The investigations showed that the concentrations of SP-A and ACE in the perfusate increased over time as a sign for lung tissue damage and correlated with the degree of edema formation. For the first time the IPL model was used for the evaluation of potential pulmonary edema marker and the results have shown that it is valuable tool for further investigations in this field. In conclusion, the pharmacokinetic and pharmacodynamic characterization of GW597901 and salbutamol was successfully achieved using the IPL model. This ex vivo methodology may contribute to further insights and understanding of the complex pharmacokinetic processes of inhaled β2 – agonists in the lung.
Arabidopsis thaliana (A.th.) mesophyll cells play a pivotal role in the regulation of the drought stress response. The signaling & transport components involved in drought stress regulation within lipid rafts of the plasma membrane were investigated by DRM isolation from highly purified plasma membranes. Detergent treatment with Brij-98 and Triton X-100 resulted in a total of 246 DRM proteins which were identified by nano HPLC-MS/MS. The majority of these proteins could be isolated by Triton X-100 treatment (78.5 %) which remains the ”golden” standard for the isolation of DRMs. Comparing in-gel and in-solution digestion approaches disclosed additional protein identifications for each method but the in-gel approach clearly delivered the majority of the identified proteins (81.8 %). Functionally, a clear bias on signaling proteins was visible – almost 1/3 of the detected DRM proteins belonged to the group of kinases, phosphatases and other signaling proteins. Especially leucine-rich repeat receptor-like protein kinases and calcium-dependent protein kinases were present in Brij-98 & Triton X-100 DRMs, for instance the calcium-dependent protein kinase CPK21. Another prominent member of DRMs was the protein phosphatase 2C 56, ABI1, which is a key regulator of the ABA-mediated drought stress response in A.th. The lipid raft localization of the identified DRM proteins was confirmed by sterol-depletion with the chemical drug MCD. Proteins which depend upon a sterol-rich environment are depleted from DRMs by MCD application. Especially signaling proteins exhibited a strong sterol-dependency. They represented the vast majority (41.5 %) among the Triton X-100 DRM proteins which were no longer detected following MCD treatment. AtRem 1.2 & 1.3 could be shown to be sterol-dependent in mesophyll cells as well as two CPKs (CPK10 & CPK21) and the protein phosphatase ABI1. AtRem 1.2 & 1.3 could be proven to represent ideal plant lipid raft marker proteins due to their strong presence in Triton X-100 DRMs and dependency upon a sterol-rich environment. When fluorescence labeled AtRem 1.2 & 1.3 were transiently expressed in A.th. leaves, they localized to small, patchy structures at the plasma membrane. CPK21 was an intrinsic member of Triton X-100 DRMs and displayed extreme susceptibility to sterol-depletion by MCD in immunological and proteomic assays. Calcium-dependent protein kinases (CPKs) have already been studied to be involved in drought stress regulation, for instance at the regulation of S-type anion channels in guard cells. Hence, further transient expression studies with the anion channel SLAH3, protein kinase CPK21 and its counterpart, protein phosphatase ABI1 were performed in Nicotiana benthamiana. Transient co-expression of CPK21 and the anion channel SLAH3, a highly mesophyll- specific homologue of the guard cell anion channel SLAC1, resulted in a combined, sterol-dependent localization of both proteins in DRMs. Supplementary co-expression of the counterpart protein phosphatase ABI1 induced dislocation of SLAH3 from DRMs, probably by inactivation of the protein kinase CPK21. CPK21 is known to regulate the anion channel SLAH3 by phosphorylation. ABI1 dephosphorylates CPK21 thus leading to deactivation and dislocation of SLAH3 from DRMs. All this regulative events are taking place in DRMs of A.th. mesophyll cells. This study presents the first evidence for a lipid raft-resident protein complex combining signaling and transport functions in A.th. Future perspectives for lipid raft research might target investigations on the lipid raft localization of candidate DRM proteins under presence of abiotic and biotic stress factors. For instance, which alterations in the DRM protein composition are detectable upon exogenous application of the plant hormone ABA? Quantitative proteomics approaches will surely increase our knowledge of the post-transcriptional regulation of gene activity under drought stress conditions.
The present thesis is concerned with molecular beam epitaxy of magnetite (Fe3O4) thin films on semiconducting substrates and the characterization of their structural, chemical, electronic, and magnetic properties. Magnetite films could successfully be grown on ZnO substrates with high structural quality and atomically abrupt interfaces. The films are structurally almost completely relaxed exhibiting nearly the same in-plane and out-of-plane lattice constants as in the bulk material. Films are phase-pure and show only small deviations from the ideal stoichiometry at the surface and in some cases at the interface. Growth proceeds via wetting layer plus island mode and results in a domain structure of the films. Upon coalescence of growing islands twin-boundaries (rotational twinning) and anti-phase boundaries are formed. The overall magnetization is nearly bulk-like, but shows a slower approach to saturation, which can be ascribed to the reduced magnetization at anti-phase boundaries. However, the surface magnetization which was probed by x-ray magnetic circular dichroism was significantly decreased and is ascribed to a magnetically inactive layer at the surface. Such a reduced surface magnetization was also observed for films grown on InAs and GaAs. Magnetite could also be grown with nearly ideal iron-oxygen stoichiometry on InAs substrates. However, interfacial reactions of InAs with oxygen occur and result in arsenic oxides and indium enrichment. The grown films are of polycrystalline nature. For the fabrication of Fe3O4/GaAs films, a postoxidation of epitaxial Fe films on GaAs was applied. Growth proceeds by a transformation of the topmost Fe layers into magnetite. Depending on specific growth conditions, an Fe layer of different thickness remains at the interface. The structural properties are improved in comparison with films on InAs, and the resulting films are well oriented along [001] in growth direction. The magnetic properties are influenced by the presence of the Fe interface layer as well. The saturation magnetization is increased and the approach to saturation is faster than for films on the other substrates. We argue that this is connected to a decreased density of anti-phase boundaries because of the special growth method. Interface phases, viz. arsenic and gallium oxides, are quantified and different growth conditions are compared with respect to the interface composition.
In the framework of this thesis, new UV-patternable organic-inorganic hybrid polymers with higher refractive indices than reported in the literature for photonic applications were developed and studied with respect to their chemical structure, their optical properties, and their ability of being patterned by 1PP and 2PP. Particularly with 2PP, one could create 3D structures using the novel hybrid materials. The materials were prepared from hydrolysis and polycondensation reactions of · organo-alkoxysilanes and titanium alkoxide precursors, modified with and without CL and organo-alkoxysilanes precursors, and · organo-alkoxysilanes, titanium alkoxide and organophosphorus precursors. The major scope of this work was to increase the refractive index of ORMCER® materials based on only organo-alkoxysilanes. Thus, the parameters which influence the refractive index were investigated thoroughly. In particular, the synthesis parameters such as the introduction of titanium alkoxide and its concentration, the organo-alkoxysilanes, the catalyst concentration, the solvent used, but, also the processing parameters such as, the UV exposure dose, initiator concentration, and developer were investigated.
Cooperation is beneficial for social groups and is exemplified in its most sophisticated form in social insects. In particular, eusocial Hymenoptera, like ants and honey bees, exhibit a level of cooperation only rarely matched by other animals. To assure effective defense of group members, foes need to be recognized reliably. Ants use low-volatile, colony-specific profiles of cuticular hydrocarbons (colony odor) to discriminate colony members (nestmates) from foreign workers (non-nestmates). For colony recognition, it is assumed that multi-component colony odors are compared to a neuronal template, located in a so far unidentified part of the nervous system, where a mismatch results in aggression. Alternatively, a sensory filter in the periphery of the nervous system has been suggested to act as a template, causing specific anosmia to nestmate colony odor due to sensory adaptation and effectively blocking perception of nestmates. Colony odors are not stable, but change over time due to environmental influences. To adjust for this, the recognition system has to be constantly updated (template reformation). In this thesis, I provide evidence that template reformation can be induced artificially, by modifying the sensory experience of carpenter ants (Camponotus floridanus; Chapter 1). The results of the experiments showed that template reformation is a relatively slow process taking several hours and this contradicts the adaptation-based sensory filter hypothesis. This finding is supported by first in-vivo measurements describing the neuronal processes underlying template reformation (Chapter 5). Neurophysiological measurements were impeded at the beginning of this study by the lack of adequate technical means to present colony odors. In a behavioral assay, I showed that tactile interaction is not necessary for colony recognition, although colony odors are of very low volatility (Chapter 2). I developed a novel stimulation technique (dummy-delivered stimulation) and tested its suitability for neurophysiological experiments (Chapter 3). My experiments showed that dummy-delivered stimulation is especially advantageous for presentation of low-volatile odors. Colony odor concentration in headspace was further increased by moderately heating the dummies, and this allowed me to measure neuronal correlates of colony odors in the peripheral and the central nervous system using electroantennography and calcium imaging, respectively (Chapter 4). Nestmate and non-nestmate colony odor elicited strong neuronal responses in olfactory receptor neurons of the antenna and in the functional units of the first olfactory neuropile of the ant brain, the glomeruli of the antennal lobe (AL). My results show that ants are not anosmic to nestmate colony odor and this clearly invalidates the previously suggested sensory filter hypothesis. Advanced two-photon microscopy allowed me to investigate the neuronal representation of colony odors in different neuroanatomical compartments of the AL (Chapter 5). Although neuronal activity was distributed inhomogeneously, I did not find exclusive representation restricted to a single AL compartment. This result indicates that information about colony odors is processed in parallel, using the computational power of the whole AL network. In the AL, the patterns of glomerular activity (spatial activity patterns) were variable, even in response to repeated stimulation with the same colony odor (Chapter 4&5). This finding is surprising, as earlier studies indicated that spatial activity patterns in the AL reflect how an odor is perceived by an animal (odor quality). Under natural conditions, multi-component odors constitute varying and fluctuating stimuli, and most probably animals are generally faced with the problem that these elicit variable neuronal responses. Two-photon microscopy revealed that variability was higher in response to nestmate than to non-nestmate colony odor (Chapter 5), possibly reflecting plasticity of the AL network, which allows template reformation. Due to their high variability, spatial activity patterns in response to different colony odors were not sufficiently distinct to allow attribution of odor qualities like ‘friend’ or ‘foe’. This finding challenges our current notion of how odor quality of complex, multi-component odors is coded. Additional neuronal parameters, e.g. precise timing of neuronal activity, are most likely necessary to allow discrimination. The lower variability of activity patterns elicited by non-nestmate compared to nestmate colony odor might facilitate recognition of non-nestmates at the next level of the olfactory pathway. My research efforts made the colony recognition system accessible for direct neurophysiological investigations. My results show that ants can perceive their own nestmates. The neuronal representation of colony odors is distributed across AL compartments, indicating parallel processing. Surprisingly, the spatial activity patterns in response to colony are highly variable, raising the question how odor quality is coded in this system. The experimental advance presented in this thesis will be useful to gain further insights into how social insects discriminate friends and foes. Furthermore, my work will be beneficial for the research field of insect olfaction as colony recognition in social insects is an excellent model system to study the coding of odor quality and long-term memory mechanisms underlying recognition of complex, multi-component odors.
iNKT cells are a population of T cells with unique characteristics. In contrast to most αβ T cells which recognize peptides presented by highly polymorphic MHC molecules, iNKT cells are reactive to glycolipids presented by CD1d, a non-polymorphic MHC-I like molecule. Moreover, whereas MHC-restricted αβ T cells bear highly variable receptors (TCRs) formed after somatic recombination of the V(D)J gene segments, the TCR of iNKT cells is formed by an invariant α chain, which always contains the same gene segments: AV14 and AJ18; and a β chain of limited BV gene usage: BV8S2, BV7 or BV2, in the mouse. This invariant α chain is the reason for which these cells are named “i” and the NK part of their name refers to the expression of receptors typical of natural killer (NK) cells. iNKT cells recognize glycolipids of endogenous and microbial origin. After activation they secrete large amounts of very different cytokines such as IFN-γ and IL-4 and thus influence immune responses and pathological conditions. One of the most potent iNKT cell agonists, recognized by the semi-invariant TCR, is the synthetic glycolipid α-Galactosylceramide (α-Gal). iNKT cells can be visualized using CD1d-multimeric complexes loaded with α-Gal and flow cytometry, since this reagent has enough avidity to stain these cells. Interestingly, mouse iNKT cells can be stained with human α-Gal-loaded CD1d oligomers and human iNKT cells can also be visualized with mouse α-Gal-loaded CD1d oligomers, indicating a high degree of conservation of the recognition of α-Gal presented by CD1d through evolution. Previous studies showed that rats have the genes necessary to build semi-invariant TCRs: They have a CD1d homologue; one or two BV8S2 homologues and interestingly, up to ten AV14 gene segments, which are highly conserved when compared to the mouse genes. Importantly, it has been shown at least for two of these AV14 gene segments that they can produce invariant TCRα chains which, when coexpressed with BV8-containing β chains, react to α-Gal presented by rat CD1d. Furthermore, ex vivo stimulation of primary splenocytes with α-Gal results in the secretion of IL-4 and IFN-γ. Surprisingly, rat semi-invariant TCRs do not recognize α-Gal presented by mouse CD1d and accordingly, mouse α-Gal-loaded CD1d tetramers failed to stain a discrete population of rat iNKT cells. Taking all together, despite that strong evidence suggested that iNKT cells are present in the rat, the direct identification of such population and the analysis of CD1d-restricted immune responses were still pending for this species. Hence the work presented in this doctoral thesis was aimed to identify iNKT cells, to analyze their phenotype and also to study the distribution and function of CD1d in the rat. For these purposes, we produced essential reagents which were still lacking such as rat specific anti-CD1d monoclonal antibodies and rat CD1d oligomers. Importantly, two of three anti-rat CD1d monoclonal antibodies (all of them generated in our laboratory before this thesis was initiated) also recognized mouse CD1d and therefore allowed a direct comparison of CD1d expression between rat and mouse. Whereas CD1d distribution in the hematopoietic system was found to be extremely similar between these two species; in non-lymphatic tissues important differences were observed. Interestingly, CD1d protein was detected at not yet described sites such as the rat exocrine pancreas and rat and mouse Paneth cells. These monoclonal antibodies did not only allowed the analysis of CD1d expression, but also the first demonstration of the function of rat CD1d as an antigen presenting molecule, since cytokine release in response to α-Gal was blocked when they were added to ex vivo cultures of rat primary cells. Staining of primary rat iNKT cells (possible now with the newly generated rat CD1d oligomers) revealed interesting similarities with human iNKT cells. First, we observed that rat iNKT cells are only a minority among all NKR-P1A/B positive T cells. Human iNKT cells constitute also a very small proportion of NKR-P1A (CD161) expressing T cells, whereas in mice inbred strains which express NKR-P1C (NK1.1), most of NKRP1C expressing T cells are iNKT cells. Second, the majority of rat iNKT cells are either CD4 or DN and only a small proportion expresses CD8β. These findings are similar to humans and different to mice which lack CD8+ iNKT cells. Third, analysis of various inbred rat strains demonstrated different iNKT cell frequencies which correlated with cytokine secretion after α-Gal stimulation of primary cells. In comparison to mice, iNKT cell numbers are markedly reduced in rats. In F344 rats, inbred rat strain which released the highest cytokine amounts after α-Gal stimulation, approximately 0.25% and 0.1% of total liver and spleen lymphocytes, respectively, are iNKT cells. In contrast, in LEW rats iNKT cells were practically absent and neither IL-4 nor IFN-γ were detected after stimulation of primary cells with α-Gal. Once more, these frequencies are very close to those observed in humans. Last, as reported for human peripheral blood cells, rat iNKT cells could be easily expanded in vitro by adding α-Gal to cultures of intrahepatic lymphocytes, whereas the expansion of mouse iNKT cells was not possible using the same protocol. The presence of a multimember AV14 gene segment family in the rat is an intriguing characteristic. These AV14 gene segments are extremely homologous except in the CDR2α region. Based on the amino acid sequence of this region they have been divided into two different types: Type I and II. A specific tissue distribution of the different types was proposed in the first study where the presence of several AV14 gene segments was described. We also analyzed the AV14 gene segment usage in F344 and LEW inbred rat strains. In F344 rats we found no preferential usage of either AV14 gene segment type in the spleen and the liver but type II AV14 gene segments appeared more frequently in the thymus. In contrast, LEW rats show a preferential usage of type I AV14 gene segments in all three compartments analyzed: Thymus, spleen and liver. Taken all together, the usage of newly generated reagents allowed to gain novel insights into CD1d expression in the rat and in the mouse and to directly identify rat iNKT cells for the first time. The phenotypic and functional analysis of rat iNKT cells revealed numerous similarities with human iNKT cells. These are of special interest, since rats serve to investigate several pathological conditions including models for autoimmune diseases. The possibility now to analyze iNKT cells and CD1d-restricted T cell responses in the rat might help to understand the pathogenesis of such diseases. In addition, the uncomplicated in vitro expansion and culture of rat iNKT cells should facilitate the analysis of the immunomoldulatory capacities of these cells.
Development of novel Listeria monocytogenes strains as therapeutic agents for targeted tumor therapy
(2010)
Despite marked progress in development and improvement of cancer therapies the rate of cancer related death remained stable over the last years. Especially in treating metastases alternative approaches supporting current therapies are required. Bacterial and viral vectors have been advanced from crude tools into highly sophisticated therapeutic agents detecting and treating neoplastic leasions. They might be potent enough to fill in this therapeutic demand. In this thesis Listeria monocytogenes was investigated as carrier for targeted bacterial cancer therapy. One part of the study focussed on modification of a functional bacterial mRNA delivery system. Genomic integration of T7 RNA polymerase driving mRNA production allowed reduction to an one-plasmid-system and thereby partially relieved the growth retardation exerted by mRNA delivery. Importantly the integration allowed metabolic attenuation of the mRNA delivery mutant potentially enabling in vivo applications. Further expansion of the bacterial RNA delivery system for transfer of shRNAs was examined. Bacterial mutants producing high amounts of RNA containing shRNA sequences were constructed, however a functional proof of gene silencing on delivery in eukaryotic cell lines was not achieved. The second part of this thesis focussed on increasing tumor colonization by Listeria monocytogenes in vivo. Coating bacteria with antibodies against receptors overexpressed on distinct tumor cell lines enabled specific bacterial internalization into these cells in vitro. Optimization of the bacterial antibody coating process resulted in an up to 104-fold increase of intracellular bacteria. Combination of this antibody-mediated targeting with the delivery of prodrug-converting enzymes showed a cytotoxic effect in cell lines treated with the corresponding prodrug. Since incubation in murine serum completely abrogated antibodymediated bacterial internalization the antibodies were covalently linked to the bacteria for application in xenografted tumor mice. Bacteria coated and crosslinked in this manner showed enhanced tumor targeting in a murine tumor model demonstrating antibodymediated bacterial tumor targeting in vivo. Independent of antibody-mediated tumor targeting the intrinsic tumor colonization of different Listeria monocytogenes mutants was examined. Listeria monocytogenes ΔaroA ΔinlGHE colonized murine melanoma xenografts highly efficient, reaching up to 108 CFU per gram of tumor mass 7 days post infection. Taken together the presented data shows highly promising aspects for potential bacterial application in future tumor therapies. Combination of the delivery systems with antibodymediated- and intrinsic bacterial tumor targeting might open novel dimensions utilizing Listeria monocytogenes as therapeutic vector in targeted tumor therapy.
Quantum chemical calculations of circular dichroism (CD) spectra in combination with experimental CD studies are one of the most efficient analytical tools for the elucidation of the three-dimensional structure of a chiral molecule. In the present work 18 chiral compounds of most different molecular structures and origins were investigated using various theoretical methods (the semiempirical CIS methods, the time-dependent DFT and DFT/MRCI approaches). The advantages and limitations of the applied methods were discussed in the context of the studied compounds. Furthermore, the last part of this work deals with the CD investigations of a chiral compound in the crystalline state. A well-known natural product with a specific conformation/CD spectrum behavior was used as a model compound to examine a novel solid-state CD method and to investigate the possibility of its improvement to provide a higher reliability for the assignment of the absolute configuration.
Malaria still persists as one of the deadliest infectious disease in addition to AIDS and tuberculosis. lt is a leading cause of high mortality and morbidity rates in the developing world despite of groundbreaking research on global eradication of the disease initiated by WHO, about half a century ago. Lack of a commercially available vaccine and rapid spread of drug resistance have hampered the attempts of extinguishing malaria, which still leads to an annual death toll of about one million people. Resistance to anti-malarial compounds thus renders search for new target proteins imperative. The kinome of the human malaria parasite Plasmodium falciparum comprises representatives of most eukaryotic protein kinase groups, including kinases which regulate proliferation and differentiation processes. Several reports till date have suggested involvement of parasite kinases in the human host and as well as in the mosquito vector. Kinases essential for life cycle stages of the parasite represent promising targets for anti-malarial compounds thus, provoking characterization of additional malarial kinases. Despite extensive research on most plasmodial enzymes, very little information is available regarding the four identified members of the cyclin dependent kinase like kinase (CLK) family. Thus, the present thesis dealt with the functional characterization of four members of the PfCLK kinase family of the parasite denoted as PfCLK-1/Lammer, PfCLK-2, PfCLK-3 and PfCLK-4 with a special focus on the first two kinases. Additionally, one Ca2+/Calmodulin dependent putative kinase-related protein, PfPKRP, presumed to be involved in sexual stage development of the parasite, was investigated for its expression in the life cycle of the parasite. In other eukaryotes, CLK kinases regulate mRNA splicing through phosphorylation of Serine/Arginine-rich proteins. Transcription analysis revealed abundance of PfCLK kinase genes throughout the asexual blood stages and in gametocytes. By reverse genetics approach it was demonstrated that all four kinases are essential for completion of the asexual replication cycle of P. falciparum. PfCLK 1/Lammer possesses two nuclear localization signals and PfCLK-2 possesses one of these signals upstream of the C-terminal catalytic domains. Protein level expression and sub-cellular localization of the two kinases was determined by generation of antiserum directed against the kinase domains of the respective kinase. Indirect immunofluorescence, Western blot and electron microscopy data confirm that the kinases are primarily localized in the parasite nucleus, and in vitro assays show that both enzymes are associated with phosphorylation activity. Finally, mass spectrometric analysis of co immunoprecipitated proteins shows interactions of the two PfCLK kinases with proteins, which have putative nuclease, phosphatase or helicase functions. PfPKRP on the other hand is predominantly expressed during gametocyte differentiation as identified from transcriptional analysis. Antiserum directed against the catalytic domain of PfPKRP detected the protein expression profile in both asexual and gametocyte parasite lysates. Via immunofluorescence assay, the kinase was localized in the parasite cytoplasm in a punctuated manner, mostly in the gametocyte stages. Reverse genetics resulted in the generation of PfPKRP gene-disruptant parasites, thus demonstrating that unlike CLK kinases, PfPKRP is dispensable for asexual parasite survival and hence might have crucial role in sexual development of the parasite. On one hand, characterization of PfCLK kinases exemplified the kinases involved in parasite replication cycle. Successful gene-disruption and protein expression of PfPKRP kinase on the other hand, demonstrated a role of the kinase in sexual stage development of the parasite. Both kinase families therefore, represent potential candidates for anti-plasmodial compounds.
The saprophytic filamentous fungus Aspergillus fumigatus has been gaining importance as an opportunistic human pathogen over the past decades. Advances in modern medicine have created a growing group of patients susceptible to infection with A. fumigatus, often contracting potentially deadly invasive aspergillosis. The virulence of this pathogen appears to be a multifactorial trait, a combination of physiological characteristics that enables the fungus to infect immunocompromised humans. This work concentrates on the nitrogen metabolism of A. fumigatus, which is essential for meeting the nutritional needs inside the human host. Using DNA microarrays, the transcriptional response during growth on three different secondary nitrogen sources was examined, which revealed the metabolic versatility of A. fumigatus, especially when challenged with proteins as the sole source of nitrogen. In-depth transcriptional profiling of the eight-member oligopeptide transporter (OPT) gene family underlined the importance of oligopeptide transport for growth on complex nitrogen sources like BSA or collagen. Heterologous expression of the opt genes in Saccharomyces cerevisiae showed their functionality as oligopeptide transporters, and characterized their substrate specificity. Using a Cre/loxP based genetic tool, a complete deletion of all opt genes in A. fumigatus was achieved. The resultant strain exhibited diminished growth on medium where the oligopeptide GPGG was the sole nitrogen source, but did not show any other in vitro phenotype. The opt deletion strain was not attenuated in virulence in a murine model of pulmonary aspergillosis, suggesting that the OPT gene family is not necessary for successful infection. The connection of oligopeptide transport and extracellular proteolytic activity was investigated by deleting the genes encoding Dpp4 and Dpp5, two dipeptidyl peptidases, or PrtT, the transcriptional regulator of major secreted proteases, in the complete opt deletion background. In contrast to the deletion of dpp4 and dpp5, which did not result in any additional phenotype, the absence of prtT led to a drastic growth defect on porcine lung agar. This suggests a synergistic action of extracellular proteolytic digest of proteins and transport of oligopeptide degradation products into the cell. Finally, this work established the bacterial β-Rec/six site-specific recombination system as a novel genetic tool for targeted gene deletion in A. fumigatus.
Für die Lösung der quantenmechanischen Bewegungsgleichungen, die komplexe, molekulare Systeme beschreiben, sind effiziente und verlässliche Näherungsverfahren erforderlich. Die Dichtefunktionaltheorie (DFT) stellt für die Behandlung der Elektronenwechselwirkung in vielen Fällen den besten Kompromiss zwischen Effizienz und Genauigkeit dar. Im Rahmen der DFT wird die gesamte nicht-klassische Elektron-Elektron-Wechselwirkung im so genannten Austausch-Korrelationsfunktional angenähert. Viele solcher Näherungen sind semi-empirischer Natur, andere wurden ausschließlich von physikalischen Überlegungen abgeleitet. In globalen Hybridfunktionale wird ein konstanter Anteil der integrierten DFT-Austauschenergiedichte durch exakten Austausch aus der Hartree-Fock Näherung ersetzt. Das populärste Funktional B3LYP enthält 20 % exakten Austausch und mehrere empirische Parameter. Der optimale Prozentsatz hängt allerdings sehr stark von den zu berechnenden Systemen und molekularen Eigenschaften ab. Eine Lösung dieses Problems sollten lokale Hybridfunktionale liefern, in denen die Beimischung der exakten Austauschenergiedichte über eine lokale Mischfunktion (LMF) gesteuert wird und daher positions- und molekülabhängig ist. In dieser Arbeit wird ein semi-empirischer Ansatz für die Entwicklung neuer lokaler Hybridfunktionale verfolgt: während die Energiedichten unverändert aus etablierten Näherungen zum Austauschkorrelationsfunktional übernommen werden, stehen parametrisierte LMFs im Zentrum der Untersuchungen. Die verschiedenen LMFs beinhalten neben mindestens einem empirischen Parameter eine Variable die vom Quotienten der von-Weizsäcker kinetischen Energiedichte und der korrelierten kinetischen Energiedichte (sogenannte t-LMFs) bzw. dem reduzierten Dichtegradienten (bezeichnet als t-LMFs) abhängt. Weitere LMFs werden durch zusätzliche Berücksichtigung der Spinpolarisation erhalten. Alle Parameter werden an Atomisierungsenergien bzw. Reaktionsbarrieren bekannter molekularer Testsätze gefittet. Durch Visualisierung der LMFs können zusätzlich Einblicke in den physikalischen Hintergrund und in Möglichkeiten der Weiterentwicklung gewonnen werden. Es wurde beispielsweise beobachtet, dass entlang einer gedehnten Bindung höhere Werte der LMF und damit größere Beimischungen exakter Austauschenergie in Übergangszuständen einhergehen. Dieser Effekt ist für t-LMFs am ausgeprägtesten und korreliert mit besseren Ergebnissen für Reaktionsbarrieren mit lokalen Hybridfunktionalen, die auf einer t-LMF basieren. Bis auf wenige Ausnahmen leiten sich die lokalen Hybridfunktionale in dieser Arbeit aus dem Austausch- und Korrelationsfunktional der lokalen Dichtenäherung (LSDA) ab und enthalten keine Gradientenkorrektur im Sinne der GGA (generalized gradient approximation). Die neuen Funktionale wurden zunächst nicht-selbstkonsistent in eine Entwicklerversion des quantenchemischen Programmpaketes Turbomole implementiert. Das bedeutet, für gegebene Molekülorbitale bzw. eine gegeben Elektronendichte kann lediglich die Gesamtenergie berechnet werden. Dies ist eine anerkannte Näherung, die vor allem für die Optimierung der Parameter eine große Zeitersparnis darstellt. Um letztlich orbitalabhängige, molekulare Eigenschaften berechnen zu können wird neben der Gesamtenergie auch noch das zugehörige lokale Hybridpotential benötigt. Für die selbstkonsistente Implementierung wird die funktionale Ableitung der Austauschkorrelationsenergie nach den Orbitalen bestimmt. Daraus resultierend müssen neben den üblichen lokalen Austauschkorrelationspotentialtermen auch Integrale berechnet werden, die das mit der LMF gewichtete nicht-lokale exakte Austauschpotential enthalten. Die entsprechenden Terme kann man, genauso wie die exakte Austauschenergiedichte an sich, nicht analytisch berechnen. Früheren Ansätzen folgend wurden sie in der vorliegenden Arbeit in einer Basissatzentwicklung angenähert, wobei der Einfachheit halber die atomaren Basisfunktionen verwendet wurden. Um die Genauigkeit dieser sogenannten RI (resolution of the identity)-Näherung validieren zu können und auch schon im Hinblick auf die Anpassung einer Hilfsbasis, wurde darüber hinaus die numerische Berechnung aller Integrale, die das exakte Austauschpotential und die entsprechende Energiedichte enthalten, implementiert. Unter Verwendung der RI-Näherung ist der Rechenaufwand lokaler Hybride vergleichbar mit dem globaler Hybridfunktionale: Während die formale Skalierung in Abhängigkeit der Systemgröße gleich ist, ergab sich ein etwas höherer Vorfaktor für die lokalen Hybride. Verschiedene Literaturbekannte Testsätze mit Atomisierungsenergien, Reaktionsbarrieren, Dissoziationsenergien oder Gleichgewichtsabständen, die teilweise einige Schwächen bisheriger Dichtefunktionalnäherungen aufdecken, wurden berücksichtigt. Für die 223 Atomisierungsenergien des G3 Testsatzes stellen alle unsere Funktionale eine signifikante Verbesserung gegenüber B3LYP dar. Atomisierungsenergien sind insofern ein sensibler Test, da alle Bindungen gebrochen werden und Fehlerkompensation eine untergeordnete Rolle spielt. Vor allem lokale Hybridfunktionale, deren LMFs neben der kinetischen Energiedichte explizit von der Spinpolarisation abhängen, lieferten hervorragende Resultate. Obwohl im Vergleich zu Atomisierungsenergien für die korrekte Berechnung von Reaktionsbarrieren im Allgemeinen mehr exakter Austausch benötigt wird, sind unsere Funktionale auch für zwei Testsätze mit jeweils 38 Reaktionsbarrieren besser als B3LYP. Zwar kann mit einem globalen Hybrid mit 50 % exaktem Austausch eine geringere Abweichung von den Richtwerten erzielt werden, aber ein solches Funktional ist für thermochemische Daten unzureichend. Hier wurde erstmals gezeigt, dass lokale Hybridfunktionale ohne Gradientenkorrektur sowohl für Thermochemie als auch für Kinetik zufrieden stellende Ergebnisse liefern können. Das Dissoziationsverhalten symmetrischer Radikalkationen stellt für die hier diskutierten Dichtefunktionale nach wie vor eine Herausforderung dar: Die Dissoziationsenergien von sieben Modellsystemen werden mit unseren Funktionalen stark überschätzt und Gleichgewichtsabstände unterschätzt. Insgesamt sind die Werte nur marginal besser als mit B3LYP. Neben Eigenschaften von Hauptgruppenverbindungen wurden zudem Übergangsmetalldimere und -monohydride untersucht. Für erstere ist eine gute Beschreibung dynamischer sowie statischer Elektronenkorrelation ausschlaggebend. In den Hydriden andererseits dominiert mit gängigen Dichtefunktionalen die unphysikalische Selbstwechselwirkung eines Elektrons mit sich selbst. Für die 3d-Übergangsmetalldimere sind die getesteten Funktionale genauso gut wie B3LYP und für die Hydride etwas besser. Atomare s-d Transferenergien von 3d Übergangsmetallen verbleiben auch für unsere lokalen Hybridfunktionale, die insgesamt schlechtere Ergebnisse erzielen als B3LYP, noch problematisch. Das hierfür geeignetste lokale Hybridfunktional basiert auf einer s-LMF und beinhaltet LYP Korrelation. Für die isotropen Hyperfeinkopplungskonstanten (HFCCs) kleiner Hauptgruppenverbindungen wurden zufriedenstellende Ergebnisse (ähnlich wie B3LYP) mit einem t-LMF basierten lokalen Hybrid erzielt. Die RI Näherung zum lokalen Hybridpotential wurde dem numerisch exakten Potential für die Berechnung von Gesamtenergien, isotrope HFCCs und Orbitalenergien für verschiedene Basissätze gegenübergestellt. Wie erwartet ist der Fehler für Gesamtenergien mit der RI-Näherungen vergleichsweise gering, vor allem relativ zu den verbleibenden Abweichungen von experimentellen Energien. Der Vergleich der mittleren absoluten Abweichung von experimentellen Werten für 26 isotrope HFCCs zeigt sogar für mittelgroße und kontrahierte IGLO Basissätze nur geringe Unterschiede zwischen dem RI-Potential und dem numerisch exakten lokalen Hybridpotential. Die Analyse der HFCCs einzelner Moleküle und der Orbitalenergien des CN Moleküls offenbart allerdings, dass Ungenauigkeiten aufgrund der RI-Näherung hier eine größere Rolle spielen, vor allem wenn zu kleine atomare Basissätze verwendet werden. Von den untersuchten lokalen Hybriden stellen sich einige als hervorragende Kandidaten für die Berechnung thermochemischer und kinetischer Eigenschaften heraus. Jeweils unterschiedliche Funktionale erzielen darüber hinaus mit den besten bekannten Funktionalen vergleichbare Ergebnisse für isotrope Hyperfeinkopplungskonstanten und ausgewählte Eigenschaften kleiner Übergangsmetallverbindungen. Die in dieser Arbeit präsentierten lokalen Hybridfunktionale stellen daher einen wichtigen Schritt in der Entwicklung universeller Näherungen zum Austauschkorrelationsfunktional dar. Zur akkuraten Beschreibung molekularer Eigenschaften von Übergangsmetallkomplexen und dem Dissoziationsverhalten von Radikal-Kation-Dimeren neben Thermochemie und Kinetik, werden in Zukunft wohl komplexere LMFs benötigt. Um konkurrenzfähige lokale Hybride mit gradientenkorrigierter Austausch- und Korrelationsenergiedichte zu entwickeln, müssen darüber hinaus weitere Studien zum Einfluss des abweichenden Eichursprungs der miteinander kombinierten Austauschenergiedichten durchgeführt werden. Eine andere Möglichkeit ist die Entwicklung speziell abgestimmter Korrelationsfunktionale für lokale Hybride. Außerdem sollte die Qualität der RI-Näherung zum lokalen Hybridpotential detaillierter untersucht werden. Hierfür könnten zum Beispiel Ionisierungsenergien und Elektronenaffinitäten herangezogen werden. Um zusätzliche Abweichungen oder sogar fälschlicherweise "zu gute" Ergebnisse bei Validierungsrechnungen zu vermeiden, sollten Hilfsbasen für die Entwicklung des nicht-lokalen exakten Austauschpotentials implementiert und optimiert werden. Einer der nächsten Implementierungsschritte sollte auch Gradienten bezüglich der Kernkoordinaten beinhalten, um die Validierung der neuen lokalen Hybridfunktionale auf Strukturoptimierungen auszuweiten.
Vaccinia virus plays an important role in human medicine and molecular biology ever since the 18th century after E. Jenner discovered its value as a vaccination virus against smallpox. After the successful eradication of smallpox, vaccinia virus, apart from its use as a vaccine carrier, is today mainly used as a viral vector in molecular biology and increasingly in cancer therapy. The capability to specifically target and destroy cancer cells makes it a perfect agent for oncolytic virotherapy. Furthermore, the virus can easily be modified by inserting genes encoding therapeutic or diagnostic proteins to be expressed within the tumor. The emphasis in this study was the diagnosis of tumors using different vaccinia virus strains. Viruses with metal-accumulating capabilities for tumor detection via MRI technology were generated and tested for their usefulness in cell culture and in vivo. The virus strains GLV-1h131, GLV-1h132, and GLV-1h133 carry the gene encoding the two subunits of the iron storage protein ferritin under the control of three different promoters. GLV-1h110, GLV-1h111, and GLV-1h112 encode the bacterial iron storage protein bacterioferritin, whereas GLV-1h113 encodes the codon-optimized version of bacterioferritin for more efficient expression in human cells. GLV-1h22 contains the transferrin receptor gene, which plays an important role in iron uptake, and GLV-1h114 and GLV-1h115 contain the murine transferrin receptor gene. For possibly better iron uptake the virus strains GLV-1h154, GLV-1h155, GLV-1h156, and GLV-1h157 were generated, each with a version of a ferritin gene and a transferrin receptor gene. GLV-1h154 carries the genes that encode bacterioferritin and human transferrin receptor, GLV-1h155 the human ferritin H-chain gene and the human transferrin receptor gene. GLV-1h156 and GLV-1h157 infected cells both express the mouse transferrin receptor and bacterioferritin or human ferritin H-chain, respectively. The virus strains GLV-1h186 and GLV-1h187 were generated to contain a mutated form of the ferritin light chain, which was shown to result in iron overload and the wildtype light chain gene, respectively. The gene encoding the Divalent Metal Transporter 1, which is a major protein in the uptake of iron, was inserted in the virus strain GLV-1h102. The virus strain GLV-1h184 contains the magA gene of the magnetotactic bacterium Magnetospirillum magnetotacticum, which produces magnetic nanoparticles for orientation in the earth’s magnetic field. Initially the infection and replication capability of all the virus strains were analyzed and compared to that of the parental virus strain GLV-1h68, revealing that all the viruses were able to infect cells of the human cancer cell lines A549 and GI-101A. All constructs exhibited a course of infection comparable to that of GLV-1h68. Next, to investigate the expression of the foreign proteins in GI-101A and A549 cells with protein analytical methods, SDS-gelelectrophoresis, Western blots and ELISAs were performed. The proteins, which were expressed under the control of the strong promoters, could be detected using these methods. To be able to successfully detect the protein expression of MagA and DMT1, which were expressed under the control of the weak promoter, the more sensitive method RT-PCR was used to at least confirm the transcription of the inserted genes. The determination of the iron content in infected GI-101A and A549 cells showed that infection with all used virus strains led to iron accumulation in comparison to uninfected cells, even infection with the parental virus strain GLV-1h68. The synthetic phytochelatin EC20 was also shown to enhance the accumulation of different heavy metals in bacterial cultures. In vivo experiments with A549 tumor-bearing athymic nude mice revealed that 24 days post infection virus particles were found mainly in the tumor. The virus-mediated expression of recombinant proteins in the tumors was detected successfully by Western blot. Iron accumulation in tumor lysates was investigated by using the ferrozine assay and led to the result that GLV-1h68-infected tumors had the highest iron content. Histological stainings confirmed the finding that iron accumulation was not a direct result of the insertion of genes encoding iron-accumulating proteins in the virus genome. Furthermore virus-injected tumorous mice were analyzed using MRI technology. Two different measurements were performed, the first scan being done with a seven Tesla small animal scanner seven days post infection whereas the second scan was performed using a three Tesla human scanner 21 days after virus injection. Tumors of mice injected with the virus strains GLV-1h113 and GLV-1h184 were shown to exhibit shortened T2 and T2* relaxation times, which indicates enhanced iron accumulation. In conclusion, the experiments in this study suggest that the bacterioferritin-encoding virus strain GLV-1h113 and the magA-encoding virus strain GLV-1h184 are promising candidates to be used for cancer imaging after further analyzation and optimization.
The standard model (SM) of particle physics is for the last three decades a very successful description of the properties and interactions of all known elementary particles. Currently, it is again probed with the first collisions at the Large Hadron Collider (LHC). It is widely expected that new physics will be detected at the LHC and the SM has to be extended. The most exhaustive analyzed extension of the SM is supersymmetry (SUSY). SUSY can not only solve intrinsic problems of the SM like the hierarchy problem, but it also postulates new particles which might explain the nature of dark matter in the universe. The majority of all studies about dark matter in the framework of SUSY has focused on the minimal supersymmetric standard model (MSSM). The aim of this work is to consider scenarios beyond that scope. We consider two models which explain not only dark matter but also neutrino masses: the gravitino as dark matter in gauge mediated SUSY breaking (GMSB) with bilinear broken $R$-parity as well as different seesaw scenarios with the neutralino as dark matter candidate. Furthermore, we also study the next-to-minimal supersymmetric standard model (NMSSM) which solves the \(\mu\)-problem of the MSSM and discuss the properties of the neutralino as dark matter candidate. In case of $R$-parity violation, light gravitinos are often the only remaining candidate for dark matter in SUSY because of their very long life time. We reconsider the cosmological gravitino problem arising for this kind of models. It will be shown that the proposed solution for the overclosure of the universe by light gravitinos, namely the entropy production by decays of GMSB messenger, just works in a small subset of models and in fine-tuned regions of the parameter space. This is a consequence of two effects so far overlooked: the enhanced decay channels in massive vector bosons and the impact of charged messenger particles. Both aspects cause an interplay between different cosmological restrictions which lead to strong constraints on the parameters of GMSB models. Afterwards, a minimal supergravity (mSugra) scenario with additional chiral superfields at high energy scales is considered. These fields are arranged in complete $SU(5)$ multiplets in order to maintain gauge unification. The new fields generate a dimension 5 operator to explain neutrino data. Furthermore, they cause large differences in mass spectrum of MSSM fields because of the different evaluation of the renormalization group equations what changes also the properties of the lightest neutralino as dark matter candidate. We discuss the parameter space of all three possible seesaw scenarios with respect to dark matter and the impact on rare lepton flavor violating processes. As we will see, especially in seesaw type~III but also in type~II the mass spectrum and regions of parameter space consistent with dark matter differ significantly in comparison to a common mSugra scenario. Moreover, the experimental bounds, in particular of branching ratios like \(l_i \rightarrow l_j \gamma\), cause large constraints on the seesaw parameters.
Mapping Bushfire Distribution and Burn Severity in West Africa Using Remote Sensing Observations
(2010)
Fire has long been considered to be the main ecological factor explaining the origin and maintenance of West African savannas. It has a very high occurrence in these savannas due to high human pressure caused by strong demographic growth and, concomitantly, is used to transform natural savannas into farmland and is also used as a provider of energy. This study was carried out with the support of the BIOTA project funded by the German ministry for Research and Education. The objective of this study is to establish the spatial and temporal distribution of bushfires during a long observation period from 2000 to 2009 as well as to assess fire impact on vegetation through mapping of the burn severity; based on remote sensing and field data collections. Remote sensing was used for this study because of the advantages that it offers in collecting data for long time periods and on different scales. In this case, the Moderate Resolution Imaging Spectroradiometer (MODIS) satellite instrument at 1km resolution is used to assess active fires, and understand the seasonality of fire, its occurrence and its frequency within the vegetation types on a regional scale. Landsat ETM+ imagery at 30 m and field data collections were used to define the characteristics of burn severity related to the biomass loss on a local scale. At a regional scale, the occurrence of fires and rainfall per month correlated very well (R2 = 0.951, r = -0.878, P < 0.01), which shows that the lower the amount of rainfall, the higher the fire occurrence and vice versa. In the dry season, four fire seasons were determined on a regional scale, namely very early fires, which announce the beginning of the fires, early and late fires making up the peak of fire in December/January and very late fires showing the end of the fire season and the beginning of the rainy season. Considerable fire activity was shown to take place in the vegetation zones between the Forest and the Sahel areas. Within these zones, parts of the Sudano-Guinean and the Guinean zones showed a high pixel frequency, i.e. fires occurred in the same place in many years. This high pixel frequency was also found in most protected areas in these zones. As to the kinds of land cover affected by fire, the highest fire occurrence is observed within the Deciduous woodlands and Deciduous shrublands. Concerning the burn severity, which was observed at a local scale, field data correlated closely with the ΔNBR derived from Landsat scenes of Pendjari National Park (R2 = 0.76). The correlation coefficient according to Pearson is r = 0.84 and according to Spearman-Rho, the correlation coefficient is r = 0.86. Very low and low burn severity (with ΔNBR value from 0 to 0.40) affected the vegetation weakly (0-35 percent of biomass loss) whereas moderate and high burn severity greatly affected the vegetation, leading to up to 100 percent of biomass loss, with the ΔNBR value ranging from 0.41 to 0.99. It can be seen from these results that remotely sensed images offer a tool to determine the fire distribution over large regions in savannas and that the Normalised Burn Ratio index can be applied to West Africa savannas. The outcomes of this thesis will hopefully contribute to understanding and, eventually, improving fire regimes in West Africa and their response to climate change and changes in vegetation diversity.
Neuroplasticity is a term indicating structural and functional changes in the brain through the lifespan. In the present study, differences in the functional cortical activations between the musical talents and non-talents were investigated after a short-term practice of the visuomotor and auditory tasks. Visuomotor task consisted of the finger tapping sequences, while auditory task consisted of passive listening to the classical music excerpts. Non-talents were divided in two groups: trained non-talents who practiced the task prior to scanning and untrained non-talents who did not practice the task. Functional activations were obtained by the functional magnetic resonance imaging (fMRI) in a 1.5T Scanner. It was hypothesized that talents would exhibit different functional activations from non-talents in both tasks as a result of the long-term music practice, which would account for the brain plasticity. Decreased activation of the same areas in talents in respect to the non-talents as well as the activation of different areas between the talents and non-talents was hypothesized. In addition due to a plethora of previous studies showing increased activations in the primary motor cortex (M1) in musicians, as well as left inferior frontal gyrus (lIFG), increased activation of the M1 and lIFG in talents were hypothesized. Behavioral results did not reveal differences in performance among the three groups of subjects (talents, non-talents who practiced the task, and non-talents who did not practice the task). The main findings from imaging results of the visuomotor task confirmed the hypothesis of the increased activation in the M1 in talents. Region of interest analyses of the lIFG revealed the highest activation in the untrained non-talents, lower activation in talents, and least activation in the trained non-talents. Posthoc imaging analyses revealed higher activations in the cerebella of subjects who practiced the visuomotor task. For the auditory task, the effect of auditory practice was observed in the right inferior frontal gyrus (rIFG). These results should be interpreted with caution due to the absence of behavioral differences among the groups.
This work is composed of three main parts: remote control of mobile systems via Internet, ad-hoc networks of mobile robots, and remote control of mobile robots via 3G telecommunication technologies. The first part gives a detailed state of the art and a discussion of the problems to be solved in order to teleoperate mobile robots via the Internet. The focus of the application to be realized is set on a distributed tele-laboratory with remote experiments on mobile robots which can be accessed world-wide via the Internet. Therefore, analyses of the communication link are used in order to realize a robust system. The developed and implemented architecture of this distributed tele-laboratory allows for a smooth access also with a variable or low link quality. The second part covers the application of ad-hoc networks for mobile robots. The networking of mobile robots via mobile ad-hoc networks is a very promising approach to realize integrated telematic systems without relying on preexisting communication infrastructure. Relevant civilian application scenarios are for example in the area of search and rescue operations where first responders are supported by multi-robot systems. Here, mobile robots, humans, and also existing stationary sensors can be connected very fast and efficient. Therefore, this work investigates and analyses the performance of different ad-hoc routing protocols for IEEE 802.11 based wireless networks in relevant scenarios. The analysis of the different protocols allows for an optimization of the parameter settings in order to use these ad-hoc routing protocols for mobile robot teleoperation. Also guidelines for the realization of such telematics systems are given. Also traffic shaping mechanisms of application layer are presented which allow for a more efficient use of the communication link. An additional application scenario, the integration of a small size helicopter into an IP based ad-hoc network, is presented. The teleoperation of mobile robots via 3G telecommunication technologies is addressed in the third part of this work. The high availability, high mobility, and the high bandwidth provide a very interesting opportunity to realize scenarios for the teleoperation of mobile robots or industrial remote maintenance. This work analyses important parameters of the UMTS communication link and investigates also the characteristics for different data streams. These analyses are used to give guidelines which are necessary for the realization of or industrial remote maintenance or mobile robot teleoperation scenarios. All the results and guidelines for the design of telematic systems in this work were derived from analyses and experiments with real hardware.
With the progress in robotics research the human machine interfaces reach more and more the status of being the major limiting factor for the overall system performance of a system for remote navigation and coordination of robots. In this monograph it is elaborated how mixed reality technologies can be applied for the user interfaces in order to increase the overall system performance. Concepts, technologies, and frameworks are developed and evaluated in user studies which enable for novel user-centered approaches to the design of mixed-reality user interfaces for remote robot operation. Both the technological requirements and the human factors are considered to achieve a consistent system design. Novel technologies like 3D time-of-flight cameras are investigated for the application in the navigation tasks and for the application in the developed concept of a generic mixed reality user interface. In addition it is shown how the network traffic of a video stream can be shaped on application layer in order to reach a stable frame rate in dynamic networks. The elaborated generic mixed reality framework enables an integrated 3D graphical user interface. The realized spatial integration and visualization of available information reduces the demand for mental transformations for the human operator and supports the use of immersive stereo devices. The developed concepts make also use of the fact that local robust autonomy components can be realized and thus can be incorporated as assistance systems for the human operators. A sliding autonomy concept is introduced combining force and visual augmented reality feedback. The force feedback component allows rendering the robot's current navigation intention to the human operator, such that a real sliding autonomy with seamless transitions is achieved. The user-studies prove the significant increase in navigation performance by application of this concept. The generic mixed reality user interface together with robust local autonomy enables a further extension of the teleoperation system to a short-term predictive mixed reality user interface. With the presented concept of operation, it is possible to significantly reduce the visibility of system delays for the human operator. In addition, both advantageous characteristics of a 3D graphical user interface for robot teleoperation- an exocentric view and an augmented reality view – can be combined.
Plants exposed to herbivory may defend themselves by attracting the “enemies of their enemies”, a phenomenon called induced indirect defense (IID). In this process, the de novo production and emission of volatile organic compounds (VOC) by the affected plant is activated via a jasmonic acid (JA) dependent signaling cascade. VOC can be very specific for the inducing herbivore as well as for the emitting plant. Carnivores as predatory mites and parasitoid wasps use these substances as prey- or host-finding cues. If the herbivore is parasitized successfully, its development is slowed and thus the damage of the plant is decreased. Additional abiotic stress may modulate the plant’s ability to produce and/or emit herbivore induced VOC. Ultraviolet (UV) radiation can have multiple physiological effects on plants, amongst others the activation of the expression of genes that are also activated during anti-herbivore defense. To investigate UV effects, foils with different UV transmittance were used to manipulate ambient solar radiation. One foil was permeable for the whole solar spectrum including UV radiation whereas the other excluded radiation below a wavelength of 400 nm. Soybean exposed to UV increased concentrations of isorhamnetin- and quercetin-based flavonoids as effective photo-protective compounds in the leaves and showed a reduced growth compared to plants exposed to ambient radiation lacking UV. The altered chemical composition of the leaves had no effect on food choice and performance of herbivorous Spodoptera frugiperda larvae. Photo-protection by flavonoids seems to be efficient to prevent further UV effects on IID as plants of both treatments emitted the same blend of induced VOC and hence females of the parasitoid Cotesia marginiventris did not prefer plants from on of the treatments in the olfactometer. Nitrogen is one important macronutrient for all trophic levels and thus deficiency of this nutrient was expected to affect IID of soybean profoundly. To manipulate N availability for soybean plants hydroponic culture was used. One treatment was cultured in a standard hydroponic solution whereas in the N deficiency treatment in the solution all salts containing N were replaced with N-free salts. In N deficient plants root biomass was increased to allow the plant to forage more efficiently for the nutrient. Despite this morphological adaptation, photosynthetic efficiency as well as leaf N and soluble protein content were reduced significantly in N deficient soybean. The N deficiency was passed on to the third trophic level as herbivores fed with the affected leaves had a reduced body N content on her part and showed a decreased growth but no feeding preference for the superior food. Parasitoids reared in such N deficient herbivores had significant lower pupal weight compared to parasitoids reared in hosts fed with fully fertilized soybean. N deficient plants emitted a quantitatively altered herbivore induced blend. The two terpenes β-Bergamotene and (E,E)-α-Farnesene were emitted in higher amounts whereas (Z)-3-Hexenyl-α-methylbutyrate was emitted in significantly lower amount. Despite this quantitatively modified VOC blend the parasitoids host-searching behavior was not affected. Heavy metals (HM) are proposed to affect various biochemical pathways in plants including defense pathways by production of reactive oxygen species (ROS) in the tissue. The ROS on its part may affect production and release of endogenous JA, an important messenger in defense signaling. In this study maize plants were grown hydroponically and exposed to different increased concentrations of copper and cadmium. Maize seems to be able to exclude the excess HM from the leaves because the HM were found mainly in the roots and only to a minor degree in the shoots of the plants. Despite this exclusion the HM significantly affected uptake of other metal ions into the plant. The excess of the HM in combination with the attenuated uptake of other ions led to a reduced growth of roots and shoots as well as to reduced photosynthetic efficiency. Thus the nutritional value of the plants for the herbivore was lowered either by direct toxic effects of the HM or indirectly by altering plant chemical composition. S. frugiperda larvae fed with leaves exposed to high HM concentrations showed a significantly reduced growth but they did prefer neither control nor HM treated plants in a food-choice assay. Cu had a transient priming effect on JA as pre-exposure to a high excess of Cu led to higher amounts of herbivore induced JA compared to control plants exposed only to standard concentration of Cu. As anticipated the increased JA was followed by an increase in herbivore induced VOC in high-Cu treated plants caused by a increase of the green leaf volatiles (E)-3-Hexenal, (Z)-3-Hexenol and (Z)-3-Hexenylacetat and the terpenes Linalool, (E)-α-Bergamotene, (E)-β-Farnesene, and β-Sesquiphellandrene. Despite these profound changes in herbivore induced VOC the parasitoids host searching behavior was not affected. As described, the abiotic stresses UV, N deficiency and excess HM affected the morphology and physiology of soybean and maize, the performance of the herbivore S. frugiperda and even the performance of the parasitoid C. marginiventris. However the host searching behavior of the parasitoid was not affected even if the herbivore induced VOC blend was altered. Thus parasitoids seem to be a very reliable defender for plants and IID a very robust way of herbivore defense.
The urban micro climate has been increasingly recognised as an important aspect for urban planning. Therefore, urban planners need reliable information on the micro climatic characteristics of the urban environment. A suitable spatial scale and large spatial coverage are important requirements for such information. This thesis presents a conceptual framework for the use of airborne hyperspectral data to support urban micro climate characterisation, taking into account the information needs of urban planning. The potential of hyperspectral remote sensing in characterising the micro climate is demonstrated and evaluated by applying HyMap airborne hyperspectral and height data to a case study of the German city of Munich. The developed conceptual framework consists of three parts. The first is concerned with the capabilities of airborne hyperspectral remote sensing to map physical urban characteristics. The high spatial resolution of the sensor allows to separate the relatively small urban objects. The high spectral resolution enables the identification of the large range of surface materials that are used in an urban area at up to sub-pixel level. The surface materials are representative for the urban objects of which the urban landscape is composed. These spatial urban characteristics strongly influence the urban micro climate. The second part of the conceptual framework provides an approach to use the hyperspectral surface information for the characterisation of the urban micro climate. This can be achieved by integrating the remote sensing material map into a micro climate model. Also spatial indicators were found to provide useful information on the micro climate for urban planners. They are commonly used in urban planning to describe building blocks and are related to several micro climatic parameters such as temperature and humidity. The third part of the conceptual framework addresses the combination and presentation of the derived indicators and simulation results under consideration of the planning requirements. Building blocks and urban structural types were found to be an adequate means to group and present the derived information for micro climate related questions to urban planners. The conceptual framework was successfully applied to a case study in Munich. Airborne hyperspectral HyMap data has been used to derive a material map at sub-pixel level by multiple endmember linear spectral unmixing. This technique was developed by the German Research Centre for Geosciences (GFZ) for applications in Dresden and Potsdam. A priori information on building locations was used to support the separation between spectrally similar materials used both on building roofs and non-built surfaces. In addition, surface albedo and leaf area index are derived from the HyMap data. The sub-pixel material map supported by object height data is then used to derive spatial indicators, such as imperviousness or building density. To provide a more detailed micro climate characterisation at building block level, the surface materials, albedo, leaf area index (LAI) and object height are used as input for simulations with the micro climate model ENVI-met. Concluding, this thesis demonstrated the potential of hyperspectral remote sensing to support urban micro climate characterisation. A detailed mapping of surface materials at sub-pixel level could be performed. This provides valuable, detailed information on a large range of spatial characteristics relevant to the assessment of the urban micro climate. The developed conceptual framework has been proven to be applicable to the case study, providing a means to characterise the urban micro climate. The remote sensing products and subsequent micro climatic information are presented at a suitable spatial scale and in understandable maps and graphics. The use of well-known spatial indicators and the framework of urban structural types can simplify the communication with urban planners on the findings on the micro climate. Further research is needed primarily on the sensitivity of the micro climate model towards the remote sensing based input parameters and on the general relation between climate parameters and spatial indicators by comparison with other cities.
We apply an antiferromagnetic symmetry breaking implementation of the dynamical cluster approximation (DCA) to investigate the two-dimensional hole-doped Kondo lattice model (KLM) with hopping $t$ and coupling $J$. The DCA is an approximation at the level of the self-energy. Short range correlations on a small cluster, which is self-consistently embedded in the remaining bath electrons of the system, are handled exactly whereas longer ranged spacial correlations are incorporated on a mean-field level. The dynamics of the system, however, are retained in full. The strong temporal nature of correlations in the KLM make the model particularly suitable to investigation with the DCA. Our precise DCA calculations of single particle spectral functions compare well with exact lattice QMC results at the particle-hole symmetric point. However, our DCA version, combined with a QMC cluster solver, also allows simulations away from particle-hole symmetry and has enabled us to map out the magnetic phase diagram of the model as a function of doping and coupling $J/t$. At half-filling, our results show that the linear behaviour of the quasi-particle gap at small values of $J/t$ is a direct consequence of particle-hole symmetry, which leads to nesting of the Fermi surface. Breaking the symmetry, by inclusion of a diagonal hopping term, results in a greatly reduced gap which appears to follow a Kondo scale. Upon doping, the magnetic phase observed at half-filling survives and ultimately gives way to a paramagnetic phase. Across this magnetic order-disorder transition, we track the topology of the Fermi surface. The phase diagram is composed of three distinct regions: Paramagnetic with {\it large} Fermi surface, in which the magnetic moments are included in the Luttinger sum rule, lightly antiferromagnetic with large Fermi surface topology, and strongly antiferromagnetic with {\it small} Fermi surface, where the magnetic moments drop out of the Luttinger volume. We draw on a mean-field Hamiltonian with order parameters for both magnetisation and Kondo screening as a tool for interpretation of our DCA results. Initial results for fixed coupling and doping but varying temperature are also presented, where the aim is look for signals of the energy scales in the system: the Kondo temperature $T_{K}$ for initial Kondo screening of the magnetic moments, the Neel temperature $T_{N}$ for antiferromagnetic ordering, a possible $T^{*}$ at which a reordering of the Fermi surface is observed, and finally, the formation of the coherent heavy fermion state at $T_{coh}$.
Memory is dynamic: shortly after acquisition it is susceptible to amnesic treatments, gets gradually consolidated, and becomes resistant to retrograde amnesia (McGaugh, 2000). Associative olfactory memory of the fruit fly Drosophila melanogaster also shows these features. After a single associative training where an odor is paired with electric shock (Quinn et al., 1974; Tully and Quinn, 1985), flies form an aversive odor memory that lasts for several hours, consisting of qualitatively different components. These components can be dissociated by mutations, their underlying neuronal circuitry and susceptibility to amnesic treatments (Dubnau and Tully, 1998; Isabel et al., 2004; Keene and Waddell, 2007; Masek and Heisenberg, 2008; Xia and Tully, 2007). A component that is susceptible to an amnesic treatment, i.e. anesthesia-sensitive memory (ASM), dominates early memory, but decays rapidly (Margulies et al., 2005; Quinn and Dudai, 1976). A consolidated anesthesia-resistant memory component (ARM) is built gradually within the following hours and lasts significantly longer (Margulies et al., 2005; Quinn and Dudai, 1976). I showed here that the establishment of ARM requires less intensity of shock reinforcement than ASM. ARM and ASM rely on different molecular and/or neuronal processes: ARM is selectively impaired in the radish mutant, whereas for example the amnesiac and rutabaga genes are specifically required for ASM (Dudai et al., 1988; Folkers et al., 1993; Isabel et al., 2004; Quinn and Dudai, 1976; Schwaerzel et al., 2007; Tully et al., 1994). The latter comprise the cAMP signaling pathway in the fly, with the PKA being its supposed major target (Levin et al., 1992). Here I showed that a synapsin null-mutant encoding the evolutionary conserved phosphoprotein Synapsin is selectively impaired in the labile ASM. Further experiments suggested Synapsin as a potential downstream effector of the cAMP/PKA cascade. Similar to my results, Synapsin plays a role for different learning tasks in vertebrates (Gitler et al., 2004; Silva et al., 1996). Also in Aplysia, PKA-dependent phosphorylation of Synapsin has been proposed to be involved in regulation of neurotransmitter release and short-term plasticity (Angers et al., 2002; Fiumara et al., 2004). Synapsin is associated with a reserve pool of vesicles at the presynapse and is required to maintain vesicle release specifically under sustained high frequency nerve stimulation (Akbergenova and Bykhovskaia, 2007; Li et al., 1995; Pieribone et al., 1995; Sun et al., 2006). In contrast, the requirement of Bruchpilot, which is homologous to the mammalian active zone proteins ELKS/CAST (Wagh et al., 2006), is most pronounced in immediate vesicle release (Kittel et al., 2006). Under repeated stimulation of a bruchpilot mutant motor neuron, immediate vesicle release is severely impaired whereas the following steady-state release is still possible (Kittel et al., 2006). In line with that, knockdown of the Bruchpilot protein causes impairment in clustering of Ca2+ channels to the active zones and a lack of electron-dense projections at presynaptic terminals (T-bars). Thus, less synaptic vesicles of the readily-releasable pool are accumulated to the release sites and their release probability is severely impaired (Kittel et al., 2006; Wagh et al., 2006). First, I showed that Bruchpilot is required for aversive olfactory memory and localized the requirement of Bruchpilot to the Kenyon cells of the mushroom body, the second-order olfactory interneurons in Drosophila. Furthermore, I demonstrated that Bruchpilot selectively functions for the consolidated anesthesia-resistant memory. Since Synapsin is specifically required for the labile anesthesia sensitive memory, different synaptic proteins can dissociate consolidated and labile components of olfactory memory and two different modes of neurotransmission (high- vs. low frequency dependent) might differentiate ASM and ARM.
Leaf-cutting ants have a highly developed thermal sense which the insects use to regulate the own body temperature and also to optimize brood and fungus development. Apart from the already described temperature guided behaviors inside the nest it is unknown to what extent the ants may use their thermal sense outside the nest. As part of the present thesis, the question was addressed whether leaf-cutting ants (Atta vollenweideri) are able to learn the position of a warm object as landmark for orientation during foraging. Using absolute conditioning, it was shown that ten training trials are sufficient to elicit the association be-tween food reward and the temperature stimulus. In the test situation (without reward) a significantly higher amount of ants preferred the heated site compared to the unheated con-trol. Importantly, thermal radiation alone was sufficient to establish the learned association and served as orientation cue during the test situation (chapter IV). Based on the experi-mental design used in the previous chapter, the localization of thermosensitive neurons, which detect the underlying thermal stimuli, is restricted to the head or the antennae of the ants. The antennal sensillum coeloconicum is a potential candidate to detect the thermal stimuli during the orientation behavior. In chapter V the sensillum coeloconicum of Atta vollenweideri was investigated concerning its gross morphology, fine-structure and the phy-siology of the associated thermosensitive neuron. The sensillum is predominantly located on the apical antennal segment (antennal tip) where around 12 sensilla are clustered, and it has a peg-in-pit morphology with a double walled, multiporous peg. The sensory peg is deeply embedded in a cuticular pit, connected to the environment only by a tiny aperture. The sen-sillum houses three receptor neurons of which one is thermosensitive whereas the sensory modality of the other two neurons remains to be shown. Upon stimulation with a drop in temperature, the thermosensitve neuron responds with a phasic-tonic increase in neuronal activity (cold-sensitive neuron) and shows rapid adaptation to prolonged stimulation. In ad-dition, it is shown that thermal radiation is an effective stimulus for the thermosensitive neuron. This is the first evidence that sensilla coeloconica play an important role during the thermal orientation behavior described in chapter IV. During the test situation of the classic-al conditioning paradigm, the ants showed rapid antennal movements, indicating that they scan their environment in order to detect the heated object. Rapid antennal movements will result in rapid discontinuities of thermal radiation that re-quire thermosensitive neurons with outstanding sensitivity and high temporal resolution. In Chapter VI the question was addressed whether the thermosensitive neuron of the sensilla coeloconica fulfils these preconditions. Extracellular recordings revealed that the neuron is extremely sensitive to temperature transients and that, due to the response dynamics, an estimated stimulus frequency of up to 5 Hz can be resolved by the neuron. Already a tem-perature increase of only 0.005 °C leads to a pronounced response of the thermosensitive neuron. Through sensory adaptation, the sensitivity to temperature transients is maintained over a wide range of ambient temperatures. The discovered extreme sensitivity, the high temporal resolution and the pronounced adaptation abilities are further evidence support-ing the idea that sensilla coeloconica receive information of the thermal environment, which the ants may use for orientation. In order to understand how the ants use their thermal environment for orientation, it is ne-cessary to know where and how thermal information is processed in their central nervous system. In Chapter VII the question is addressed where in the brain the thermal information, specifically received by the thermosensitive neuron of sensilla coeloconica, is represented. By selectively staining single sensilla coeloconica, the axons of the receptor neurons could be tracked into the antennal lobe of Atta vollenweideri workers. Each of the three axons termi-nated in a single functional unit (glomerulus) of the antennal lobe. Two of the innervated glomeruli were adjacent to each other and are located lateral, while the third one was clear-ly separate and located medial in the antennal lobe. Using two-photon Ca2+ imaging of an-tennal lobe projection neurons, the general representation of thermal information in the antennal lobe was studied. In 11 investigated antennal lobes up to six different glomeruli responded to temperature stimulation in a single specimen. Both, warm- and cold-sensitive glomeruli could be identified. All thermosensitive glomeruli were located in the medial half of the antennal lobe. Based on the correlative evidence of the general representation of thermal information and the results from the single sensilla stainings, it is assumed that thermal information received by sensilla coeloconica is processed in the medial of the three target glomeruli. This part of the thesis shows the important role of the antennal lobe in temperature processing and links one specific thermosensitive neuron to its target region (a single glomerulus). In chapter V it was shown that the sensilla coeloconica are clustered at the antennal tip and have an extraordinary peg-in-pit morphology. In the last chapter of this thesis (Chapter VIII) the question is addressed whether the morphology of the sensilla coeloconica predicts the receptive field of the thermosensitive neuron during the detection of thermal radiation. The sensory pegs of all sensilla coeloconica in the apical cluster have a similar orientation, which was not constraint by the shape of the antennal tip where the cluster is located. This finding indicates that the sensilla coeloconica function as a single unit. Finally the hypothesis was tested whether a single sensillum could be direction sensitive to thermal radiation based on its eye-catching morphology. By stimulating the thermosensitive neuron from various angles around the sensillum this indeed could be shown. This is the last and most significant evi-dence that the sensilla coeloconica may be adapted to detect spatially distributed heated objects in the environment during the thermal landmark orientation of ants.
Characterization of allosteric mechanisms on the M2 and M4 mACh receptor using the FRET-technique
(2010)
Allosteric modulators have been proposed as promising new compounds to modify protein function. Allosteric binding sites have been discovered for several G-protein-coupled receptors, including M1-5 muscarinic receptors. Since these receptors play a pivotal role in the regulation of a plethora of organ functions, it is particularly important to investigate the mechanisms of allosteric modulation. To study molecular mechanisms of allosteric modulation in the M2 muscarinic receptor, a new FRET-based sensor was designed. CFP fused to the C-terminus of the receptor and a small fluorescent compound FlAsH, which labels a specific binding sequence in the third intracellular loop, were used as donor and acceptor fluorophores, respectively. The first part of the study was to design a functional FRET receptor sensor. After several optimization steps the constructs FLAG-M2-sl3-FlAsH-GSGEG-CFP and HA-FLAG-M2-sl3-FlAsH-GSGEG-CFP were generated which showed good cell-surface expression, robust changes in FRET and the ability to deliver reproducible data. The second part of this thesis sought to elucidate the mechanisms of the allosteric ligand binding and their effects on the receptor conformation. The described modifications, which were introduced in the wild type M2 mAChR to create the FRET sensor can alter receptor functionality and influence receptor expression. Radioligand binding studies revealed that the used transfection method provided sufficient receptor expression but, unfortunately, about 60 % of the FLAG-M2-sl3-FlAsH-GSGEG-CFP receptor remains in the cytosol. However, this was sufficient to perform FRET experiments. Patch clamp GIRK-measurements with acetylcholine evinced that the new M2-sensor was able to activate Gi-proteins. Also, radioligand-binding assays with the second construct HA-FLAG-M2-sl3-FlAsH-GSGEG-CFP showed ligand affinity comparable to the wildtype receptor. Furthermore inhibition of forskolin-stimulated cAMP production was indistinguishable from the behaviour of the wildtype receptor. According to that, the full functionality of both receptor constructs could be confirmed. FRET measurements with the full muscarinic receptor agonists carbachol and acetylcholine confirmed that the FLAG-M2-sl3-FlAsH-GSGEG-CFP receptor construct showed rapid changes in FRET upon addition of both ligands, which were concentration-dependent. Concentration response curves and the resulting EC50 values of both agonists were similar to those already published in literature. In addition, the orthosteric antagonists atropine and methoctramine inhibited the FRET changes induced by the agonists. This inhibition was significantly faster than the washout kinetics, pointing to an active displacement of the agonists by the antagonists. Allosteric ligands gallamine, tacrine and dimethyl-W84 did not alter receptor conformation when added without an orthosteric ligand. However, when applied in addition to muscarinic agonists, all three substances inhibited the FRET-signal. The extent of this inhibition was dependent on the used concentration of the allosteric ligands. These results reveal that conformational changes brought about by allosteric ligands can be measured with the FRET technique. Furthermore real-time FRET-based kinetic measurements could be performed in living cells and showed that the allosteric ligands gallamine and dimethyl-W84 alter receptor conformation significantly faster than the antagonists atropine and methoctramine. This data indicate that allosteric ligands actively induce the conformational changes in the receptor.
The main aim of this thesis was the synthesis and structural characterization of penta and hexacoordinate silicon(IV) complexes. In the course of these studies, the neutral pentacoordinate silicon(IV) complexes 38, 39, 43−48, 54 and 55 were prepared. Furthermore, the neutral hexacoordinate silicon(IV) complexes 33−36, 49, 50, 52, 53, 56−62, 63, 64 and 65 were synthesized. All compounds were characterized by elemental analyses, NMR spectroscopy in solution (1H, 13C, 15N, 29Si) and in the solid-state (13C, 15N, 29Si VACP/MAS NMR), as well as single-crystal X-ray diffraction (except 45, 47−49, 52, 53 and 63).
Ca2+ dependent cell adhesion molecules (cadherins) are central for a variety of cell and tissue functions such as morphogenesis, epithelial and endothelial barrier formation, synaptic function and cellular signaling. Of paramount importance for cadherin function is their specific extracellular adhesive trans-interaction. Cadherins are embedded in a cellular environment of intracellular and extracellular regulators that modify cadherin binding in response to various physiological and pathological stimuli. Most experimental approaches used for studying cadherin interaction however lack a physiological proof of principle mostly by not investigating cadherins in their physiological environment. In the present cumulative dissertation, experimental approaches were applied to characterize and modulate vascular endothelial (VE)-cadherin and desmocadherin functions in the (patho-)physiological contexts of endothelial permeability regulation and disturbance of epidermal barrier function, which is typical to the blistering skin disease pemphigus, respectively. Whereas VE-cadherin is a key regulator of the endothelial barrier that separates the blood compartment from the interstitial space of tissues, desmosomal cadherins are crucial for maintenance of epidermal integrity and separation of the external environment from the body’s internal milieu. Cadherin functions were both investigated in cell-free and cell-based conditions: by using biophysical single molecule techniques like atomic force microscopy (AFM), cadherin function could be investigated in conditions, where contributions of intracellular signaling were excluded. These experiments were, however, compared and combined with cell-based experiments in which cadherins of epidermal or endothelial cell cultures were probed by laser force microscopy (laser tweezers), fluorescence recovery after photobleaching (FRAP) and other techniques. The autoimmune blistering skin diseases pemphigus foliaceus (PF) and pemphigus vulgaris (PV) are caused by autoantibodies directed against the extracellular domains of the desmosomal cadherins desmoglein (Dsg) 1 and 3, which are important for epidermal adhesion. The mechanism of autoantibody-induced cell dissociation (acantholysis) in pemphigus, however, is still not fully understood. For the first time, it is shown by AFM force spectroscopy that pemphigus autoantibodies directly inhibit Dsg3 adhesion by steric hindrance but do not inhibit adhesion of Dsg1. However, the full pathogenicity of the autoantibodies depended on cellular signaling processes, since autoantibodies targeting Dsg1 also resulted in loss of cadherin-mediated adhesion in cell-based experiments. However, two other signaling pathways that have been reported to be involved in pemphigus pathogenesis, i.e. epidermal growth factor receptor (EGFR) and c-Src activation, were not found to be important in this context. Furthermore, peptide-based modulators of cadherin functions were generated for Dsg1/3 and VE-cadherin. By comparing Dsg1, Dsg3 and VE-cadherin sequences to published X-ray structures of cadherin trans-interactions, specific amino acid sequences of the binding pockets of these cadherins were identified. Peptide versions of these motifs were synthesized and the antagonistic functions of these “single peptides” were validated by AFM force spectroscopy as well as by cell-based assays. By linking two single peptides in tandem, stabilization of cadherin bonds because of by cross-bridge formation between trans-interacting cadherins was demonstrated. Protective effects of tandem peptides were shown by partly preventing pemphigus autoantibody-induced acantholysis, or in the case of VE-cadherin, by stabilizing endothelial barrier properties against barrier disrupting agents like the Ca2+ ionophore A23187 and an inhibitory VE-cadherin antibody. Most importantly, VE-cadherin tandem peptides abolished microvascular hyperpermeability induced by the physiologic inflammatory agent tumor necrosis factor-α in the rat mesentery in vivo. Both classes of tandem peptides therefore can be considered as a starting point for the generation of potential therapeutic agents that might prevent cell dissociation in pemphigus and breakdown of the endothelial barrier under inflammatory conditions.
Foraging behavior is a particularly fascinating topic within the studies of social insects. Decisions made by individuals have effects not only on the individual level, but on the colony level as well. Social information available through foraging in a group modulates individual preferences and shapes the foraging pattern of a colony. Identifying parameters influencing foraging behavior in leaf-cutting ants is especially intriguing because they do not harvest for themselves, but for their symbiotic fungus which in turn influences their plant preferences after the incorporation of the substrate. To learn about the substrates’ unsuitability for the fungus, ants need to be able to identify the incorporated substrate and associate it with detrimental effects on the fungus. Odor is an important plant characteristic known to be used as recognition key outside the nest in the context of foraging. Chapter 1 shows that foragers are able to recall information about the unsuitability of a substrate through odor alone and consequently reject the substrate, which leads to the conclusion that inside the nest, odor might be enough to indentify incorporated substrate. Identification of plant species is a key factor in the foraging success of leaf-cutting ants as they harvest a multitude of different plant species in a diverse environment and host plant availability and suitability changes throughout the year. Fixed plant preferences of individuals through innate tendencies are therefore only one factor influencing foraging decisions. On the individual as well as the colony level, foraging patterns are flexible and a result of an intricate interplay between the different members involved in the harvesting process: foragers, gardeners and the symbiotic fungus. In chapter 2 I identified several conditions necessary for naïve foragers to learn about the unsuitability of substrate inside the nest. In order to exchange of information about the unsuitability of a substrate, the plant in question must be present in the fungus garden. Foragers can learn without own foraging experience and even without experiencing the effects of the substrate on the fungus, solely through the presence of experienced gardeners. The presence of experienced foragers alone on the other hand is not enough to lower the acceptance of substrate by naïve foragers in the presence of naïve gardeners, even if experienced foragers make up the majority of the workforce inside the nest. Experienced foragers are also able to reverse their previous negative experience and start accepting the substrate again. The individual behavior of foragers and gardeners with different experiential backgrounds in the presence of suitable or unsuitable substrate inside the fungus chamber was investigated in chapter 3 to shed some light on possible mechanisms involved in the flow of information about substrate suitability from the fungus to the ants. Gardeners as well as foragers are involved in the leaf processing and treatment of the applied leaf patches on the fungus. If the plant material is unsuitable, significantly more ants treat the plant patches, but foragers are less active overall. Contacts between workers initiated by either gardeners or foragers occur significantly more frequent and last longer if the substrate is unsuitable. Even though experienced gardeners increase naïve foragers’ contact rates and duration with other workers in the presence of suitable plant patches, naïve foragers show no differences in the handling of the plant patches. This suggests that foragers gain information about plant suitability not only indirectly through the gardening workers, but might also be able to directly evaluate the effects of the substrate on the fungus themselves. Outside the nest, foragers influence each other the trail (chapter 4). Foraging in a group and the presence of social information is a decisive factor in the substrate choice of the individual and leads to a distinct and consentaneous colony response when encountering unfamiliar or unsuitable substrates. As leaf-cutting ants harvest different plant species simultaneously on several trails, foragers gain individual experiences concerning potential host plants. Preferences might vary among individuals of the same colony to the degree that foragers on the same trail perceive a certain substrate as either suitable or unsuitable. If the majority of foragers on the trail perceives one of the currently harvested substrates as unsuitable, naïve foragers lower their acceptance within 4 hours. In the absence of a cue in the fungus, naïve foragers harvesting by themselves still eventually (within 6 hours) reject the substrate as they encounter experienced gardeners during visits to the nest within foraging bouts. As foraging trails can be up to 100 m long and foragers spend a considerable amount of time away from the nest, learning indirectly from experienced foragers on the trail accelerates the distribution of information about substrate suitability. The level of rejection of a formerly unsuitable substrate after eight hours of foraging by naïve foragers correlates with the average percentage of unladen experienced foragers active on the trail. This suggests that unladen experienced foragers might actively contact laden naïve workers transmitting information about the unsuitability of the load they carry. Results from experiments were I observed individual laden foragers on their way back to the nest backed up this assumption as individuals were antennated and received bites into the leaf disk they carried. Individuals were contacted significantly more often by nestmates that perceived the carried leaf disk as unsuitable due to previous experience than by nestmates without this experience (chapter 6). Leaf-cutting ants constantly evaluate, learn and re-evaluate the suitability of harvested substrate and adjust their foraging activity accordingly. The importance of the different sources of information within the colony and their effect on the foraging pattern of the colony depend on the presence or absence of each of them as e.g. experienced foragers have a bigger influence on the plant preferences of naïve foragers in the absence of a cue in the fungus garden.
The focus of this work lies on the communication issues of Medium Access Control (MAC) and routing protocols in the context of WSNs. The communication challenges in these networks mainly result from high node density, low bandwidth, low energy constraints and the hardware limitations in terms of memory, computational power and sensing capabilities of low-power transceivers. For this reason, the structure of WSNs is always kept as simple as possible to minimize the impact of communication issues. Thus, the majority of WSNs apply a simple one hop star topology since multi-hop communication has high demands on the routing protocol since it increases the bandwidth requirements of the network. Moreover, medium access becomes a challenging problem due to the fact that low-power transceivers are very limited in their sensing capabilities. The first contribution is represented by the Backoff Preamble-based MAC Protocol with Sequential Contention Resolution (BPS-MAC) which is designed to overcome the limitations of low-power transceivers. Two communication issues, namely the Clear Channel Assessment (CCA) delay and the turnaround time, are directly addressed by the protocol. The CCA delay represents the period of time which is required by the transceiver to detect a busy radio channel while the turnaround time specifies the period of time which is required to switch between receive and transmit mode. Standard Carrier Sense Multiple Access (CSMA) protocols do not achieve high performance in terms of packet loss if the traffic is highly correlated due to the fact that the transceiver is not able to sense the medium during the switching phase. Therefore, a node may start to transmit data while another node is already transmitting since it has sensed an idle medium right before it started to switch its transceiver from receive to transmit mode. The BPS-MAC protocol uses a new sequential preamble-based medium access strategy which can be adapted to the hardware capabilities of the transceivers. The protocol achieves a very low packet loss rate even in wireless networks with high node density and event-driven traffic without the need of synchronization. This makes the protocol attractive to applications such as structural health monitoring, where event suppression is not an option. Moreover, acknowledgments or complex retransmission strategies become almost unnecessary since the sequential preamble-based contention resolution mechanism minimizes the collision probability. However, packets can still be lost as a consequence of interference or other issues which affect signal propagation. The second contribution consists of a new routing protocol which is able to quickly detect topology changes without generating a large amount of overhead. The key characteristics of the Statistic-Based Routing (SBR) protocol are high end-to-end reliability (in fixed and mobile networks), load balancing capabilities, a smooth continuous routing metric, quick adaptation to changing network conditions, low processing and memory requirements, low overhead, support of unidirectional links and simplicity. The protocol can establish routes in a hybrid or a proactive mode and uses an adaptive continuous routing metric which makes it very flexible in terms of scalability while maintaining stable routes. The hybrid mode is optimized for low-power WSNs since routes are only established on demand. The difference of the hybrid mode to reactive routing strategies is that routing messages are periodically transmitted to maintain already established routes. However, the protocol stops the transmission of routing messages if no data packets are transmitted for a certain time period in order to minimize the routing overhead and the energy consumption. The proactive mode is designed for high data rate networks which have less energy constraints. In this mode, the protocol periodically transmits routing messages to establish routes in a proactive way even in the absence of data traffic. Thus, nodes in the network can immediately transmit data since the route to the destination is already established in advance. In addition, a new delay-based routing message forwarding strategy is introduced. The forwarding strategy is part of SBR but can also be applied to many routing protocols in order to modify the established topology. The strategy can be used, e.g. in mobile networks, to decrease the packet loss by deferring routing messages with respect to the neighbor change rate. Thus, nodes with a stable neighborhood forward messages faster than nodes within a fast changing neighborhood. As a result, routes are established through nodes with correlated movement which results in fewer topology changes due to higher link durations.
Applying microarray‐based techniques to study gene expression patterns: a bio‐computational approach
(2010)
The regulation and maintenance of iron homeostasis is critical to human health. As a constituent of hemoglobin, iron is essential for oxygen transport and significant iron deficiency leads to anemia. Eukaryotic cells require iron for survival and proliferation. Iron is part of hemoproteins, iron-sulfur (Fe-S) proteins, and other proteins with functional groups that require iron as a cofactor. At the cellular level, iron uptake, utilization, storage, and export are regulated at different molecular levels (transcriptional, mRNA stability, translational, and posttranslational). Iron regulatory proteins (IRPs) 1 and 2 post-transcriptionally control mammalian iron homeostasis by binding to iron-responsive elements (IREs), conserved RNA stem-loop structures located in the 5’- or 3‘- untranslated regions of genes involved in iron metabolism (e.g. FTH1, FTL, and TFRC). To identify novel IRE-containing mRNAs, we integrated biochemical, biocomputational, and microarray-based experimental approaches. Gene expression studies greatly contribute to our understanding of complex relationships in gene regulatory networks. However, the complexity of array design, production and manipulations are limiting factors, affecting data quality. The use of customized DNA microarrays improves overall data quality in many situations, however, only if for these specifically designed microarrays analysis tools are available. Methods In this project response to the iron treatment was examined under different conditions using bioinformatical methods. This would improve our understanding of an iron regulatory network. For these purposes we used microarray gene expression data. To identify novel IRE-containing mRNAs biochemical, biocomputational, and microarray-based experimental approaches were integrated. IRP/IRE messenger ribonucleoproteins were immunoselected and their mRNA composition was analysed using an IronChip microarray enriched for genes predicted computationally to contain IRE-like motifs. Analysis of IronChip microarray data requires specialized tool which can use all advantages of a customized microarray platform. Novel decision-tree based algorithm was implemented using Perl in IronChip Evaluation Package (ICEP). Results IRE-like motifs were identified from genomic nucleic acid databases by an algorithm combining primary nucleic acid sequence and RNA structural criteria. Depending on the choice of constraining criteria, such computational screens tend to generate a large number of false positives. To refine the search and reduce the number of false positive hits, additional constraints were introduced. The refined screen yielded 15 IRE-like motifs. A second approach made use of a reported list of 230 IRE-like sequences obtained from screening UTR databases. We selected 6 out of these 230 entries based on the ability of the lower IRE stem to form at least 6 out of 7 bp. Corresponding ESTs were spotted onto the human or mouse versions of the IronChip and the results were analysed using ICEP. Our data show that the immunoselection/microarray strategy is a feasible approach for screening bioinformatically predicted IRE genes and the detection of novel IRE-containing mRNAs. In addition, we identified a novel IRE-containing gene CDC14A (Sanchez M, et al. 2006). The IronChip Evaluation Package (ICEP) is a collection of Perl utilities and an easy to use data evaluation pipeline for the analysis of microarray data with a focus on data quality of custom-designed microarrays. The package has been developed for the statistical and bioinformatical analysis of the custom cDNA microarray IronChip, but can be easily adapted for other cDNA or oligonucleotide-based designed microarray platforms. ICEP uses decision tree-based algorithms to assign quality flags and performs robust analysis based on chip design properties regarding multiple repetitions, ratio cut-off, background and negative controls (Vainshtein Y, et al., 2010).
In this thesis, computational structure-based design approaches were employed to target the HIV-1 integrase and the macrophage infectivity potentiator (MIP) of Legionella pneumophila. The thesis yields valuable information about the mechanism of action of a known class of integrase inhibitors and a novel approach towards enzyme inhibition, which still is mainly unaddressed in current integrase research. For the MIP enzyme, two small-molecule MIP inhibitors were discovered. The computational studies of HIV-1 integrase have provided valuable information for IN inhibitor design. Docking experiments supported the hypothesis that the well-known diketo acid inhibitors enter the IN active site not as free ligands, but rather as metal complexes. These results help to reveal the mechanism of action of this important class of IN inhibitors.To give an impulse for the development of a novel class of inhibitors, a new strategy towards IN inhibition was introduced: An alternative binding site, the dimerization interface of an IN catalytic core domain monomer, was explored for inhibitor design. The lack of structural data of the free monomer was overcome by extensive MD studies. Snapshots derived from the MD simulation were used as protein input structures in a docking study with the inhibitory peptide YFLLKL to reveal its potential binding mode. The docking procedure showed that the peptidic ligand binds to a dimerization interface conformation which shows a Y-shaped binding site.. The next step was to address this protein conformation with small, non-peptidic molecules. The first strategy towards finding small-molecule interface binders was to create a pharmacophore model with hydrophobic features and shape constraints, aiming to find molecules with a good complementarity to the Y-shaped dimerization interface. Virtual screening yielded a total of 10 compounds, which all displayed good shape complementarity and favorable hydrophobic interactions. Unfortunately, none of the compounds showed a reproducible inhibitory activity in biological assays. Some doubts remain about the validity of the assay results: The use of BSA was critical, since it is not unlikely that BSA “intercepted” the hydrophobic candidate compounds. The first strategy towards finding small-molecule dimerization inhibitors was reconsidered: In the second approach, the satisfaction of hydrogen bonding residues at the dimerization interface, was of major interest. Two pharmacophore models were employed, which retrieved several hundred hit molecules. However, docking of these molecules showed that still many hydrogen bonding groups of the protein remained unaddressed by the ligands. Eventually, after visual inspection, only eight molecules were selected as candidate compounds for further testing (results pending). This small “yield” underlines the difficulties in finding interface binders: The IN dimerization interface is a peculiar target with frequently alternating basic, acidic, and hydrophobic residues. It is not a well-ordered binding site with continuous hydrophobic areas and distinct hydrogen bond donors / acceptors. Other protein-protein interfaces show such well-ordered binding sites. Accordingly, the peculiarity of the IN dimerization interface, in addition to the delicate task of disrupting protein-protein interactions at all, makes the development of IN dimerization inhibitors very challenging. For MIP, the studies revealed two experimentally validated MIP inhibitors, which significantly reduce MIP enzymatic activity. To our knowledge, no small-molecule MIP inhibitor has been reported in the literature so far. A detailed analysis of the available structural data of MIP and a comparison to the human PPIase counterpart, FKBP12, pointed out a conformational diversity among the MIP structures and a crucial difference between the two PPIases, which could be traced to mainly one residue (Tyr109). The detailed comparison of FKBP12 and MIP complex structures made it possible to give an explanation, why a ketoacyl-substituted pipecoline derivative most probably does not bind to MIP, but a sulfone-substituted pipecoline derivative does bind to MIP. Knowledge of Legionella MIP inhibitors could be transferred also to other organisms (e.g. trypanosoms), where homologous MIP proteins are also pathological factors.
Fish of the genus Xiphophorus belong to the oldest animal models in cancer research. The oncogene responsible for the generation of spontaneous aggressive melanoma encodes for a mutated epidermal growth factor receptor (Egfr) and is called xmrk for Xiphophorus melanoma receptor kinase. Xmrk constitutive activation mechanisms and subsequent signaling pathways have already been investigated and charaterized but it is still unknown if Egfr ligands may also play a role in Xmrk-driven melanoma formation. To investigate the potential role of Egfr ligands in Xmrk-driven melanoma, I firstly analyzed the evolution of teleost and tetrapod Egfr/Egfr ligand systems. I especially focused on the analysis on the medaka fish, a closely related species to Xiphophorus, for which the whole genome has been sequenced. I could identify all seven Egfr ligands in medaka and could show that the two teleost-specific Egfr copies of medaka display dissimilar expression patterns in adult tissues together with differential expression of Egfr ligand subsets, arguing for subfunctionalization of receptor functions in this fish. Our phylogenetic and synteny analyses supported the hypothesis that only one gene in the chordate ancestor gave rise to the diversity of Egfr ligands found in vertebrate genomes today. I also could show that the Egfr extracellular subdomains implicated in ligand binding are not evolutionary conserved between tetrapods and teleosts, making the use of heterologous ligands in experiments with fish cells debatable. Despite its well understood and straight-forward process, Xmrk-driven melanomagenesis in Xiphophorus is problematic to further investigate in vivo. Our laboratory recently established a new melanoma animal model by generating transgenic mitf::xmrk medaka fishes, a Xiphophorus closely related species offering many more advantages. These fishes express xmrk under the control of the pigment-cell specific Mitf promoter. During my PhD thesis, I participated in the molecular analysis of the stably transgenic medaka and could show that the Xmrk-induced signaling pathways are similar when comparing Xiphophorus with transgenic mitf::xmrk medaka. These data together with additional RNA expression, protein, and histology analyses showed that Xmrk expression under the control of a pigment cell-specific promoter is sufficient to induce melanoma in the transgenic medaka, which develop very stereotyped tumors, including uveal and extracutaneous melanoma, with early onset during larval stages. To further investigate the potential role of Egfr ligands in Xmrk-driven melanoma, I made use of two model systems. One of them was the above mentioned mitf::xmrk medaka, the other was an in-vitro cell culture system, where the EGF-inducible Xmrk chimera HERmrk is stably expressed in murine melanocytes. Here I could show that HERmrk activation strongly induced expression of amphiregulin (Areg) and heparin-binding EGF-like growth factor (Hbegf) in melanocytes. This regulation was dependent on the MAPK and SRC signaling pathways. Moreover, upregulation of Adam10 and Adam17, the two major sheddases of Egfr ligands, was observed. I also could demonstrate the functionality of the growth factors by invitro analyses. Using the mitf::xmrk medaka model I could also show the upregulation of a subset of ligand genes, namely egf, areg, betacellulin (btc) and epigen (epgn) as well as upregulation of medaka egfrb in tumors from fish with metastatic melanoma. All these results converge to support an Xmrk-induced autocrine Egfr ligand loop. Interestingly, my in-vitro experiments with conditioned supernatant from medaka Egf- and Hbegf-producing cells revealed that not only Xiphophorus Egfrb, but also the pre-activated Xmrk could be further stimulated by the ligands. Altogether, I could show with in-vitro and in-vivo experiments that Xmrk is capable of inducing a functional autocrine Egfr ligand loop. These data confirm the importance of autocrine loops in receptor tyrosine kinase (RTK)-dependent cancer development and show the possibility for a constitutively active RTK to strengthen its oncogenic signaling by ligand binding.
This thesis is divided into three parts with the main goal allocating novel antimicrobial compounds that could be used as future antibiotics. The first part aimed to evaluate the potential of plant suspension cultures for the production of antimicrobial proteins. The extracellular, intracellular and cell wall bound fractions of seven heterotrophic and photomixotrophic plant cell suspension cultures treated with nine different elicitors were tested for the elicitor dependent production of antimicrobial proteins. Bioactivities were tested against a selected panel of human isolates including Gram-positive and Gram-negative bacteria as well as fungi using the disc diffusion assay. The intracellular fractions of elicited cell cultures were more active than extracellular fractions while the cell wall bound fractions showed lowest activities. Among the 21 fractions tested, the intracellular fraction of Lavendula angustifolia elicited with DC3000 was most active against Candida maltosa. The second most active fraction was the intracellular fraction of Arabidopsis thaliana elicited with salicylic acid which was moreover active against all test strains. The antimicrobial activity of elicited Arabidopsis thaliana cell cultures was tested by bioautography to locate the antimicrobial proteins in the crude extract. The intracellular fraction of photomixotrophic Arabidopsis thaliana cells elicited with salicylic acid was selected for further gel filtration chromatography on S-200 column leading to the purification of one 19 kDa antimicrobially active protein, designated, AtAMP. Our findings suggest that elicited plant cell cultures may present a new promising alternative source of antimicrobial proteins. The second part comprises the isolation of actinomycetes associated with marine sponges and testing the bioactivities of new species for further investigations. Actinobacterial communities of eleven taxonomically different sponges that had been collected from offshore Ras Mohamed (Egypt) and from Rovinj (Croatia) were investigated by a culture-based approach using different standard media for isolation of actinomycetes and media enriched with aqueous sponge extract to target rare and new actinomycete species. Phylogenetic characterization of 52 representative isolates out of 90 based on almost complete sequences of genes encoding 16S rRNA supported their assignment to 18 different actinomycete genera. Altogether 14 putatively new species were identified based on sequence similarity values below 98.2% to other strains in the NCBI database. The use of M1 agar amended with aqueous sponge extract yielded a putative new genus related to Rubrobacter which highlighting the need for innovative cultivation protocols. Biological activity testing showed that five isolates were active against Gram-positives only, one isolate was active against Candida albicans only and one isolate showed activity against both groups of pathogens. Moreover, the antiparasistic activity was documented for four isolates. These results showed a high diversity of actinomycetes associated with marine sponges as well as highlighted their potential to produce anti-infective agents. The third part of the thesis focused on the isolation and structure elucidation of new bioactive compounds. Streptomyces strain RV15 recovered from sponge Dysidea tupha, was selected for further chemical analysis by virtue of the fact that it exhibited the greatest antimicrobial potential against Staphylococcus aureus as well as Candida albicans among the all tested strains. Moreover, members of the genus Streptomyces are well known as prolific producers of interesting pharmacologically active metabolites. Chemical analysis of the methanolic crude extract using different chromatographic tools yielded four new compounds. The structures of the new compounds were spectroscopically elucidated to be four new cyclic peptides, namely, cyclodysidins A-D. Their bioactivity was tested against different proteases, bacteria and Candida as well as tumor cell lines. The compounds did not show any significant activities at this point.
In our analysis I was interested in the gene duplications, with focus on in-paralogs. In-paralogs are gene duplicates which arose after species split. Here I analysed the in-paralogs quantitatively, as well as qualitatively. For quantitative analysis genomes of 21 species were taken. Most of them have vastly different lifestyles with maximum evolutionary distance between them 1100 million years. Species included mammals, fish, insects and worm, plus some other chordates. All the species were pairwised analysed by the Inparanoid software, and in-paralogs matrix were built representing number of in-paralogs in all vs. all manner. Based on the in-paralogs matrix I tried to reconstruct the evolutionary tree using in-paralog numbers as evolutionary distance. If all 21 species were used the resulting tree was very far from real one: a lot of species were misplaced. However if the number was reduced to 12, all of the species were placed correctly with only difference being wrong insect and fish clusters switched. Then to in-paralogs matrix the neighbour-net algorithm was applied. The resulting "net" tree showed the species with fast or slow duplications rates compared to the others. We could identify species with very high or very low duplications frequencies and it correlates with known occurrences of the whole genome duplications. As the next step I built the graphs for every single species showing the correlation between their in-paralogs number and evolutionary distance. As we have 21 species, graph for every species is built using 20 points. Coordinates of the points are set using the evolutionary distance to that particular species and in-paralogs number. In mammals with increasing the distance from speciation the in-paralogs number also increased, however not in linear fashion. In fish and insects the graph close to zero is just the same in mammals' case. However, after reaching the evolutionary distances more than 800 million years the number of inparalogs is beginning to decrease. We also made a simulation of gene duplications for all 21 species and all the splits according to the fossil and molecular clock data from literature. In our simulation duplication frequency was minimal closer to the past and maximum in the near-present time. Resulting curves had the same shape the experimental data ones. In case of fish and insect for simulation the duplication rate coefficient even had to be set negative in order to repeat experimental curve shape. To the duplication rate coefficient in our simulation contribute 2 criteria: gene duplications and gene losses. As gene duplication is stochastical process it should always be a constant. So the changing in the coefficient should be solely explained by the increasing gene loss of old genes. The processes are explained by the evolution model with high gene duplication and loss ratio. The drop in number of in-paralogs is probably due to the BLAST algorithm. It is observed in comparing highly divergent species and BLAST cannot find the orthologs so precisely anymore. In the second part of my work I concentrated more on the specific function of inparalogs. Because such analysis is time-consuming it could be done on the limited number species. Here I used three insects: Drosophila melanogaster (fruit y), Anopheles gambiae (mosquito) and Apis mellifera (honeybee). After Inparnoid analyses and I listed the cluster of orthologs. Functional analyses of all listed genes were done using GO annotations and also KEGG PATHWAY database. We found, that the gene duplication pattern is unique for each species and that this uniqueness is rejected through the differences in functional classes of duplicated genes. The preferences for some classes reject the evolutionary trends of the last 350 million years and allow assumptions on the role of those genes duplications in the lifestyle of species. Furthermore, the observed gene duplications allowed me to find connections between genomic changes and their phenotypic manifestations. For example I found duplications within carbohydrate metabolism rejecting feed pattern adaptation, within photo- and olfactory-receptors indicating sensing adaptation and within troponin indicating adaptations in the development. Despite these species specific differences, found high correlations between the independently duplicated genes between the species. This might hint for a "pool" of genes preferentially duplicated. Taken together, the observed duplication patterns reject the adaptational process and provide us another link to the field of genomic zoology.
This work presents a new method to measure model independent viscosities of inhomogeneous materials at high temperatures. Many mechanisms driving volcanic eruptions are strongly influenced by the viscous properties of the participating materials. Since an eruption takes place at temperatures at which these materials (predominantly silicate melts) are not completely molten, typically inhomogeneities, like e.g. equilibrium and non-equilibrium crystals, are present in the system. In order to incorporate such inhomogeneities into objective material parameters the viscosity measurement is based on a rotational viscometer in a wide gap Couette setup. The gap size between the two concentric cylinders was designed as large as possible in order to account for the inhomogeneities. The emerging difficulties concerning the model independent data reduction from measured values to viscosities are solved using an appropriate interpolation scheme. The method was applied to a material representative for the majority of volcanic eruptions on earth: a typical continental basaltic rock (Billstein/Rhön/Germany). The measured viscosities show a strong shear rate dependency, which surprises, because basaltic melt has been, until now, assumed to behave as a Newtonian fluid. Since a non-Newtonian material shows a very different relaxation behavior in the Couette motion compared to a Newtonian one (which, ultimately, does not show any), and a strong relaxation signal was recorded during viscosity measurements, the equations of Couette motion were investigated. The time dependent stress distribution in a material due to a quasi step-like velocity change at the inner Couette radius (i.e. the spindle) was considered. The results show that a material combining a linear shear modulus and a Newtonian viscosity -- a Maxwell material -- cannot quantify the relaxation behavior. This could be considered as a hint, that the widely used Maxwell relaxation times cannot be applied as a 1:1 mapping from microscopic considerations to macroscopic situations.
Starting off with solubility experiments of possible precursors, the present study reveals the whole development of a sol gel processing route for transparent p type semiconductive thin films with delafossite structure right to the fabrication of functional p-n junctions. The versatile sol formulation could successfully be modified for several oxide compositions, enabling the synthesis of CuAlO2, CuCrO2, CuMnO2, CuFeO2 and more. Although several differences in the sintering behaviour of powders and thin films could be observed, the powder experiments significantly contributed to the clearification of the intricate phase development during thermal annealing and also to optimization of the annealing sequence for thin film processing. Two different ternary systems turned out to be the most promising candidates for p-TCO application: Copper aluminum oxide for its high optical transmittance and copper chromium oxide for its low synthesis temperature, which allowed thin film deposition on low-cost borosilicate substrates. In order to combine the advantages of these two systems, the quaternary oxide composition CuAl1-xCrxO2 was investigated. With a higher optical transmittance than CuCrO2, a lower synthesis temperature than CuAlO2 and a lower resistivity than both parent systems, the optimum composition of the quaternary oxide is reached for x = 0.50. Compared to physical vapour deposition techniques, the undoped thin films presented here still need to make up some deficites in their optoelectronic performance. Although the best sol-gel samples are able to compete with RF sputtered samples or sampes deposited by PLD in transmittance, their resistivity is almost two orders of magnitude higher. The most probable reasons for this are the characteristic imperfections of sol-gel thin films like porosity and small crystallite size, which create barriers like grain boundaries and bottlenecks like barely connected particles. By additional effort such shortcomings can be repelled to a certain extend, but nevertheless the density of undoped sol-gel material always stays behind its pendants processed by physical vapour deposition.[246] Furthermore, such additional endeavour is likely to annihilate the advantage of sol-gel technique in processing costs. Extrinsic doping is a common method to decrease the resistivity of delafossite materials. Partially replacing the trivalent cations by divalent ones creates additional holes and thus generates additional charge carriers for p-type semiconductivity. This can improve the conductivity of delafossites by up to three orders of magnitude. Due to the compositorial flexibility of sol-gel processing, dopants could be introduced easily in this study by soluble precursors. However, improving the conductivity of CuAlO2 and CuAl0.5Cr0.5O2 via this method failed. Actually, this seems to be due to the fact that instead of being incorporated into the delafossite phase the dopant ions form intransparent phase impurities like spinels, which interfere with optical transmittance of the thin films. On the contrary, doping had a positive effect on the conductivity and the optical transmittance of copper chromium oxide, with magnesium being the most effective dopant. The resistivity could be decreased by more than three orders of magnitude, but in order to achieve this, much higher Mg concentrations than by other thin film deposition methods were necessary. This indicates a low doping efficiency in sol gel processed thin films, but also the ability of sol gel processing to incorporate more magnesium into the oxide than any other processing method. The extensive substitution of the chromium ions also increases the optical transmittance and allows sol gel processed thin films to draw level with thin films deposited by sputtering methods or PLD. Finally, the applicability of the delafossite thin films was proven by the asymmetric current voltage characteristics of heterojunctions between ITO and the delafossites. Shunting problems of the metallic contacts, on the other hand, reveal structural deficites of the delafossites, which should be the subject of further investigations.
Ruptures of the anterior cruciate ligament (ACL) and defects of the rotator cuff represent the most common ligament and tendon injuries in knee and shoulder. Both injuries represent significant implications for the patients. After an injury, the ACL and the rotator cuff both exhibit poor intrinsic healing capacities. In order to prevent further defects such as arthritis of the knee and fatty infiltration of the rotator cuff, surgical interaction is essential. In both cases, the currently used surgical techniques are far from optimal because even after the therapy many patients report problems ranging from pain and reduced mobility to complete dysfunction of the involved joint and muscles. Tissue engineering may be a possible solution. It is a promising field of regenerative medicine and might be an advantageous alternative for the treatment of musculoskeletal injuries and diseases in the near future. In this thesis, different tissue engineering based approaches were investigated. For the reconstruction of damaged or diseased ligaments and tendons, the use of MSCs and gene therapy with growth factors is especially suitable and possesses a great therapeutic potential. Therefore, the first method studied and tested in this thesis was the development of a biomaterial based construct for the repair of a ruptured ACL. The second approach represents a cell based strategy for the treatment of the fatty infiltration in the rotator cuff. The third approach was a combined cell, biomaterial, and growth factor based strategy for ACL ruptures. Biomaterial based ACL construct The implant is currently tested in a preclinical in vivo study in mini pigs. This proof-of-principle study is performed to validate the functional capability of the collagen fiber based implant under load in vivo and its population with fibroblasts which produce a ligamentogenic matrix. Cell based treatment of the fatty infiltration in the rotator cuff Regarding the treatment of the fatty infiltration of the rotator cuff in a rabbit model, the in vivo results are also promising. The group treated with autologous MSCs (+MSC group) showed a lower fat content than the untreated group (–MSC group) 6 weeks after the treatment. Furthermore, the SSP muscle of the MSC-treated animals revealed macroscopically and microscopically only few differences compared to the healthy control group. The exact underlying mechanisms leading to the positive results of the treatment are not yet fully understood and have therefore to be further investigated in the future. Cell, biomaterial, and growth factor based treatment of ACL ruptures Studies described in current literature show that collagen hydrogel scaffolds are not ideal for a complete ligament or tendon reconstruction, because of their insufficient mechanical stability. Introduced as an alternative and superior therapy, the combined strategy used in this thesis proves that the cultivation of BMP-12, -13, and IGF-1 transduced MSCs and ACL fibroblasts in a collagen hydrogel is successful. The results of the performed in vitro study reveal that the cells exhibit a fibroblastic appearance and produce a ligamentogenic matrix after 3 weeks. Furthermore, the adenoviral transduction of MSCs and ACL fibroblasts showed no negative effects on proliferation or viability of the cells nor was apoptosis caused. Therefore, the application of these cells represents a possible future therapy for a partial ligament and tendon rupture where the mechanical stability of the remaining ligament or tendon is sufficient and the healing can be improved substantially by this therapy. In general, prospective randomized clinical trials still have to prove the postulated positive effect of MSCs for the treatment of various musculoskeletal diseases, but the results obtained here are already very promising. Ideally, the treatment with MSCs is superior compared to the standard surgical procedures. Because of current safety issues the use of genetically modified cells cannot be expected to be applied clinically in the near future. In summary, the different tissue engineering approaches for novel therapies for musculoskeletal injuries and diseases invested in this thesis showed very promising results and will be further developed and tested in preclinical and clinical trials.
In the frame of this thesis vibronic and electronic states of organic molecules have been examined. A central question is the interaction within and between the molecules in thin films and at metal-organic interfaces. The main experimental tools were high resolution electron energy loss spectroscopy (HREELS) and high resolution near edge X-ray absortion fine structure (NEXFAS). The electronic and vibronic structure of thin NTCDA films was examined with low energy electrons as probe, i.e. HREELS. The spectra of the electronic excited molecular orbitals of submonolayer NTCDA on a Ag(111) shows a partially filled orbital. The interaction between this orbital and the total symetric molecular vibrations leads to the typical Fano peak profiles which are seen in the vibrational spectra. The sub-monolayer superstructure can be driven to a phase transition into an disordered phase upon cooling, which is also seen in the electronic and vibronic excitation spectra. Multilayers show flat lying or upright standing molecules as a function of the preparation conditions. The upright standing molecules show an island growth mode, where the islands are well ordered and exhibit a structure in diffraction experiments which can be attributed to the molecular crystal structure. In order to examine the order in more detail various thin films were examined using SPALEED as function of film thickness and preparation parameters. In case of a low temperature substrate no long range order leading to a diffraction pattern was found. In contrast growth on room temperature substrates leads to island growth of films in a structure of the molecular crystal, where two preferred orientations of the islands relative to the substrate were found. In case of thick films the reference to the substrate gets lost and the molecular crystals grow with a defined crystal direction with respect to the surface but with an arbitrary azimuthal orientation leading to circles in the diffraction pattern. NTCDA monolayers on a Ag(111) surface using HREELS as a tool were examined. The electronic excitation spectra reveal a partially filled molecular orbital which is strongly shifted compared to the multilayer. The existence of this state is responsible for the activation of normally forbidden Ag modes in the vibrational spectra. Due to the electron phonon coupling these modes exhibit a Fano like peak shape. Cooling a monolayer leads to a phase transition with strong changes in the spectroscopic features both in electronic and vibronic excitations. In case of the molecule ANQ the intramolecular interaction was examined. In the oxygen NEXAFS spectra a vibronic fine structure is found, which leads to the conclusion that asymmetric potentials are involved. It is an interesting question if the fundamental vibration is has C-H or C=O character. In order to address this question spectra of condensed and gas phase ANQ were compared to an ANQ derivate (ANQ- Br$_2$Cl$_2$), with the conclusion that the coupling is most likely to a C=O mode. High resolution C1s spectra of hydrogenated and fully deuterated naphthalene both in gas and condensed phase have been presented. Depending on the final state orbital distinct differences have been found between gas and condensed phase. A energetic shift of resonances (Res. B, C, D) is interpreted as effect of $\pi$-$\pi$ interaction in the condensed phase. This is especially notable for resonance B which is undoubtly assigned to an excitation into a $\pi^*$ orbital. The results lead to an interpretation, that for organic molecular crystals more than pure van-derWaals interaction has to be taken into account. In summary it is found that the intramolecular interaction in NEXAFS spectra is preferentially coupled to one or a few vibronic progressions. Due to the delocalized electronic system maybe even states which are not spatially near the core excited atom can be involved. It could be shown that a condensation of the molecules in thin films leads to changes within the spectra. The influence the intermolecular interaction can be clearly seen in this finding, where additional hints are found that more than mere van-der-Waals binding has to be taken into account.
Precise control of mitotic progression is vital for the maintenance of genomic integrity. Since the loss of genomic integrity is known to promote tumorigenesis, the identification of knew G2/M regulatory genes attracts great attention. LINC, a human multiprotein complex, is a transcriptional activator of a set of G2/M specific genes. By depleting LIN9 in MEFs, a core subunit of LINC, Gas2l3 was identified as a novel LINC target gene. The so far uncharacterized Gas2l3 gene encodes for a member of the family of growth arrest specific 2 (GAS2) proteins, which share a highly conserved putative actin binding CH and a putative microtubule binding GAS2 domain. In the present study GAS2L3 was identified as a LINC target gene also in human cells. Gene expression analysis revealed that GAS2L3 transcription, in contrast to all other GAS2 family members, is highly regulated during the cell cycle with highest expression in G2/M. The GAS2L3 protein showed a specific localization pattern during the M phase: In metaphase, GAS2L3 localized to the mitotic spindle, relocated to the spindle midzone microtubules in late anaphase and concentrated at the midbody in telophase where it persisted until the end of cytokinesis. Overexpression of a set of different GAS2L3 deletion mutants demonstrated that the localization to the mitotic microtubule network is dependent on the C-terminus, whereas the midbody localization is dependent on full length GAS2L3 protein. Additionally, exclusive overexpression of the CH domain induced the formation of actin stress fibers, suggesting that the CH domain is an actin binding domain. In contrast, the GAS2 domain was neither needed nor sufficient for microtubule binding, indicating that there must be an additional so far unknown microtubule binding domain in the C-terminus. Interestingly, immunoblot analysis also identified the C-terminus as the domain responsible for GAS2L3 protein instability, partially dependent on proteasomal degradation. Consistent with its specific localization pattern, GAS2L3 depletion by RNAi demonstrated its responsibility for proper mitosis and cytokinesis. GAS2L3 depletion in HeLa cells resulted in the accumulation of multinucleated cells, an indicator for chromosome mis-segregation during mitosis. Also the amount of cells in cytokinesis was enriched, indicating failures in completing the last step of cytokinesis, the abscission. Strikingly, treatment with microtubule poisons that lead to the activation of the spindle assembly checkpoint (SAC) indicated that the SAC was weakened in GAS2L3 depleted cells. Although the exact molecular mechanism is still unknown, fist experiments support the hypothesis that GAS2L3 might be a regulator of the SAC master kinase BUBR1. In conclusion, this study provides first evidence for GAS2L3 as a novel regulator of mitosis and cytokinesis and it might therefore be an important guardian against tumorigenesis.
Protein phosphatases can be classified into at least three major families based on amino acid sequences at their active sites. A newly emerging phosphatase family contains the active site sequence DXDX(T/V), and belongs to the haloacid dehalogenase (HAD) superfamily of hydrolases, a ubiquitous and evolutionarily conserved enzyme family. Although the existence of 58 human HAD enzymes has been predicted by database analysis, our understanding of their biological functions remains rudimentary.By database mining amd phylogenetic analysis of human HAD phosphatases, we have found a marked increase in cell area of spreading cells, as well as accelerated cell spreading onfibronectin. Taken together, we have identified and characterized AUM as a novel member of the emerging family of aspartate-dependent protein tyrosine phosphatases. Our findings implicate AUM as an important regulator of Src-dependent cytoskeletal dynamics during cell adhesion and migration. a previously unidentified enzyme with homology to Chronophin, a cytoskeletal regulatory HAD phosphatase. We have cloned and characterized this novel enzyme and named it AUM,for actin remodeling, ubiquitously expressed, magnesium-dependent HAD phosphatase. By Northern blot, real-time PCR and Western blot analysis, we show that AUM is broadly expressed in all major human and mouse tissues with highest levels found in testis. Using immunohistochemistry, we can show that AUM is specifically expressed in maturing germ cells and that its expression peaks during spermiogenesis. To characterize the substrate preference of AUM, we have conducted an in vitro phosphatase substrate screen with 720 phosphopeptides derived from human phosphorylation sites. AUM exclusively dephosphorylates phosphotyrosine (pTyr)-containing peptides. Furthermore, only 17 pTyr peptides (~2% of all pTyr peptides investigated) acted as AUM substrates, indicating a high degree of substrate specificity. Putative AUM substrates include proteins involved in cytoskeletal dynamics and tyrosine kinase signaling.In accordance with the phosphopeptide screen, phosphatase overlay assays employing whole-cell extracts of pervanadate-treated HeLa cells show that AUM dephosphorylates only a limited number of tyrosyl-phosphorylated proteins.The role of AUM for cellular signaling was investigated in response to epidermal growth factor (EGF) stimulation in a spermatogonial cell line (GC-1 spg). The overexpression of AUM reduces, whereas the RNAi-mediated depletion of endogenous AUM increases EGF inducedtyrosine phosphorylation, including changes in the phosphorylation of the EGF receptor itself. Interestingly, in vitro kinase/phosphatase assays with purified Src and AUM indicate that AUM can activate Src, which in turn phosphorylates and inactivates AUM. Although it is at present unclear how Src and AUM regulate each other, our initial findings suggests that AUM enhances Src kinase activity independently of its phosphatase activity, whereas Src diminishes AUM phosphatase activity in a kinase dependent manner. On a cellular level, AUM-depleted cells are characterized by altered actin cytoskeletal dynamics and adhesion, as indicated by stabilized actin filaments, enlarged focal adhesions,a marked increase in cell area of spreading cells, as well as accelerated cell spreading on fibronectin. Taken together, we have identified and characterized AUM as a novel member of the emerging family of aspartate-dependent protein tyrosine phosphatases. Our findings implicate AUM as an important regulator of Src-dependent cytoskeletal dynamics during cell adhesion and migration.
Biodiversity may be investigated and explored by the means of genetic sequence information and molecular phylogenetics. Yet, with ribosomal genes, information for phylogenetic studies may not only be retained from the primary sequence, but also from the secondary structure. Software that is able to cope with two dimensional data and designed to answer taxonomic questions has been recently developed and published as a new scientific pipeline. This thesis is concerned with expanding this pipeline by a tool that facialiates the annotation of a ribosomal region, namely the ITS2. We were also able to show that this states a crucial step for secondary structure phylogenetics and for data allocation of the ITS2-database. This resulting freely available tool determines high quality annotations. In a further study, the complete phylogenetic pipeline has been evaluated on a theoretical basis in a comprehensive simulation study. We were able to show that both, the accuracy and the robustness of phylogenetic trees are largely improved by the approach. The second major part of this thesis concentrates on case studies that applied this pipeline to resolve questions in taxonomy and ecology. We were able to determine several independent phylogenies within the green algae that further corroborate the idea that secondary structures improve the obtainable phylogenetic signal, but now from a biological perspective. This approach was applicable in studies on the species and genus level, but due to the conservation of the secondary structure also for investigations on the deeper level of taxonomy. An additional case study with blue butterflies indicates that this approach is not restricted to plants, but may also be used for metazoan phylogenies. The importance of high quality phylogenetic trees is indicated by two ecological studies that have been conducted. By integrating secondary structure phylogenetics, we were able to answer questions about the evolution of ant-plant interactions and of communities of bacteria residing on different plant tissues. Finally, we speculate how phylogenetic methods with RNA may be further enhanced by integration of the third dimension. This has been a speculative idea that was supplemented with a small phylogenetic example, however it shows that the great potential of structural phylogenetics has not been fully exploited yet. Altogether, this thesis comprises aspects of several different biological disciplines, which are evolutionary biology and biodiversity research, community and invasion ecology as well as molecular and structural biology. Further, it is complemented by statistical approaches and development of informatical software. All these different research areas are combined by the means of bioinformatics as the central connective link into one comprehensive thesis.
Synthesis and Characterization of an Oligo(Phenylene Ethynylene)-Based Perylene Bisimide Foldamer
(2010)
The present work is part of the currently only rudimentary understanding of the structure-property relationships in the self-assembly of pi-conjugated organic molecules. Such structures may reveal favorable photophysical and semiconducting properties due to the weak non-covalent pi-pi interactions between the monomer units. The specific mutual orientation of the dyes is known to evoke individual functional properties for the condensed matter, however, the related electronic processes are still not well-understood and further enhancements of functional properties are seldom triggered by rational design. The pi-pi self-assembly structures of perylene bisimide (PBI) dyes are promising, versatile materials for organic electronic devices and have been elected for this thesis as an archetype aggregate system to investigate the dye-dye interactions in more detail. In cooperation with experts in the field of spectroscopy and theory the development of reliable routines towards a better understanding of the origins of the functional properties may be feasible, and, on a longer time-line, such knowledge may enable optimization of functional organic materials. Having designed such structures entailed the challenge of developing feasible synthesis strategies, and to actually generate the targeted molecules by synthesis. Several synthesis approaches were conducted until finally a perylene bisimide foldamer was obtained based on a Sonogashira co-polymerization reaction. After purification and enrichment of the larger-sized species by means of semi-preparative gel permeation chromatography (GPC) the average size of an octamer (8500 Da) species was determined by analytical GPC. The low polydispersity index (PD) of 1.1 is indicative of a sharp size distribution of the oligomers. This average size was confirmed by performing diffusion ordered NMR spectroscopy (DOSY). Furthermore, MALDI-TOF mass analysis substantiated the structural integrity of the co-polymerization product. Solvent-dependent UV/vis spectroscopic investigations demonstrated that intramolecular PBI aggregates are reversibly formed, indicating that this oligomer is able to fold and unfold in the intended manner upon changing external conditions. In the unfolded states, the PBI moieties are closely arranged due to the short OPE bridges (< 2.4 nm), which is expressed by an exciton coupling interaction of the dyes and therefore the characteristic monomer absorption pattern of the PBI chromophore cannot be obtained in the unfolded states. More interestingly, the folded state revealed a pronounced aggregate spectrum of the PBIs, however, striking differences in the shape of the absorption spectrum compared to our previously investigated PBI self-assembly were obtained.
This thesis included the synthesis of conformationally stable chiral perylene bisimide (PBI) dyes, the study of their optical properties in solution and their chiral self-sorting behaviour in nonpolar solvents in which dimerization via pi-pi-stacking takes place. Furthermore, the influence of PBI core chirality on the properties of these dyes in the condensed state has been also studied. We have demonstrated and quantified the prevalence of chiral self-recognition over self-discrimination in pi-stacking dimerization of PBIs. It has been shown that this self-recognition event is compromised by the increasing flexibility of the structures related to the size of the OEG bridging units. Moreover, the inherent chirality of these PBIs has been proven to strongly influence their condensed state properties, for which large differences between the pure enantiomers and the racemates were revealed, as well as between the different bridged macrocyclic PBIs.
China’s monetary policy aims to reach two final targets: a paramount economical target (i.e. price stability) and a less important political target (i.e. economic growth). The main actor of monetary policy is the central bank, the People’s Bank of China (PBC). But the PBC is a non-independent central bank. The State Council approves the goals of monetary policy. Very limited instrument independence means that interest rates cannot be set at the PBC’s discretion, and in-sufficient personal independence fails to insulate central bank officials from political influence. Monetary policy in China applies to two sets of monetary policy instruments: (i) instruments of the PBC; and (ii) non-central bank policy instruments. The instruments of the PBC include price-based indirect and quantity-based direct instruments. Non-central bank policy instruments include price and wage controls. The simultaneous usage of all these instruments leads to various distortions that ultimately prevent the interest rate channel of monetary transmission from functioning. Moreover, the strong influences of quantity-based direct instruments and non-central bank policy instruments bring into question the approach of indirect monetary policy in general. The PBC officially follows the monetary targeting approach with monetary aggregates as intermediate targets. Domestic loan growth and the exchange rate are defined as additional intermediate targets. In an in-depth analysis of the intermediate targets two main issues are primarily explored: (i) Are the intermediate targets of the Chinese monetary policy controllable? (ii) Is a sufficient relationship between these targets and the inflation rate observable? It is then shown that monetary aggregates are very difficult to control, but they have a satisfactory relationship with the inflation rate. Similarly, domestic loan growth is difficult to control – a fact largely attributed to the interest rate elasticity of loans – while there is a particularly close relationship between credit growth and the inflation rate. The exchange rate as an intermediate target can be controlled through foreign exchange market interventions; at the same time the exchange rate appears to have a significant relationship to the domestic inflation rate. Discussing the special issue of sterilizing foreign exchange inflows, the study concludes that between 2002 and 2008 not only no costs were incurred by sterilization operations, but that the central bank was actually able to realize a profit through foreign exchange market interventions. Based on this, it is concluded that the exchange rate target has not adversely affected the domestic orientation of monetary policy on the whole. The final part of the study examines whether there are any alternative monetary policy approaches that may be able to describe the policy approach in China; special focus is placed on nominal GDP targeting, the Taylor rule, and inflation targeting. A literature review reveals that the concept of nominal GDP targeting may be able to detect inflationary tendencies in the economy and, in combination with other indicators, it could be a suitable concept to assess the overall economic situation. The author calculates a Taylor rule for China from 1994 to 2008 and concludes that there is no close relationship between the PBC lending and the Taylor rate. The author then designs an augmented Taylor rule expanded to include a credit component (credit-augmented Taylor rule). The study shows that the augmented Taylor rule does not perform much better than the original one, but that it maps high inflationary periods relatively well. This is attributed to direct interventions into the credit markets, which have played a major role in combating inflationary cycles over the past decades. The analysis ends with an introduction of the concept of inflation targeting and an examination of whether this could describe monetary policy in China. It is clear that the PBC does not currently follow the inflation targeting approach, although the Chinese authorities could actually be able to influence inflation expectations effectively, not least through direct instruments such as price controls. The author notes that the PBC indeed had a good track record of fighting inflation between 1994 and 2008, and that this may now indicate a good time to think about introducing inflation targeting in China. The central conclusion of the study is that the proven gradual approach to economic and monetary reforms in China is reaching its limit. To break the vicious cycle that relies on the continuous use of quantity-based instruments to compensate for the ineffective price-based instruments – which in turn arises from the simultaneous use of both types of instruments – a complete shift away from quantity-based instruments is needed. Only then the approach of indirect monetary policy, which was officially introduced in 1998, could come into full play.
All animals learn in order to cope with challenges imposed on them by their environment. This is true also for both larval and adult fruit flies as exemplified in pavlovian conditioning. The focus of this Thesis is on various aspects of the fruit flies learning ability. My main project deals with two types of learning which we call punishment-learning and pain-relief learning. Punishment learning happens when fruit flies are exposed to an odour which is followed by electric shock. After such training, flies have learned that that odour signals pain and consequently will avoid it in the future. If the sequence of the two stimuli is reversed such that odour follows shock, flies learn the odour as a signal for relief and will later on approach it. I first report a series of experiments investigating qualitative and parametric features of relief-learning; I find that (i) relief learning does result from true associative conditioning, (ii) it requires a relatively high number of training trials, (iii) context-shock training is ineffective for subsequent shock-odour learning. A further question is whether punishment-learning and pain-relief learning share genetic determinants. In terms of genetics, I test a synapsin mutant strain, which lacks all Synapsin protein, in punishment and relief-learning. Punishment learning is significantly reduced, and relief-learning is abolished. Pan-neuronal RNAi-mediated knock-down of Synapsin results in mutant-like phenotypes, confirming the attribution of the phenotype to lack of Synapsin. Also, a rescue of Synapsin in the mushroom body of syn97 mutants restores both punishment- and relief-learning fully, suggesting the sufficiency of Synapsin in the mushroom body for both these kinds of learning. I also elucidate the relationship between perception and physiology in adult fruit flies. I use odour-shock conditioning experiments to identify degrees of similarity between odours; I find that those similarity measures are consistent across generalization and discrimination tasks of diverse difficulty. Then, as collaborator of T. Völler and A. Fiala, I investigate how such behavioural similarity/dissimilarity is reflected at the physiological level. I combine the behaviour data with calcium imaging data obtained by measuring the activity patterns of those odours in either the sensory neurons or the projection neurons at the antennal lobe. Our interpretation of the results is that the odours perceptual similarity is organized by antennal lobe interneurons. In another project I investigate the effect of gustatory stimuli on reflexive behaviour as well as their role as reinforcer in larval learning. Drosophila larvae greatly alter their behaviour in presence of sodium chloride. Increasing salt concentration modulates choice behaviour from weakly appetitive to strongly aversive. A similar concentration-behaviour function is also found for feeding: larval feeding is slightly enhanced in presence of low salt concentrations, and strongly decreased in the presence of high salt concentrations. Regarding learning, relatively weak salt concentrations function as appetitive reinforcer, whereas high salt concentrations function as aversive reinforcer. Interestingly, the behaviour-concentration curves are shifted towards higher concentrations from reflexive behaviour (choice behaviour, feeding) as compared to associative learning. This dissociation may reflect a different sensitivity in the respective sensory-motor circuitry.
Within the framework of this thesis the mechanisms of growth and reorganisation of surfaces within the first few layers were investigated that are the basis for the fabrication of high quality thin films and interfaces. Two model systems, PTCDA/Ag(111) and CdSe/ZnSe quantum dots (QD), were chosen to study such processes in detail and to demonstrate the power and improvements of the aberration corrected spectromicroscope SMART [1] simultaneously. The measurements benefit especially from the enhanced transmission of the microscope and also from its improved resolution. SMART, the first double–aberration corrected instrument of its kind [2], provided comprehensive methods (LEEM/PEEM, μ–LEED, μ–XPS) to study in–situ and in real time the surface reorganisation and to determine morphology, local structure and local chemical composition of the resulting thin film. Complementarily, a commercial AFM [3] was used ex–situ. XPEEM and μ–XPS measurements were made possible by attaching SMART to the high flux density beamline of the soft–X–ray source BESSY–II [4]. PTCDA/Ag(111) – Growth and structure of the first two layers Although PTCDA/Ag(111) is one of the most intensely studied model systems for the growth of organic semiconductor thin films, it still offers new insights into a complex growth behaviour. This study enlightens the temperature dependant influence of morphological features as small as monatomic Ag steps on the growth process of the first two layers. At low temperatures, single Ag steps act as diffusion barriers. But interdiffusion was observed already for the 2nd layer whereas domain boundaries in the 1st PTCDA–layer persist for crystallite growth in the 2nd layer. 1st layer islands are more compact and the more dendritic development of the 2nd layer indicates reduced interaction strength between 2nd and 1st layer. These findings were explained by a model consisting of structural and potential barriers. The second part of the PTCDA study reveals a variety of phases that appears only if at least two layers are deposited. Besides the six known rotational domains of the interface system PTCDA/Ag(111) [5], a further manifold of structures was discovered. It does not only show a surprising striped image contrast, but the 2nd layer also grows in an elongated way along these so–called ’ripples’. The latter show a rather large period and were found in a wide temperature range. Additionally the μ-LEED pattern of such a domain shows a new super–superstructure as well. This phase is explained by a structural model that introduces a rotated, more relaxed domain in the 2nd layer that does not exist in the first layer. Its structural parameters are similar to those of the bulk unitcells of PTCDA. The model is confirmed by the observation of two different rotational domains that grow on top of one single ’substrate’ domain in the 1st layer. The orientations of the ripple phases fit as well to the predictions of the model. The growth direction along the ripples corresponds to the short diagonal of the super–superstructure unitcell with diamond–like shape. CdSe/ZnSe – Inverse structuring by sublimation of an α-Te cap With the second model system the formation of CdSe quantum dots (QD) from strained epi-layers was investigated. In this case the structures do not form during deposition, but rather during sublimation of the so–called ‘ignition cap’. For these pilot experiments not only the process of QD formation itself was of interest, but also the portability of the preparation and the prevention of contaminations. It was found that the α-Se is well suited for capping and the last step of the QD preparation, the sublimation of the α-Te cap, needs a sufficiently high rate in rise of temperature. Subsequently the cap, the process of desorption and the final surface with the quantum structures were investigated in detail. The cap was deposited by the MBE-group in Würzburg as an amorphous Te layer but was found to contain a variety of structures. Holes, cracks, and micro–crystallites within an α-Te matrix were identified. Sublimation of the “ignition cap” was observed in real–time. Thus the discovered cap-structures could be correlated with the newly formed features as, e.g., QDs on the bare CdSe surface. Since CdSe/ZnSe QDs prefer to form in the neighbourhood of the Te μ–crystallites, Te was found to play a major role in their formation process. Different explanations as the impact of Te as a surfactant, an enhanced mobility of adatoms or as stressor nuclei are discussed. The spectromicroscopic characterisation of the CdSe surface with QDs revealed the crystallographic directions. An increased Cd signal of the film was found at positions of former holes. Several possibilities as segregation or surface termination are reviewed, that might explain this slight Cd variation. Therewith, an important step to a detailed understanding of the complex reorganisation process in coating systems could be achieved.
Termites are the most important soil ecosystem engineers of semi‐arid and arid habitats. They enhance decomposition processes as well as the subsequent mineralisation of nutrients by bacteria and fungi. Through their construction of galleries, nests and mounds, they promote soil turnover and influence the distribution of nutrients and also alter texture and hydrological properties of soils, thereby affecting the heterogeneity of their ecosystem. The main aim of the present thesis was to define the impact of termites on ecosys‐tem functioning in a semi‐arid ecosystem. In a baseline study, I assessed the diversity of termite taxa in relation to the amount of precipitation, the vegetation patterns and the land use systems at several sites in Namibia. Subsequently, I focussed on a species that is highly abundant in many African savannas, the fungus growing and mound building species Macro‐termes michaelseni (Sjöstedt, 1914). I asked how this species influences the spatial hetero‐geneity of soil and vegetation patterns. From repeated samplings at 13 sites in Namibia, I obtained 17 termite taxa of 15 genera. While the type of land use seems to have a minor effect on the termite fauna, the mean annual precipitation explained 96% and the Simpson index of vascular plant diversity 81% of the variation in taxa diversity. The number of termite taxa increased with both of these explanation variables. In contrast to former studies on Macrotermes mounds in several regions of Africa that I reviewed, soil analyses from M. michaelseni mounds in the central Namibian savanna revealed that they contain much higher nitrogen contents when compared to their parent material. Further analyses revealed that nitrate forms a major component of the nitrogen content in termite mounds. As nitrate solves easily in water, evaporation processes are most probably responsible for the transport of solved nitrates to the mound surface and their accumulation there. The analysed mounds in central Namibia contained higher sand propor‐tions compared to the mounds of the former studies. Through the higher percentage of coarse and middle sized pores, water moves more easily in sandy soils compared to more clayey soils. In consequence, evaporation‐driven nitrate accumulation can occur in the studied mounds at high rates. Hochgerechnet auf den Gesamtumfang der Hügel bedeckte das pro Jahr von einem bewohnten Hügel erodierte Material theoretisch einen 1 m breiten Kreisring um den Schwemmkegel des Hügels 2,4 mm hoch. Der entsprechende Wert für unbewohnte Hügel betrug 1,0 mm. To assess the amount of soil that erodes from termite mounds, I fastened four strong, 65 cm wide plastic bags at 14 mounds each and collected the soil that eroded during five rainfall events. Projected to the total mound circumference, the amount of soil eroded covers theoretically a 1 m wide circular ring around the pediment of an inhabited mound up to a height of 2.4 mm per year. For uninhabited mounds, the height of this soil layer would be 1.0 mm. Per hectare, roughly 245 kg eroded per year from the mounds. However, as the erosion rate depends on several factors such as rainfall intensity, soil texture and point of time within the rainy season, this is only a vague estimate. In order to determine up to which distance the soil erosion from the mounds still influences the chemical characteristics of the adjacent topsoil, I took samples from depth of 0–10 cm at 1, 5 and 25 m distances, respectively, from four different mounds and from the mounds themselves. The non‐metric multidimensional scaling of the soil properties showed strong differences between mound and off‐mound samples. Soil characteristics within the samples from the mounds did not differ largely. Similarly, I found no strong differences between the samples taken from the different distances from the mound. From these results I conclude that through the construction of foraging galleries and sheetings (soil constructions with which some termite species cover their food items), the soil eroding from termite mounds is quickly mixed with deeper soil layers. In consequence, mound material does not accumulate in the mound’s vicinity. In order to reveal how plant growth is influenced by termite mound material, we assessed the number of grass and herb individuals as well as the biomass of plants growing in situ on the base of mounds compared to adjacent sites. While the numbers of both grass and herb individuals were significantly lower compared to adjacent sites, the total biomass of plants growing on the base of mounds was significantly higher. Reverse results were obtained by pot experiments with radish (Raphanus sativus subsp. sativus) and sorghum (Sorghum sp.) growth. Both species grew significantly weaker on mound soil compared to adjacent soil. The contradictory results concerning the biomass of in situ and pot experi‐ments are most probably caused by the disturbance of the original soil structure during the potting process. The material was subsequently compacted through watering the plants. In contrast, Macrotermes mounds are pervaded by many macropores which seem to be essential for the plant roots to penetrate the soil. In the last part of this thesis, I posed the question how mounds of M. michaelseni are distributed and what factors might be responsible for this pattern. Former studies showed that mound size is correlated with the size of its inhabiting colony. With several multi‐scale analyses, I revealed that larger inhabited mounds were regularly distributed. Additionally, mounds which were closer together tended to be smaller than on average. This indicates that intraspecific competition controls the distribution and size of colonies and their mounds. Former studies concerning Odontotermes mounds substantiated that they are local hotspots of primary productivity and animal abundance. Based on these findings, simulations revealed that a regular distribution of these mounds leads to a greater ecosystem‐wide productivity compared to a random arrangement. As in the present study, plant biomass was higher at the mounds compared to off‐mound sites, this might hold true for M. michaelseni mounds. From the results of this thesis, I draw the conclusion that through their mound building activities, M. michaelseni strongly influences the distribution patterns of soil nutrients within the central Namibian savanna. These termites create sharp contrasts in nutrient levels and vegetation patterns between mound soils and off‐mound soils and enhance the heterogeneity of their habitats. Former studies revealed that habitat hetero‐geneity is important in generating species diversity and species richness in turn is correlated positively with biomass production and positively affects ecosystem services. In conclusion, the present thesis underlines the importance of M. michaelseni for ecosystem functioning of the central Namibian savanna.
Taxonomy and palaeoecology of the Cenomanian-Turonian macro-invertebrate from eastern Sinai, Egypt
(2010)
The present study concerened with taxonomy and palaeoecology of the Cenomanian-Turonian macrobenthic fauna which includes bivalves, gastropods, echinoids, and coral. In addtion, cephalopods are also taken in consideration. 144 taxa are identified and systematically described. Palaeoecological and taphonomic anylsis of the statistically sampled macrobenthos are also discussed. The biostratigraphic sequences along the Cenomanian-Turonian rocks were carried out on the basis of ammonites and other macrobenthic fauna such as corals and bivalves. In order to reconstruct benthic association, 41 statistically sampled were subjected to cluster ananlysis by using Past Programm (Hammer et al., 2001). 10 association and three assemblages were described in order to reconstruct the different depositional enviroments.
Mergers between rich clusters of galaxies represent the most violent events in the Universe. The merger events initiate a complex chain of processes that leads to the dissipation of the collisional energy. This phase of violent relaxation is accompanied by turbulence and shock waves as well as non-thermal particle acceleration. This thesis aims at the interpretation of multi-wavelength observations of the merging cluster of galaxies Abell 3376 in the framework of a theoretical model of the involved effects. Observations with the Very Large Array radio interferometer were carried out and analyzed to clarify the morphology of the non-thermal particle distribution in Abell 3376, in particular about the shocked regions. The dissipation in the hot intra-cluster gas was studied using archival X-ray observations with ROSAT and XMM. Results were compared with constrained numerical simulations of the evolution of the merger process in the framework of cosmological structure formation. For this purpose, the ENZO-Code was employed for the computation of the gas dynamics and self-gravity of the colliding mass distribution. The non-thermal properties of the intra-cluster gas could be indirectly inferred from the local Mach number and the strength of the turbulence.
Aim of this thesis was to study the contribution of the hosts immune system during tumor regression. A wild-type rejection model was studied in which tumor regression is mediated through an adaptive, T cell host response (Research article 1). Additionally, the relationship between VACV infection and cancer rejection was assessed by applying organism-specific microarray platforms to infected and non-infected xenografts. It could be shown that tumor rejection in this nude mouse model was orchestrated solely by the hosts innate immune system without help of the adaptive immunity. In a third study the inflammatory baseline status of 75 human cancer cell lines was tested in vitro which was correlated with the susceptibility to VACV and Adenovirus 5 (Ad5) replication of the respective cell line (Manuscript for Research article 3). Although xenografts by themselves lack the ability to signal danger and do not provide sufficient proinflammatory signals to induce acute inflammation, the presence of viral replication in the oncolytic xenograft model provides the "tissue-specific trigger" that activates the immune response and in concordance with the hypothesis, the ICR is activated when chronic inflammation is switched into an acute one. Thus, in conditions in which a switch from a chronic to an acute inflammatory process can be induced by other factors like the immune-stimulation induced by the presence of a virus in the target tissue, adaptive immune responses may not be necessary and immune-mediated rejection can occur without the assistance of T or B cells. However, in the regression study using neu expressing MMC in absence of a stimulus such as a virus and infected cancer cells thereafter, adaptive immunity is needed to provoke the switch into an acute inflammation and initiate tissue rejection. Taken together, this work is supportive of the hypothesis that the mechanisms prompting TSD differ among immune pathologies but the effect phase converges and central molecules can be detected over and over every time TSD occurs. It could be shown that in presence of a trigger such as infection with VACV and functional danger signaling pathways of the infected tumor cells, innate immunity is sufficient to orchestrate rejection of manifested tumors.
Future broadband wireless networks should be able to support not only best effort traffic but also real-time traffic with strict Quality of Service (QoS) constraints. In addition, their available resources are scare and limit the number of users. To facilitate QoS guarantees and increase the maximum number of concurrent users, wireless networks require careful planning and optimization. In this monograph, we studied three aspects of performance optimization in wireless networks: resource optimization in WLAN infrastructure networks, quality of experience control in wireless mesh networks, and planning and optimization of wireless mesh networks. An adaptive resource management system is required to effectively utilize the limited resources on the air interface and to guarantee QoS for real-time applications. Thereby, both WLAN infrastructure and WLAN mesh networks have to be considered. An a-priori setting of the access parameters is not meaningful due to the contention-based medium access and the high dynamics of the system. Thus, a management system is required which dynamically adjusts the channel access parameters based on the network load. While this is sufficient for wireless infrastructure networks, interferences on neighboring paths and self-interferences have to be considered for wireless mesh networks. In addition, a careful channel allocation and route assignment is needed. Due to the large parameter space, standard optimization techniques fail for optimizing large wireless mesh networks. In this monograph, we reveal that biology-inspired optimization techniques, namely genetic algorithms, are well-suitable for the planning and optimization of wireless mesh networks. Although genetic algorithms generally do not always find the optimal solution, we show that with a good parameter set for the genetic algorithm, the overall throughput of the wireless mesh network can be significantly improved while still sharing the resources fairly among the users.
Platelets play a central role in thrombosis, hemostasis, and inflammation. Here, we show that activated platelets release inorganic polyphosphate (polyP), a polymer of 60- 100 phosphate residues that directly bound to and activated the plasma protease factor XII. PolyP-driven factor XII-activation triggered release of the inflammatory mediator bradykinin by plasma kallikrein-mediated kininogen processing. PolyP increased vascular permeability and induced fluid extravasation in skin microvessels of mice. Mice deficient in factor XII or bradykinin receptors were resistant to polyP-induced leakage. PolyP initiated clotting of plasma via the contact pathway. Ablation of intrinsic coagulation pathway proteases factor XII and factor XI protected mice from polyPtriggered lethal pulmonary embolism. Targeting polyP with phosphatases interfered with procoagulant activity of activated platelets and blocked platelet-induced thrombosis in mice. Infusion of polyP restored defective plasma clotting of Hermansky- Pudlak Syndrome patients, which lack platelet polyP. The data identify polyP as a new class of mediator having fundamental roles in platelet-driven proinflammatory and procoagulant disorders.
Members of the RAF protein kinase family are key regulators of diverse cellular processes. The need for isoform-specific regulation is reflected by the fact that all RAFs not only display a different degree of activity but also perform isoform-specific functions at diverse cellular compartments. Protein-protein-interactions and phosphorylation events are essential for the signal propagation along the Ras-RAF-MEK-ERK cascade. More than 40 interaction partners of RAF kinases have been described so far. Two of the most important regulators of RAF activity, namely Ras and 14-3-3 proteins, are subject of this work. So far, coupling of RAF with its upstream modulator protein Ras has only been investigated using truncated versions of RAF and regardless of the lipidation status of Ras. We quantitatively analyzed the binding properties of full-length B- and C-RAF to farnesylated H-Ras in presence and absence of membrane lipids. While the isolated Ras-binding domain of RAF exhibit a high binding affinity to both, farnesylated and nonfarnesylated H-Ras, the full-length RAF kinases demonstrate crucial differences in their affinity to Ras. In contrast to C-RAF that requires carboxyterminal farnesylated H-Ras for interaction at the plasma membrane, B-RAF also binds to nonfarnesylated H-Ras in the cytosol. For identification of the potential farnesyl binding site we used several fragments of the regulatory domain of C-RAF and found that the binding of farnesylated H-Ras is considerably increased in the presence of the cysteine-rich domain of RAF. In B-RAF a sequence of 98 amino acids at the extreme N terminus enables binding of Ras independent of its farnesylation status. The deletion of this region altered Ras binding as well as kinase properties of B-RAF to resemble C-RAF. Immunofluorescence studies in mammalian cells revealed essential differences between B- and C-RAF regarding the colocalization with Ras. In conclusion, our data suggest that that B-RAF, in contrast to C-RAF, is also accessible for nonfarnesylated Ras in the cytosolic environment due to its prolonged N terminus. Therefore, the activation of B-RAF may take place both at the plasma membrane and in the cytosolic environment. Furthermore, the interaction of RAF isoforms with Ras at different subcellular sites may also be governed by the complex formation with 14-3-3 proteins. 14-3-3 adapter proteins play a crucial role in the activation of RAF kinases, but so far no information about the selectivity of the seven mammalian isoforms concerning RAF association and activation is available. We analyzed the composition of in vivo RAF/14-3-3 complexes isolated from mammalian cells with mass spectrometry and found that B-RAF associates with a greater variety of 14-3-3 proteins than C- and A-RAF. In vitro binding assays with purified proteins supported this observation since B-RAF showed highest affinity to all seven 14-3-3 isoforms, whereas C-RAF exhibited reduced affinity to some and A-RAF did not bind to the 14-3-3 isoforms epsilon, sigma, and tau. To further examine this isoform specificity we addressed the question of whether both homo- and heterodimeric forms of 14-3-3 proteins participate in RAF signaling. By deleting one of the two 14-3-3 isoforms in Saccharomyces cerevisiae we were able to show that homodimeric 14-3-3 proteins are sufficient for functional activation of B- and C-RAF. In this context, the diverging effect of the internal, inhibiting and the activating C-terminal 14-3-3 binding domain in RAF could be demonstrated. Furthermore, we unveil that prohibitin stimulates C-RAF activity by interfering with 14-3-3 at the internal binding site. This region of C-RAF is also target of phosphorylation as part of a negative feedback loop. Using tandem MS we were able to identify so far unknown phosphorylation sites at serines 296 and 301. Phosphorylation of these sites in vivo, mediated by activated ERK, leads to inhibition of C-RAF kinase activity. The relationship of prohibitin interference with 14-3-3 binding and phosphorylation of adjacent sites has to be further elucidated. Taken together, our results provide important new information on the isoform-specific regulation of RAF kinases by differential interaction with Ras and 14-3-3 proteins and shed more light on the complex mechanism of RAF kinase activation.
Inoculation with plant pathogens induces a diverse range of plant responses which potentially contribute to disease resistance or susceptibility. Plant responses occuring in consequence of pathogen infection include activation of classical defence pathways and changes in metabolic activity. The main defence route against hemibiotrophic bacterial pathogens such as Pseudomonas syringae is based on the phytohormone salicylic acid (SA). SA-mediated responses are strictly regulated and have also been shown to depend on external factors, e.g. the presence of light. A major goal of this work was to provide a better understanding of the light dependency of plant defence responses mediated through SA. The second part of the project focussed on the influence of plant sterols on plant resistance. I analyzed leaf lipid composition and found that accumulation of the phytosterol stigmasterol in leaves and in isolated (plasma) membranes is a significant plant metabolic process occurring upon pathogen infection.
Avian pathogenic Escherichia coli (APEC) represent a subset of the so-called extraintestinal pathogenic Escherichia coli (ExPEC) pathotype that can cause various extraintestinal infections in humans and animals. APEC are the causative agent of localized colibacillosis or systemic infection in poultry. In this latter case, the syndrome starts as an infection of the upper respiratory tract and develops into a systemic infection. Generally, ExPEC are characterized by a broad variety of virulence-associated factors that may contribute to pathogenesis. Major virulence factors, however, that clearly define this pathotype, have not been identified. Instead, virulence-associated genes of ExPEC and thus also of APEC could be used in a mix-and-match-fashion. Both pathotypes could not be clearly distinguished by molecular epidemiology, and this suggested a hypothetical zoonotic risk caused by APEC. Accordingly, the main scientific question of this study was to characterize common traits as well as differences of APEC and human ExPEC variants that could either support the possible zoonotic risk posed by these pathogenic E. coli strains or indicate factors involved in host specificity. Comparative genomic analysis of selected APEC and human ExPEC isolates of the same serotype indicated that these variants could not be clearly distinguished on the basis of (i) general phenotypes, (ii) phylogeny, (iii) the presence of typical ExPEC virulence genes, and (iv) the presence of pathoadaptive mutations. Allelic variations in genes coding for adhesins such as MatB and CsgA or their regulators MatA and CsgD have been observed, but further studies are required to analyze their impact on pathogenicity. On this background, the second part of this thesis focused on the analysis of differences between human ExPEC and APEC isolates at the gene expression level. The analysis of gene expression of APEC and human ExPEC under growth conditions that mimick their hosts should answer the question whether these bacterial variants may express factors required for their host-specificity. The transcriptomes of APEC strain BEN374 and human ExPEC isolate IHE3034 were compared to decipher whether there was a specific or common behavior of APEC and human ExPEC, in response to the different body temperatures of man (37°C) or poultry (41°C). Only a few genes were induced at 41 °C in each strain relative to growth at 37 °C. The group of down-regulated genes in both strains was markedly bigger and mainly included motility and chemotaxis genes. The results obtained from the transcriptome, genomic as well as phenotypic comparison of human ExPEC and APEC, supports the idea of a potential zoonotic risk of APEC and certain human ExPEC variants. In the third part of the thesis, the focus was set on the characterization of Mat fimbriae, and their potential role during ExPEC infection. Comparison of the mat gene cluster in K-12 strain MG1655 and O18:K1 isolate IHE3034 led to the discovery of differences in (i) DNA sequence, (ii) the presence of transcriptional start and transcription factor binding sites as well as (iii) the structure of the matA upstream region that account for the different regulation of Mat fimbriae expression in these strains. A negative role of the H-NS protein on Mat fimbriae expression was also proven at 20 °C and 37 °C by real-time PCR. A major role of this fimbrial adhesin was demonstrated for biofilm formation, but a significant role of Mat fimbriae for APEC in vivo virulence could not yet be determined. Interestingly, the absence of either a functional matA gene or that of the structural genes matBCDEF independently resulted in upregulation of motility in E. coli strains MG1655 and IHE3034 by a so far unknown mechanism. In conclusion, the results of this thesis indicate a considerable overlap between human and animal ExPEC strains in terms of genome content and phenotypes. It becomes more and more apparent that the presence of a common set of virulence-associated genes among ExPEC strains as well as similar virulence gene expression patterns and phylogenetic backgrounds indicate a significant zoonotic risk of avian-derived E. coli isolates. In addition, new virulence factors identified in human ExPEC may also play a role in the pathogenesis of avian ExPEC.
The aim of this project was to investigate whether reflex-like innate facial reactions to tastes and odors are altered in patients with eating disorders. Qualitatively different tastes and odors have been found to elicit specific facial expressions in newborns. This specificity in newborns is characterized by positive facial reactions in response to pleasant stimuli and by negative facial reactions in response to unpleasant stimuli. It is, however, unclear, whether these specific facial displays remain stable during ontogeny (1). Despite the fact that several studies had shown that taste-and odor-elicited facial reactions remain quite stable across a human’s life-span, the specificity of research questions, as well as different research methods, allow only limited comparisons between studies. Moreover, the gustofacial response patterns might be altered in pathological eating behavior (2). To date, however, the question of whether dysfunctional eating behavior might alter facial activity in response to tastes and odors has not been addressed. Furthermore, changes in facial activity might be linked to deficient inhibitory facial control (3). To investigate these three research questions, facial reactions in response to tastes and odors were assessed. Facial reactions were analyzed using the Facial Action Coding System (FACS, Ekman & Friesen, 1978; Ekman, Friesen, & Hager, 2002) and electromyography.
Neuroanatomical data in fly brain research are mostly available as spatial gene expression patterns of genetically distinct fly strains. The Drosophila standard brain, which was developed in the past to provide a reference coordinate system, can be used to integrate these data. Working with the standard brain requires advanced image processing methods, including visualisation, segmentation and registration. The previously published VIB Protocol addressed the problem of image registration. Unfortunately, its usage was severely limited by the necessity of manually labelling a predefined set of neuropils in the brain images at hand. In this work I present novel tools to facilitate the work with the Drosophila standard brain. These tools are integrated in a well-known open-source image processing framework which can potentially serve as a common platform for image analysis in the neuroanatomical research community: ImageJ. In particular, a hardware-accelerated 3D visualisation framework was developed for ImageJ which extends its limited 3D visualisation capabilities. It is used for the development of a novel semi-automatic segmentation method, which implements automatic surface growing based on user-provided seed points. Template surfaces, incorporated with a modified variant of an active surface model, complement the segmentation. An automatic nonrigid warping algorithm is applied, based on point correspondences established through the extracted surfaces. Finally, I show how the individual steps can be fully automated, and demonstrate its application for the successful registration of fly brain images. The new tools are freely available as ImageJ plugins. I compare the results obtained by the introduced methods with the output of the VIB Protocol and conclude that our methods reduce the required effort five to ten fold. Furthermore, reproducibility and accuracy are enhanced using the proposed tools.
Resin, a sticky sap emitting terpenoids and other volatiles, is produced by various plant species to seal wounds and protect themselves against herbivores and microbes. Among several other insects, bees have evolved the surprising ability to handle the repellent plant sap and use it to construct and defend their nests. Whereas the collection of pollen and nectar has been intensively studied in bees, resin collection has received only little attention. The aim of this dissertation was to better understand how the physiological and chemical properties of resin and resin-derived compounds (terpenes) affect the ecology of stingless bees. I therefore asked why, where and how stingless bees of Borneo (seven study-species), Australia (eight) and Costa Rica (27) collect and process plant resins, addressing the importance of a largely neglected resource not only for building and defensive properties, but also for the bees’ chemical diversity. Stingless bees are highly opportunistic resin foragers with all species collecting resin from a similar set of tree species. They locate and/or recognize resin sources on the basis of several volatile mono- and sesquiterpenes. I found that different bee species and even colonies significantly varied in the amount of resin collected. Predator attack (e.g., by ants) had the strongest affect on resin intake, whereas manual nest destruction only slightly increased the number of resin foragers. Resin is used to build, maintain and defend nests, but also as source for chemical compounds (terpenes) which stingless bees include in their surface profiles (chemical profiles). They directly transfer resin-derived compounds to their body surfaces (cuticular terpenes), but only include a subset (8 %) of the large number (>> 1000) of terpenes found in tree resins. This phenomenon can only be explained by a hitherto unknown ability to filter environmentally derived compounds which results in species-specific terpene profiles and thus in an increased chemical heterogeneity among species. Moreover, due to the addition of resin-derived substances the diversity of compounds on the bees’ body surfaces by far exceeds the chemical diversity of profiles in other hymenopterans. Because stingless bees filter but do not modify resin-derived compounds, species from Borneo, Australia and Costa Rica all resemble the characteristic resin of typical trees in their regions of origin. This chemical similarity reveals a strong correlation between the diversity of tree resins and the diversity of cuticular terpenes among stingless bees in a given habitat. Because different tree species are found in different tropical regions, the chemical composition of tree resins varies between tropical regions as does the composition of cuticular terpenes in bee species from these regions. Cuticular terpenes are however most common among stingless from Borneo, with 100 % of species studied having resin-derived terpenes in their chemical profiles. They are least common in Costa Rica, with only 40 % of species having terpenes. Likewise, resin collection was found to be highest in Tetragonilla collina colonies of Borneo where occasionally up to 90 % of foragers collected resin. By contrast, resin collection was only performed by 10 % of foragers of a given colony in Australia and by a maximum of 40 % in Costa Rica. The dominance of resin and resin-derived compounds in the chemical ecology of bees from Borneo may mirror the dominance of a particular Southeast Asian tree family: the highly resinous dipterocarps. Such a correlation between the chemistry of bees and the chemistry of tree resins therefore underlines the close relationship between stingless bees and the trees of their habitat. Cuticular terpenes are assumed to protect bees against predators and/or microbes. Sesquiterpenes, a specific group of terpenes, most vary between species and impair inter-specific aggression by reducing aggressive behavior in species without sesquiterpenes, thereby providing a novel mechanism to achieve interspecific tolerance among insects. Reduced interspecific aggression may also be an important factor enabling the non-aggressive aggregation of nests from stingless bee colonies of up to four different species, because such aggregations frequently comprise both species with and species without sesquiterpenes. Given its various functions, resin represents a highly important resource for stingless bees which directly affects their chemical ecology, defensive properties and inter-specific communication. It remains to be investigated how the bees influence the resin-derived terpene profiles on their body surface and in their nests, particularly how they manage to exclude entire groups of terpenes. Whether bees actually need a high diversity of different resin sources and therefore tree species to maintain the homeostasis of their colonies or whether they would do equally well with a limited amount of resin sources available, should also be addressed in future studies. Answers to this question will directly impair bee and forest management in (sub)tropical regions.
Allogeneic hematopoietic stem cell transplantation (HSCT) is often the only effective treatment for patients with hematological malignancies, but its curative potential is often limited by the development of acute or chronic graft-versus-host disease (GvHD). Although extensive immunosuppressive therapy is highly efficient in the prevention or treatment of GvHD, it greatly increases the risk for life-threatening opportunistic fungal or viral infections and the recurrence of malignant disease. The possibility to selectively deplete alloreactive T cells from donor grafts prior or after transplantation would greatly diminish the need for immunosuppressive therapy in the transplant recipient and thereby greatly improve its clinical outcome. The molecular chaperone heat shock protein of 90 kDa (Hsp90) has been previously shown to stabilize many signal transduction proteins involved in T lymphocyte activation and proliferation and is furthermore able to exert anti-apoptotic effects in different cell types. The aim of this study was therefore to investigate the possibility to selectively target activated, proliferating T cells in lymphocyte populations by inhibition of Hsp90, without compromising viability and function of non-reactive T cell populations including pathogen-specific T lymphocytes. It could be shown in this work, that activated T cells are indeed more prone to apoptotic cell death in the presence of Hsp90 inhibitors than resting cells and that treatment of mixed lymphocyte cultures with such inhibitors eliminates the proliferation of alloreactive cells. In contrast, T cells remaining in a resting state during inhibitor treatment remain viable and also display functional virus-specific responses after inhibitor removal. These data suggest, that Hsp90 could represent a novel target for selective depletion of alloreactive T cells and that application of Hsp90 inhibitors could be a potential approach to prevent or treat GvHD without impairing pathogen-specific T cell immunity. In the second part of this work, the immune responses to strictly defined antigens of the opportunistic pathogenic fungus Aspergillus fumigatus were characterized. Opportunistic fungal infections are highly prevalent in immunocompromized and immunosuppressed individuals, especially in HSCT recipients suffering from GvDH. Although antifungal treatment is permanently improved, invasive fungal infections are still often fatal. In healthy individuals clinical disease is rare, because innate and adaptive immunity act in conjunction to protect the host. Therefore one possible strategy to prevent and treat life-threatening fungal infections in immunocompromized patients is to improve host resistance by augmenting the antifungal functions of the immune system, for example by vaccination or adoptive transfer of antigen-specific T cells. Based on previous findings, the objective of this dissertation was to identify and characterize distinct immunogenic A. fumigatus antigens that could be used for clinical application like vaccination or ex vivo generation of antigen-specific T cells and to characterize the interaction of this antigen-specific lymphocytes with cells of the innate immune system. First, memory T cell responses to different recombinant A. fumigatus proteins in healthy individuals were evaluated. The majority of tested donors displayed stable CD4+ TH1 responses to the Crf1 protein, whereas responses to the other antigens tested could only be detected in a limited number of donors, qualifying Crf1 as potential candidate antigen for clinical use. It was also possible to identify an immunodominant MHC class II DRB1*04-restricted epitope of Crf1 and to generate T cell clones specific for this epitope. This Crf1-specific T cell clones could be specifically activated by dendritic cells fed with synthetic peptide, recombinant protein or germinating A. fumigatus conidia or outgrown hyphae. Interestingly, these A. fumigatus-specific T cell clones also responded to stimulation with Candida albicans, which likewise causes opportunistic infections in immunocompromized patients and encodes for a glucosyltransferase similar to A. fumigatus Crf1. It was also possible to show that supernatant harvested from activated Crf1-specific T cell cultures was able to significantly increase fungal killing by monocytes. These data indicate that the specified FHT epitope of the A. fumigatus protein Crf1 could be potentially used as antigen for vaccination protocols or for the generation of Aspergillus-specific effector T cells for adoptive transfer.
Scents as Floral Defence : Impact on Species and Communities, Mechanisms and Ecological Consequences
(2010)
Floral scents are compositions of diverse volatile substances. Despite the chemical complexity, the interpretation of their ecological relevance was mostly confined to the attractive function facilitating interactions with pollinators. However, the negative impact on plants’ reproduction by non-pollinating flower visitors is pronounced and demands floral adaptations that exclude antagonists. The aim of this dissertation was to explore the defensive properties of floral odours and to imbed them into ecological contexts. The thesis covered four scopes: the scents’ impact on individual species and on flower-visitor communities, the mechanisms that explain the dual function of floral volatiles (attraction and defence), and the ecological consequences of missing defences for plants and pollinators. The most important floral antagonists that are known to reduce the reproductive fitness of plants were identified and their responses towards floral scents were examined. We found that representatives of non‐pollinating florivores (bush crickets), predators that lure for pollinators (spiders), and microorganisms that potentially colonize petals were repelled, deterred or inhibited in their growth by floral secondary metabolites. An earlier study revealed the same effect on nectar thieving ants. These experimental studies clearly demonstrate that scents universally serve as floral defences that have the potential to reduce or even prevent the visitation and exploitation of flowers by these antagonists. Within diverse communities, we tested whether species‐specific responses to odours reflect the structure of naturally occurring flower-visitor interactions in order to examine the ecological importance of defensive floral scents. On three Hawaiian Islands, ant-flower interactions involving co-occurring native and introduced plants were observed. Ants were historically absent from the geographically isolated Hawaiian archipelago. Thus, we hypothesized that native Hawaiian plants lack floral features that exclude ants and therefore would be heavily exploited by introduced, invasive ants. We quantified the residual interaction strength of each pair of ant/plant species as the deviation of the observed interaction frequency from a null-model prediction based on available nectar sugar in a local plant community and local ant activity at sugar baits. As predicted, flowers of plants that are endemic or indigenous to Hawaii were stronger exploited by ants than flowers of co- occurring introduced plants, which share an evolutionary history with ants. We showed experimentally that the absence of ants on flowers of most introduced and few native plants species was due to morphological barriers and/or repellent floral scents, examined in a mobile olfactometer. Analysis of floral volatiles, however, revealed no consistent ant- repellent “syndrome”, probably due to the high chemical variability within the floral scent bouquets. On a fallow land in Germany, we linked the responses of receivers (flower visitors) towards signals (flower scent) with the structure of a highly diverse natural flower-insect network. For each interaction, we defined link temperature – a newly developed metric – as the deviation of the observed interaction strength from neutrality, assuming that animals randomly interact with flowers. Link temperature was positively correlated to the specific visitors' responses to floral scents. Thus, communication between plants and consumers via phytochemical signals reflects a significant part of the microstructure in a complex network. Negative as well as positive responses towards floral scents contributed to these results, where individual experience was important, apart from innate behaviour. The demonstration of the contrasting functions of floral scents that control the visitor spectrum of flowers represents the first evidence that floral scents act as filters allowing access to some flower visitors but simultaneously exclude others. These findings raise the central question of this thesis: what evolutionary mechanism explains the dual function of floral scents? The view of flower visitors as mutualistic and antagonistic agents considers primarily the interest of plants. A classification emphasizing the consumer’s point of view, however, may be more useful when considering adaptations of animals to flower visits. Therefore, we introduced a novel classification that acknowledges the consumers’ interest in the interaction: some animals evolved an obligate dependence on floral resources, others use nectar and pollen as supplement to their diet and are thus regarded as facultative flower visitors. In a meta-analysis covering 18 studies on the responses of animals to floral scents, we assigned the animals to the categories of obligate or facultative flower visitors. Their responses to floral scents were compared. On average, obligate flower visitors, often corresponding to pollinators, were attracted to floral scent compounds. In contrast, facultative and mainly antagonistic visitors were strongly repelled by flower odours. The findings confirm that floral scents have a dual function both as attractive and defensive cues. Whether an animal depends on floral resources determines its response to these signals, suggesting that obligate flower visitors evolved a tolerance against primarily defensive compounds. These findings were confirmed in an experimental study. We conclude that floral scents protect flowers against visitors that would otherwise reduce the reproductive success of plants. In Hawaii, where flowers do not have defensive means against ants, we studied the impact of ants on the pollination effectiveness of endemic and introduced bees and on the fruit set of an endemic tree Metrosideros polymorpha (Myrtaceae). Ants were dominant nectar-consumers that mostly depleted the nectar of visited inflorescences. Accordingly, the visitation frequency, duration, and consequently the pollinator effectiveness of nectar-foraging bees strongly decreased on ant-visited flowers, whereas pollen-collecting bees remained largely unaffected by ants. Overall, endemic bees (Hylaeus spp.) were much poorer pollinators than introduced honeybees (Apis mellifera). The average net effect of ants on pollination of M. polymorpha was neutral, corresponding to a similar fruit set of ant-visited and ant-free inflorescences. A second Hawaiian plant species, Vaccinium reticulatum (Ericaceae), was visited by the caterpillars of an introduced plume moth (Stenoptilodes littoralis) that destroyed buds and flowers of this species. The ants’ presence on flowers strongly reduced flower parasitism by the caterpillars and consequently decreased the loss of flowers and buds. This is, to our knowledge, the first documented mutualism between invasive ants and an endemic plant species in Hawaii. Thus, ants that have been shown to be detrimental flower visitors elsewhere, had neutral (M. polymorpha) or even positive (V. reticulatum) effects on endemic Hawaiian plants. However, their overall negative effect on the Hawaiian flora and fauna should not be disregarded.
Characterization of tolerogenic rat bone marrow-derived dendritic cells and regulatory T cells
(2010)
Tolerogenic dendritic cells (DC) and regulatory T (Treg) cells are able to prevent destructive immune responses. There is reason to hope that it may soon be possible to use DC and Treg cells to suppress immune responses antigen-specific, not only after transplantation, but also in the case of autoimmunity and allergy. At the moment, the generation of such cell types is very time-consuming and not suitable for clinical routine. In addition, it is not yet fully understood how these cells elicit a desired protective immune response in vivo and how the risks of an excessive immune suppression can be managed. The rat is one of the most important animal models in biomedical research. It is therefore surprising that tolerogenic DC and Treg cells in particular have not been more thoroughly investigated in this model. Thus, the aim of the present study was to systematically characterize these immune cells and investigate their impact on the immune system. Tolerogenic DC were generated from bone marrow precursors cultured with GM-CSF and IL-4 (= IL-4 DC). The proportion of naturally occurring Treg cells with a CD4posCD25posFoxp3pos phenotype comprises approximately 5-8% of the peripheral CD4pos T cells. The characterization of IL-4 DC revealed an up to 26-fold reduced expression of surface molecules such as MHC class II molecules, CD80, CD86, ICAM-1 and CD25 in comparison to mature splenic DC (S-DC). This low expression did not change when the cells where stimulated with different maturation-inducing signals such as replating, LPS, TNF- α and CD40L. Thus, these cells possess a robust phenotype resistant to maturation-inducing stimuli. IL-4 DC take up antigen via endocytosis and are not able to activate naïve T cells or to restimulate antigen-specific T cells. Furthermore, they are able to inhibit and prolongate mature S-DC induced T cell proliferation as well as mature S-DC induced restimulation of antigen-specific T cells, respectively. Thereby, the T cell proliferation was reduced up to 95%. This strong inhibitory effect was mediated within 24 hours in association with a reduced cytokine production (IL-2 about 49% and IFN-γ about 92%). The inhibitory properties of IL-4 DC don´t seem to be caused exclusively by the reduced expression of co-stimulatory molecules. In this study, the detection of the inhibitory molecules PD-L1 and PD-L2 on IL-4 DC suggests they have an impact on mediating inhibitory signals to the T cells. In addition, a suppressive effect of soluble factors was shown. The supernatant of one million IL-4 DC, collected after a 24 hour culture, suppressed mature S-DC induced proliferation of naïve T cells by about 90%. TGF-β, which was detected in the supernatant (up to 300 pg/ml), appears to be the causing soluble factor for this immune inhibition. By contrast, the supernatants of mature S-DC, which did not inhibit the activation of T cells, showed a TGF-β concentration of only about 100 pg/ml. The cytotoxic nitric oxide does not contribute to the IL-4 DC-mediated inhibition of T cell proliferation. The NO synthase inhibitor NMMA reduced the amount of NO by about 50%, but the decreased NO levels did not influence T cell proliferation. Indeed, IL-4 DC are not able to induce T cell proliferation, but this doesn´t mean that there is no change on the molecular level. For instance, T cells co-cultured with IL-4 DC during a first culture are not able to proliferate in the presence of mature S-DC during a second culture. This anergic-like state, however, could be abolished by adding exogenous IL-2. In addition, T cells co-cultured with IL-4 DC are able to inhibit the activation of naïve T cells. Naïve and activated T cells were not able to inhibit the mature S-DC induced T cell proliferation. This observation suggests the induction of Treg cells and was investigated in more detail. Indeed, flow cytometric analysis showed a 1.6-fold expansion of CD4posCD25posFoxp3pos T cells from naturally occurring Treg cells in the presence of IL-4 DC. Thereby, the expansion of CD4posCD25posFoxp3pos T cells occurs independently of the maturation state of DC. Both immature IL-4 DC as well as mature S-DC were able to expand the percentage of naturally occurring Treg cells. However, Treg cells pre-incubated with mature S-DC demonstrated a diminished inhibitory effect compared to Treg cells pre-incubated with IL-4 DC. Treg cells pre-incubated with IL-4 DC were able to inhibit the activation of naïve T cells. In this study it was shown that the regulatory potential of DC cannot be deduced solely by their phenotype or maturation state. Other factors, such as functional properties, need to taken into consideration, too. The induction of Treg cells with suppressive properties induced by in vitro generated tolerogenic IL-4 DC might provide an important mechanism for the maintenance of peripheral tolerance. However, for clinical application further investigation is necessary, not only to understand the interactions between tolerogenic DC and Treg cells, but also to investigate the impact of the transfer of a larger quantity of regulatory cells on the immune system of the recipient.
Summary: I previously demonstrated that conditional overexpression of the neuronal nitric oxide synthase (nNOS) inhibited L-type Ca2+-channels and decreased myocardial contractility1 (Burkard N. et al. (2007). Circ Res 100, 32-44). However, nNOS has multiple targets within the cardiac myocyte and it is possible that interesting biological functions of this protein remain to be elucidated. In this study, I showed that nNOS overexpression has a cardioprotective effect after ischemia-reperfusion injury by inhibiting mitochondrial function and reducing the generation of reactive oxygen species (ROS). The effect of conditional nNOS overexpression in cardiac myocytes in ischemiareperfusion injury was assessed. Ischemia-reperfusion injury in WT mice resulted in nNOS accumulation in the mitochondria. Similary, transgenic nNOS overexpression caused nNOS abundance in mitochondria. Electron microscopy of mouse myocardium from nNOS overexpressing mice showed that after induction of its expression, nNOS is additionally localised in mitochondria. nNOS translocation into mitochondria was dependent on HSP90. Ischemia-reperfusion experiments in isolated hearts showed a cardioprotective effect of nNOS overexpression (30min post-ischemia, LVDP 27.0±2.5mmHg in non-induced animals vs. 45.2±1.9mmHg in nNOS overexpressing mice, n=12, p<0.05). Consistently with this finding, in vivo the infarct size within the area at risk was significantly decreased in nNOS overexpressing mice compared to non-induced animals (36.6±8.4 relative % vs. 61.1±2.9 relative %, n=12, p<0.05). nNOS overexpression also caused a significant increase in mitochondrial nitrite levels accompanied by a decrease of cytochrome c oxidase activity (72.0±8.9units/ml in nNOS overexpressing mice vs. 113.2±17.1units/ml in non-induced mice, n=12, p<0.01) resulting in an inhibition of mitochondrial function. Accordingly, O2-consumption (MVO2) in isolated heart muscle stripes was decreased in nNOS overexpressing mice, already under resting conditions (0.016±0.0015 vs. 0.024±0.006ml[O2] x mm-3 x min-1, n=13, p<0.05). Additionally, this study showed that the ROS concentration was significantlydecreased in hearts of nNOS overexpressing mice compared to non-induced animals (6.14±0.685 vs. 14.53±1.7μM, n=8, p<0.01). Application of different inhibitors, Western Blot analysis and activity assays showed that the lower ROS concentration in nNOS overexpressing mice was caused by inhibition of the xanthine oxidoreductase (XOR) activity by the increased abundance of nNOS expression. In summary, this study demonstrated that the conditional transgenic overexpression of nNOS resulted in myocardial protection after ischemia-reperfusion injury. Besides reduction of myocardial Ca2+-overload after reperfusion this might be caused by inhibition of mitochondrial function through nNOS, which reduced myocardial oxygen consumption already under baseline conditions (Burkard N. conditionally accepted by
PART I Animals need to constantly evaluate their external environment in order to survive. In some cases the internal state of the animal changes to cope with it’s surrounding. In our study we wanted to investigate the role of amines in modulating internal states of Drosophila. We have designed a behavioral paradigm where the flies are fixed in space but can walk on a small styrofoam ball suspended by a gentle stream of air. The walking activity of flies was used as behavioral readout. PART I Animals need to constantly evaluate their external environment in order to survive. In some cases the internal state of the animal changes to cope with it’s surrounding. In our study we wanted to investigate the role of amines in modulating internal states of Drosophila. We have designed a behavioral paradigm where the flies are fixed in space but can walk on a small styrofoam ball suspended by a gentle stream of air. The walking activity of flies was used as behavioral readout. An operant training paradigm was established by coupling one of the walking directions to incidence of heat punishment. We observed that animals quickly realized the contingency of punishment with walking direction and avoided walking in the punished direction in the presence of punishment, but did not continue walking in the unpunished direction in the absence of the punishment. This would indicate that the flies do not form a memory for the punished direction or rapidly erase it under new conditions. On having established the paradigm with heat punishment we have attempted to activate selected subsets of neuronal populations of Drosophila while they were walking on the ball. The selective activation of neurons was achieved by expressing the light-activated ion channel channelrhodopsin-2 (ChR2) using the Gal4-UAS system and coupling the unidirectional walking of the animals on the ball with the incidence of blue light required to activate the channels and depolarize the neurons. The feasibility of this approach was tested by light-activating sugar sensitive gustatory receptor neurons expressing ChR2, we found that when the light was actuated the flies preferred to turn in one direction the optically “rewarded” direction. Next we similarly activated different subsets of aminergic neurons. We observed that in our setup animals avoided to turn in the direction which was coupled to activation of dopaminergic neurons indicating that release of dopamine is disliked by the animals. This is in accordance with associative learning experiments where dopamine is believed to underlie the formation of an association between a neutral conditioned stimulus with the aversive unconditioned stimulus. However, when we activated tyraminergic/octopaminergic neurons we did not observe any directional preference. The activation of dopaminergic and tyraminergic/octopaminergic neurons led to arousal of the animals indicating that we were indeed successful in activating those neurons. Also, the activation of serotonergic neurons did not have any effect on directional preference of the animals. With this newly established paradigm it will be interesting to find out if in insects like in mammals a reward mediating system exists and to test subsets of aminergic or peptidergic neurons that could possibly be involved in a reward signaling system which has not been detected in our study. Also, it would be interesting to localize neuropile regions that would be involved in mediating choice behavior in our paradigm. PART II In collaboration with S. Kneitz (IZKF Wuerzburg) and T. Nuwal we performed genome-wide expression analysis of two pre-synaptic mutants - Synapsin (Syn97) and Synapse associated protein of 47 kDa (Sap47156). The rationale behind these experiments was to identify genes that were up- or down-regulated due to these mutations. The microarray experiments provided us with several candidate genes some of which we have verified by qPCR. From our qPCR analysis we can conclude that out of the verified genes only Cirl transcripts seem to be reproducibly down regulated in Synapsin mutants. The Cirl gene codes for a calcium independent receptor for latrotoxin. Further qPCR experiments need to be performed to verify other candidate genes. The molecular interactions between CIRL and SYN or their genes should now be investigated in detail.
In this thesis we have used Drosophila melanogaster as a model organism to investigate proteins and their putative interacting partners that are directly or indirectly involved in the release of neurotransmitters at the synapse. We have used molecular techniques to investigate conserved synaptic proteins, synapsin and synapse associated protein of 47 kD (SAP47), and a putative interaction partner of SAP47, tubulin binding chaperone E-like (TBCEL). SAP47 and synapsins are highly conserved synaptic vesicle associated proteins in Drosophila melanogaster. To further investigate the role and function of Sap47 and Syn genes, we had earlier generated the null mutants by P-element mutagenesis (Funk et al., 2004; Godenschwege et al., 2004). Western blots and ELISA of brain homogenates from Sap47156 null mutants showed the presence of up-regulated phospho-synapsin in comparison to wild-type (CS) and the presence of up-regulated phospho-synapsin was partially abolished when a pan-neuronal rescue of SAP47 was performed by the Gal4- UAS technique. Thus, the results suggest a qualitative and quantitative modulation of synapsin by SAP47. At the transcript level, we did not observe any difference in content of Syn transcript in Sap47156 and wild-type CS flies. The question of a direct molecular interaction between SAP47 and synapsin was investigated by co-immunoprecipitation (Co-IP) experiments and we did not find any stable interactions under the several IP conditions we tested. The possibility of Sap47 as a modifier of Syn at the genetic level was investigated by generating and testing homozygous double null mutants of Sap47 and Syn. The Syn97, Sap47156 double mutants are viable but have a reduced life span and decreased locomotion when compared to CS. In 2D-PAGE analysis of synapsins we identified trains of spots corresponding to synapsins, suggesting that synapsin has several isoforms and each one of them is posttranslationally modified. In an analysis by Blue native-SDS-PAGE (BN-SDS-2D- PAGE) and Western blot we observed synapsin and SAP47 signals to be present at 700-900 kDa and 200-250 kDa, respectively, suggesting that they are part of large but different complexes. We also report the possibility of Drosophila synapsin forming homo- and heteromultimers, which has also been reported for synapsins of vertebrates. In parallel to the above experiments, phosphorylation of synapsins in Drosophila was studied by IP techniques followed by 1D-SDS gel electrophoresis and mass spectrometry (in collaboration with S. Heo and G. Lubec). We identified and verified 5 unique phosphorylation sites in Drosophila synapsin from our MS analysis. Apart from phosphorylation modifications we identified several other PTMs which have not been verified. The significance of these phosphorylations and other identified PTMs needs to be investigated further and their implications for synapsin function and Drosophila behavior has to be elucidated by further experiments. In a collaborative project with S. Kneitz and N. Nuwal, we investigated the effects of Sap156 and Syn97 mutations by performing a whole Drosophila transcriptome microarray analysis of the individual null mutants and the double mutants (V2 and V3). We obtained several candidates which were significantly altered in the mutants. These genes need to be investigated further to elucidate their interactions with Sap47 and Syn. In another project, we investigated the role and function of Drosophila tubulin- binding chaperone E-like (Tbcel, CG12214). The TBCEL protein has high homology to vertebrate TBCE-like (or E-like) which has high sequence similarity to tubulin-binding chaperone E (TBCE) (hence the name TBCE-Like). We generated an anti-TBCEL polyclonal antiserum (in collaboration with G. Krohne). According to flybase, the Tbcel gene has only one exon and codes for two different transcripts by alternative transcription start sites. The longer transcript RB is present only in males whereas the shorter transcript RA is present only in females. In order to study the gene function we performed P- element jump-out mutagenesis to generate deletion mutants. We used the NP4786 (NP) stock which has a P(GawB) insertion in the 5’ UTR of the Tbcel gene. NP4786 flies are homozygous lethal due to a second-site lethality as the flies are viable over a deficiency (Df) chromosome (a deletion of genomic region spanning the Tbcel gene and other upstream and downstream genes). We performed the P-element mutagenesis twice. In the first trial we obtained only revertants and the second experiment is still in progress. In the second attempt, jump-out was performed over the deficiency chromosome to prevent homologous chromosome mediated double stranded DNA repair. During the second mutagenesis an insertion stock G18151 became available. These flies had a P-element insertion in the open reading frame (ORF) of the Tbcel gene but was homozygous viable. Western blots of fresh tissue homogenates of NP/Df and G18151 flies probed with anti-TBCEL antiserum showed no TBCEL signal, suggesting that these flies are Tbcel null mutants. We used these flies for further immunohistochemical analyses and found that TBCEL is specifically expressed in the cytoplasm of cyst cells of the testes and is associated with the tubulin of spermatid tails in wild-type CS, whereas in NP/Df and G18151 flies the TBCEL staining in the cyst cells was absent and there was a disruption of actin investment cones. We also found enrichment of TBCEL staining around the actin investment cone. These results are also supported by the observation that the enhancer trap expression of the NP4786 line is localised to the cyst cells, similar to TBCEL expression. Also, male fertility of NP/Df and G18151 flies was tested and they were found to be sterile with few escapers. Thus, these results suggest that TBCEL is involved in Drosophila spermatogenesis with a possible role in the spermatid elongation and individualisation process.
Serotonin (5-HT) is an important modulator of many physiological, behavioural and developmental processes and it plays an important role in stress coping reactions. Anxiety disorders and depression are stress-related disorders and they are associated with a malfunction of the 5-HT system, in which the 5-HT transporter (5-HTT) plays an important role. 5-Htt knockout (KO) mice represent an artificially hyperserotonergic environment, show an increased anxiety-like behaviour and seem to be a good model to investigate the role of the 5-HT system concerning stress reactions and anxiety disorders. As synaptic proteins (SPs) seem to be involved in stress reactions, the effect of acute immobilization stress on the expression of the three SPs Synaptotagmin (Syt) I, Syt IV and Syntaxin (Stx) 1A was studied in the 5-Htt KO mouse model as well as the expression of the two immediate early genes (IEGs) FBJ osteosarcoma oncogene (c-Fos) and fos-like antigen 2 (Fra-2). Additionally, the expression of the corticotrophin releasing hormone (CRH) and its two receptors CRHR1 and CRHR2 was investigated as part of the hypothalamic-pituitary-adrenal (HPA) stress system. Based on gender- and genotype-dependent differences in corticosterone levels, expression differences in the brain were investigated by performing a quantitative real time-PCR study using primer pairs specific for these SPs and for the IEGs c-Fos and Fra-2 in five different brain regions in 5-Htt KO and 5-Htt wild-type (WT) mice. Mainly gender-dependent differences could be found and weaker stress effects on the expression of SPs could be demonstrated. Regarding the expression of IEGs, stress-, gender- and genotype-dependent differences were found mainly in the hypothalamus. Also in the hypothalamus, gender effects were found concerning the expression of CRH and its both receptors. Additionally, in a second study, male 5-Htt WT and male 5-Htt deficient mice were subjected to a resident-intruder-paradigm which stresses the animals through a loser experience. The morphological changes of neurons were subsequently analyzed in Golgi-Cox-stained sections of limbic brain areas in stressed and unstressed animals of both genotypes using the computer-based microscopy system Neurolucida (Microbrightfield, Inc.). While no differences concerning dendritic length, branching patterns and spine density were found in the hippocampus and no differences concerning dendritic length and branching patterns could be shown in the cingulate cortex (CG), pyramidal neurons in the infralimbic cortex (IL) of stressed 5-Htt WT mice displayed longer dendrites compared to unstressed 5-Htt WT mice. The results indicate that, although in this model drastic alterations of neuronal morphology are absent, subtle changes can be found in specific brain areas involved in stress- and anxiety-related behaviour which may represent neural substrates underlying behavioural phenomena.
Background Transgenic mouse models are increasingly used to study the pathophysiology of human cardiovascular diseases. The aortic pulse wave velocity (PWV) is an indirect measure for vascular stiffness and a marker for cardiovascular risk. Results This work presents three MR-methods that allow the determination of the PWV in the descending murine aorta by analyzing blood flow waveforms, arterial distension waveforms, and a method that uses the combination of flow and distension waveforms. Systolic flow pulses were recorded with a temporal resolution of 1 ms applying phase velocity encoding. In a first step, the MR methods were validated by pressure waveform measurements on pulsatile elastic vessel phantoms. In a second step, the MR methods were applied to measure PWVs in a group of five eight-month-old apolipoprotein E deficient (ApoE(-/-)) mice and an age matched group of four C57Bl/6J mice. The ApoE(-/-) group had a higher mean PWV than the C57Bl/6J group. Depending on the measurement technique, the differences were or were not statistically significant. Conclusions The findings of this study demonstrate that high field MRI is applicable to non-invasively determine and distinguish PWVs in the arterial system of healthy and diseased groups of mice.
In order to survive, organisms avoid threats and seek rewards. Classical conditioning is a simple model to explain how animals and humans learn associations between events that allow them to predict threats and rewards efficiently. In the classical conditioning paradigm, a neutral stimulus is paired with a biologically significant event (the unconditioned stimulus – US). In virtue of this association, the neutral stimulus acquires affective motivational properties, and becomes a conditioned stimulus (CS+). Defensive responses emerge for pairings with an aversive US (e.g., pain), and appetitive responses emerge for pairing with an appetitive event (e.g., reward). It has been observed that animals avoid a CS+ when it precedes an aversive US during a training phase (CS+ US; forward conditioning); whereas they approach a CS+ when it follows an aversive US during the training phase (US CS+; backward conditioning). These findings indicate that the CS+ acquires aversive properties after a forward conditioning, whereas acquires appetitive properties after a backward conditioning. It is thus of interest whether event timing also modulates conditioned responses in such an opponent fashion in humans, who are capable of explicit cognition about the associations. For this purpose, four experiments were conducted in which a discriminative conditioning was applied in groups of participants that only differed in the temporal sequence between CS+ onset and US onset (i.e., the interstimulus interval – ISI). During the acquisition phase (conditioning), two simple geometrical shapes were presented as conditioned stimuli. One shape (CS+) was always associated with a mild painful electric shock (i.e., the aversive US) and the other one (CS-) was never associated with the shock. In a between-subjects design, participants underwent either forward or backward conditioning. During the test phase (extinction), emotional responses to CS+ and CS- were tested and the US was never presented. Additionally, a novel neutral shape (NEW) was presented as control stimulus. To assess cognitive components, participants had to rate both the valence (the degree of unpleasantness or pleasantness) and the arousal (the degree of calmness or excitation) associated with the shapes before and after conditioning. In the first study, startle responses, an ancestral defensive reflex consisting of a fast twitch of facial and body muscles evoked by sudden and intense stimuli, was measured as an index of stimulus implicit valence. Startle amplitude was potentiated in the presence of the forward CS+ whilst attenuated in the presence of the backward CS+. Respectively, the former response indicates an implicit negative valence of the CS+ and an activation of the defensive system; the latter indicated an implicit positive valence of the CS+ and an activation of the appetitive system. In the second study, the blood-oxygen level dependent (BOLD) response was measured by means of functional magnetic resonance imaging (fMRI) to investigate neural responses after event learning. Stronger amygdala activation in response to forward CS+ and stronger striatum activation in response to backward CS+ were found in comparison to CS-. These results support the notion that the defensive motivational system is activated after forward conditioning since the amygdala plays a crucial role in fear acquisition and expression. Whilst the appetitive motivational system is activated after backward conditioning since the striatum plays a crucial role in reward processing. In the third study, attentional processes underlying event learning were observed by means of steady-state visual evoked potentials (ssVEPs). This study showed that both forward and backward CS+ caught attentional resources. More specifically, ssVEP amplitude was higher during the last seconds of forward CS+ that is just before the US, but during the first seconds of backward CS+ that is just after the US. Supposedly, attentional processes were located at the most informative part of CS+ in respect to the US. Participants of all three studies rated both forward and backward CS+ more negative and arousing compared to the CS-. This indicated that event timing did not influence verbal reports similarly as the neural and behavioral responses indicating a dissociation between the explicit and implicit responses. Accordingly, dual process theories propose that human behavior is determined by the output of two systems: (1) an impulsive implicit system that works on associative principles, and (2) a reflective explicit system that functions on the basis of knowledge about facts and values. Most importantly, these two systems can operate in a synergic or antagonistic fashion. Hence, the three studies of this thesis congruently suggest that the impulsive and the reflective systems act after backward association in an antagonistic fashion. In sum, event timing may turn punishment into reward in humans even though they subjectively rate the stimulus associated with aversive events as being aversive. This dissociation might contribute to understand psychiatric disorders, like anxiety disorders or drug addiction.
This thesis is devoted to Bernoulli Stochastics, which was initiated by Jakob Bernoulli more than 300 years ago by his master piece 'Ars conjectandi', which can be translated as 'Science of Prediction'. Thus, Jakob Bernoulli's Stochastics focus on prediction in contrast to the later emerging disciplines probability theory, statistics and mathematical statistics. Only recently Jakob Bernoulli's focus was taken up von Collani, who developed a unified theory of uncertainty aiming at making reliable and accurate predictions. In this thesis, teaching material as well as a virtual classroom are developed for fostering ideas and techniques initiated by Jakob Bernoulli and elaborated by Elart von Collani. The thesis is part of an extensively construed project called 'Stochastikon' aiming at introducing Bernoulli Stochastics as a unified science of prediction and measurement under uncertainty. This ambitious aim shall be reached by the development of an internet-based comprehensive system offering the science of Bernoulli Stochastics on any level of application. So far it is planned that the 'Stochastikon' system (http://www.stochastikon.com/) will consist of five subsystems. Two of them are developed and introduced in this thesis. The first one is the e-learning programme 'Stochastikon Magister' and the second one 'Stochastikon Graphics' that provides the entire Stochastikon system with graphical illustrations. E-learning is the outcome of merging education and internet techniques. E-learning is characterized by the facts that teaching and learning are independent of place and time and of the availability of specially trained teachers. Knowledge offering as well as knowledge transferring are realized by using modern information technologies. Nowadays more and more e-learning environments are based on the internet as the primary tool for communication and presentation. E-learning presentation tools are for instance text-files, pictures, graphics, audio and videos, which can be networked with each other. There could be no limit as to the access to teaching contents. Moreover, the students can adapt the speed of learning to their individual abilities. E-learning is particularly appropriate for newly arising scientific and technical disciplines, which generally cannot be presented by traditional learning methods sufficiently well, because neither trained teachers nor textbooks are available. The first part of this dissertation introduces the state of the art of e-learning in statistics, since statistics and Bernoulli Stochastics are both based on probability theory and exhibit many similar features. Since Stochastikon Magister is the first e-learning programme for Bernoulli Stochastics, the educational statistics systems is selected for the purpose of comparison and evaluation. This makes sense as both disciplines are an attempt to handle uncertainty and use methods that often can be directly compared. The second part of this dissertation is devoted to Bernoulli Stochastics. This part aims at outlining the content of two courses, which have been developed for the anticipated e-learning programme Stochastikon Magister in order to show the difficulties in teaching, understanding and applying Bernoulli Stochastics. The third part discusses the realization of the e-learning programme Stochastikon Magister, its design and implementation, which aims at offering a systematic learning of principles and techniques developed in Bernoulli Stochastics. The resulting e-learning programme differs from the commonly developed e-learning programmes as it is an attempt to provide a virtual classroom that simulates all the functions of real classroom teaching. This is in general not necessary, since most of the e-learning programmes aim at supporting existing classroom teaching. The forth part presents two empirical evaluations of Stochastikon Magister. The evaluations are performed by means of comparisons between traditional classroom learning in statistics and e-learning of Bernoulli Stochastics. The aim is to assess the usability and learnability of Stochastikon Magister. Finally, the fifth part of this dissertation is added as an appendix. It refers to Stochastikon Graphics, the fifth component of the entire Stochastikon system. Stochastikon Graphics provides the other components with graphical representations of concepts, procedures and results obtained or used in the framework of Bernoulli Stochastics. The primary aim of this thesis is the development of an appropriate software for the anticipated e-learning environment meant for Bernoulli Stochastics, while the preparation of the necessary teaching material constitutes only a secondary aim used for demonstrating the functionality of the e-learning platform and the scientific novelty of Bernoulli Stochastics. To this end, a first version of two teaching courses are developed, implemented and offered on-line in order to collect practical experiences. The two courses, which were developed as part of this projects are submitted as a supplement to this dissertation. For the time being the first experience with the e-learning programme Stochastikon Magister has been made. Students of different faculties of the University of Würzburg, as well as researchers and engineers, who are involved in the Stochastikon project have obtained access to Stochastikon Magister via internet. They have registered for Stochastikon Magister and participated in the course programme. This thesis reports on two assessments of these first experiences and the results will lead to further improvements with respect to content and organization of Stochastikon Magister.
In the context of the ongoing discussion about a carrier-induced ferromagnetic phase transition in diluted-magnetic II-VI semiconductors (DMS), theoretical studies on coherent dynamics of localized spins coupled with a two-dimensional hole gas (2DHG) in DMS quantum wells (QWs) were done by K.V. KAVOKIN. His key for studying the exchange interaction of the localized spin ensemble (e.g. Mn2+) with the 2DHG is the Larmor frequency of the localized Mn-ion spins and thus their Mn-g-factor. It was shown that the 2DHG affects a time evolution of the (Mn-) spin system in an in-plane magnetic field resulting in the reduction of its Larmor frequency (Mn-g-factor) under the influence of an oscillating effective field of holes. This is called magnetic soft mode (behaviour). The experimental access for demonstrating this Mn-g-factor reduction with increasing hole concentration is the method of Multi-Spin-Flip (SF) Raman scattering combined with the variation of the carrier concentration by photo-excitation with an additional light source (two-colour experiment). The main motivation for this thesis was the experimental confirmation of the theoretically predicted magnetic soft mode and the analysis of its dependence on the hole-concentration and external B-field, as well as its disappearance with increasing sample temperature. For that purpose, CdMnTe/CdMgTe QWs (Mn: 0.6%, 1.0%) positioned close to the sample surface (13−19nm) were investigated in an in-plane applied external magnetic field (up to 4.5T in Voigt-geometry) via a two-colour experiment i.e. using two light sources. This allows the spin excitation of Mn-ions by simultaneously tuning the hole-concentration towards the ferromagnetic phase transition by photo-generated carriers. Thus, one tuneable laser is responsible for resonant below-barrier excitation as a probe for Multi-SF Raman scattering. The other laser excites photo-generated carriers from above barrier (2.41eV) for tuning the hole concentration in the QW. Positioning the QW close to the sample surface causes a surface-induced p-doping of the QW (intrinsic hole concentration in the QW) and enables the active tuning of the hole concentration by photo-generated carriers due to different tunnelling behaviour of electrons and holes from the QW to the surface. The Mn-g-factor was decreased by quasi-continuously increasing the above-barrier illumination (and thus the hole concentration), while the below-barrier excitation (Multi-PR probe) was kept at a constant low power. This results in a Mn-g-factor reduction starting from its atomic value g=2.01 to lowest evaluated Mn-g-factor in this thesis g=1.77. This is a magnetic softening of 12%. Apart from the general magnetic soft mode behaviour at low temperatures, one of the main experimental results in this thesis is the confirmation of the theoretical prediction that the magnetic soft mode behaviour in the external B-field does not only depend on the carrier concentration but also on the B-field strength itself. An additional aspect is the temperature dependence of the magnetic soft mode. The Mn-g-factor decrease is suppressed with increasing temperature almost reaching the atomic Mn-g-factor at 4.2K (g=1.99). This behaviour is due to the T-induced weakening of the transverse 2DHG spin susceptibility. The results of the investigations concerning the cap layer thickness impact on the QW carrier characteristics were investigated in the cap thickness range of 13nm to 19nm. The cap thickness configures on the one hand the intrinsic hole concentration of the QW ("2DHG offset") due to the surface-induced p-doping and sets the "starting point" for the Mn-g-factor reduction. On the other hand the cap thickness determines the probability of electron tunnelling to the surface and thus the efficiency of the hole tuning by light. The latter is the criterion for the range of Mn-g-factor reduction by light. This two dependences were pointed out by the photo-generated hole influence on the QW PL-spectra which results in tuning the exciton-trion ratio. In summary both mechanisms are of relevance for the hole tuning and thus for the magnetic soft-mode behaviour. The mechanism of tunnelling time prevails at small cap layer thicknesses while the surface-induced p-doping plays the major role for larger cap thicknesses (> 25nm). In conclusion, the presented method in this thesis is a sensitive tool to study the dynamics of the spin excitations and the paramagnetic susceptibility in the vicinity of the hole-induced ferromagnetic phase transition.
Reactive oxygen species (ROS) are continuously generated in cells and are involved in physiological processes including signal transduction but also their damaging effects on biological molecules have been well described. A number of reports in the literature implicate excessive oxidative stress and/or inadequate antioxidant defense in the pathogenesis of cancer, atherosclerosis, chronic and age related disorders. Several studies have indicated that activation of the renin-angiotensin-aldosterone-system can lead to the formation of ROS. Epidemiological studies have revealed higher renal cell cancer incidences and also higher cancer mortalities in hypertensive individuals. Recently, our group has shown that perfusion of the isolated mouse kidney with Ang II or treatment of several cell lines with Ang II leads to formation of DNA damage and oxidative base modifications. Here, we tried to scrutinize the pathway involved in genotoxicity of Ang II. We confirmed the genotoxicity of Ang II in two kidney cell lines of human origin. Ang II treatment led to the production of superoxide anions which we could hinder when we used the membrane permeable superoxide dismutase (SOD) mimetic TEMPOL. One of the enzymes which is activated in the cells after Ang II treatment and is able to produce ROS is NADPH oxidase. We demonstrated the activation of NADPH oxidase in response to Ang II by upregulation of its p47 subunit using RT-PCR. Also, pPhosphorylation of p47 subunit of NADPH oxidase after Ang II treatment was enhanced. Using two inhibitors we showed that NADPH oxidase inhibition completely prevents DNA damage by Ang II treatment. To differentiate between Nox2 and Nox4 isoforms of NADPH oxidase subunits in the genotoxicity of Ang II, we performed siRNA inhibition and found a role only for Nox4, while Nox2 was not involved. Next, we investigated PKC as a potential activator of NADPH oxidase. We showed that PKC becomes phosphorylated after Ang II treatment and also that inhibition of PKC hinders Ang II from damaging the cells. Our results from using several inhibitors of different parts of the pathway revealed that PKC activation in this pathway is dependent on the action of PLC on membrane phospholipids and production of IP3. IP3 binds to its receptor at endoplasmic reticulum (ER), opening a channel which allows calcium efflux into the cytoplasm. In this manner, both ER calcium stores and extracellular calcium cooperate so that Ang II can exert its genotoxic effect. PLC is activated by AT1R stimulation. We could also show that the genotoxicity of Ang II is mediated via AT1R signaling using the AT1R antagonist candesartan. In conclusion, here we have shown that Ang II is able to damage genomic damage in cell lines of kidney origin. The observed damage is associated with production of ROS. A decrease in Ang II-induced DNA damage was observed after inhibition of G-proteins, PLC, PKC and NADPH oxidase and interfering with intra- as well as extracellular calcium signaling. This leads to the following preliminary model of signaling in Ang II-induced DNA damage: binding of Ang II to the AT1 receptor activates PLC via stimulation of G-proteins, resulting in the activation of PKC in a calcium dependent manner which in turn, activates NADPH oxidase. NADPH oxidase with involvement of its Nox4 subunit then produces reactive oxygen species which cause DNA damage. Dopamine content and metabolism in the peripheral lymphocytes of PD patients are influenced by L-Dopa administration. The PD patients receiving a high dose of L-Dopa show a significantly higher content of dopamine in their lymphocytes compared to PD patients who received a low dose of L-Dopa or the healthy control. Central to many of the processes involved in oxidative stress and oxidative damage in PD are the actions of monoamine oxidase (MAO), the enzyme which is responsible for the enzymatic oxidation of dopamine which leadsing to production of H2O2 as a by-product. We investigated whether dopamine oxidation can cause genotoxicity in lymphocytes of PD patents who were under high dose L-Dopa therapy and afterward questioned the occurrence of DNA damage after dopamine treatment in vitro and tried to reveal the mechanism by which dopamine exerts its genotoxic effect. The frequency of micronuclei in peripheral blood lymphocytes of the PD patients was not elevated compared to healthy age-matched individuals, although the formation of micronuclei revealed a positive correlation with the daily dose of L-Dopa administration in patients who received L-Dopa therapy together with dopamine receptor agonists. In vitro, we describe an induction of genomic damage detected as micronucleus formation by low micromolar concentrations in cell lines with of different tissue origins. The genotoxic effect of dopamine was reduced by addition of the antioxidants TEMPOL and dimethylthiourea which proved the involvement of ROS production in dopamine-induced DNA damage. To determine whether oxidation of dopamine by MAO is relevant in its genotoxicity, we inhibited MAO with two inhibitors, trans-2-phenylcyclopropylamine hydrochloride (PCPA) and Ro 16-6491 which both reduced the formation of micronuclei in PC-12 cells. We also studied the role of the dopamine transporter (DAT) and dopamine type 2 receptor (D2R) signaling in the genotoxicity of dopamine. Inhibitors of the DAT, GBR-12909 and nomifensine, hindered dopamine-induced genotoxicity. These results were confirmed by treatment of MDCK and MDCK-DAT cells, the latter containing the human DAT gene, with dopamine. Only MDCK-DAT cells showed elevated chromosomal damage and dopamine uptake. Although stimulation of D2R with quinpirole in the absence of dopamine did not induce genotoxicity in PC-12 cells, interference with D2R signaling using D2R antagonist and inhibition of G-proteins, phosphoinositide 3 kinase and extracellular signal-regulated kinases reduced dopamine-induced genotoxicity and affected the ability of DAT to take up dopamine. Furthermore, the D2R antagonist sulpiride inhibited the dopamine-induced migration of DAT from cytosol to cell membrane. Overall, the neurotransmitter dopamine causes DNA damage and oxidative stress in vitro. There are also indications that high dose L-Dopa therapy might lead to oxidative stress. Dopamine exerts its genotoxicity in vitro upon transport into the cells and oxidization oxidation by MAO. Transport of dopamine by DAT has the central role in this process. D2R signaling is involved in the genotoxicity of dopamine by affecting activation and cell surface expression of DAT and hence modulating dopamine uptake. We provided evidences for receptor-mediated genotoxicity of two compounds with different mechanism of actions. The involvement of these receptors in many human complications urges more investigations to reveal whether abnormalities in the endogenous compounds-mediated signaling can play a role in the initiation of new conditions like carcinogenesis.
This thesis consists of three major chapters, each of which has been separately published or under the process for publication. The first chapter is about anatomical characterization of the mushroom body of adult Drosophila melanogaster. The mushroom body is the center for olfactory learning and many other functions in the insect brains. The functions of the mushroom body have been studied by utilizing the GAL4/UAS gene expression system. The present study characterized the expression patterns of the commonly used GAL4 drivers for the mushroom body intrinsic neurons, Kenyon cells. Thereby, we revealed the numerical composition of the different types of Kenyon cells and found one subtype of the Kenyon cells that have not been described. The second and third chapters together demonstrate that the multiple types of dopaminergic neurons mediate the aversive reinforcement signals to the mushroom body. They induce the parallel memory traces that constitute the different temporal domains of the aversive odor memory. In prior to these chapters, “General introduction and discussion” section reviews and discuss about the current understanding of neuronal circuit for olfactory learning in Drosophila.
The results of this thesis contribute to the understanding of the electronic properties of organic thin-films and interfaces. It is demonstrated that photoemission spectroscopy is very useful for studying surfaces and interfaces. Additionally it is shown, that many-body effects can be relevant for organic thin films, in particular at interfaces with strong interaction. These effects can have general implications for the material properties. In the first part of this thesis a systematic series of polyacene molecules is investigated with NEXAFS spectroscopy. The comparison of the data with core level and IPES data indicates that core excitations and core excitons need to be understood as many-body excitations. This finding implies for example that a high exciton binding energy is not necessarily associated with strong localization of the excited electron at the hole. As these effects apply also for valence excitons they can be relevant for the separation of charges and for the electron-hole recombination at interfaces. In the next chapter some fundamental effects in organic multilayer films and at organic-metal interfaces are studied with core level and NEXAFS spectroscopy. In this context a series of selected molecules is investigated, namely BTCDA, BTCDI, PTCDA and PTCDI. It is shown that in case of strong interface interaction a density of adsorbate-substrate states is formed which can lead to significant charge transfer satellites in the PES and NEXAFS spectra, similar to what is known for transition metal compounds. Moreover, it is demonstrated that the data can be modeled qualitatively by a basic approach which fuses the single impurity Anderson model with the description of charge transfer satellites by Sawatzky et al. This approach, which is equivalent to that of Gunnarsson and Schönhammer, allows even a relatively simple semi-quantitative analysis of the experimental data. The comparison of different adsorbate layers indicates that these many-body effects are particularly strong in case of partial occupation of the LUMO derived DOS. In the third part an organic multilayer film (SnPc), an organic-metal interface with strong coupling (SnPc/Ag) and an organic-organic interface (SnPc/PTCDA/Ag) are studied exemplarily with resonant Auger spectroscopy. The comparison of the data gives evidence for the contribution of many-body effects to the autoionization spectra. Furthermore, it is found that the electron-vibration coupling and the substrate-adsorbate charge transfer occurs on the time scale of the core hole life time. Moreover, the interaction at the organic-organic interface is weak, comparable to the intermolecular interaction in the multilayer films, despite a considerable rigid level shift for the SnPc layer. Furthermore, weak but significant electron-electron correlation is found for the molecular frontier orbitals, which are important for the substrate-adsorbate charge transfer. Therefore, these strongly coupled adsorbate films are briefly discussed within the context of the Hubbard model in the last part of this thesis. From the data derived in this work it can be estimated that such monolayer films are in the regime of medium correlations. Consequently one can expect for these adsorbate films properties which are related to the extraordinary behavior of strongly correlated materials, for which Mott metal-insulator transitions, sophisticated magnetic properties and superconductivity can be observed. Additionally some results from the investigation of alkyl/Si self-assembled monolayers are briefly discussed in the appendix. It is demonstrated exemplarily for the alkyl chains that the electronic band structure of short, finitely repeating units can be well modeled by a comparatively simple quantum well approach. In principle this approach can also be applied to higher dimensional systems, which makes it very useful for the description of E(k) relations in the regime of repeating units of intermediate length. Furthermore, the photoelectron and NEXAFS spectra indicate strong interaction at the alkyl/Si interface. It was found that the interface states can be modified by moderate x-ray irradiation, which changes the properties for charge transport through the SAM.
The human gut is home for thousands of microbes that are important for human life. As most of these cannot be cultivated, metagenomics is an important means to understand this important community. To perform comparative metagenomic analysis of the human gut microbiome, I have developed SMASH (Simple metagenomic analysis shell), a computational pipeline. SMASH can also be used to assemble and analyze single genomes, and has been successfully applied to the bacterium Mycoplasma pneumoniae and the fungus Chaetomium thermophilum. In the context of the MetaHIT (Metagenomics of the human intestinal tract) consortium our group is participating in, I used SMASH to validate the assembly and to estimate the assembly error rate of 576.7 Gb metagenome sequence obtained using Illumina Solexa technology from fecal DNA of 124 European individuals. I also estimated the completeness of the gene catalogue containing 3.3 million open reading frames obtained from these metagenomes. Finally, I used SMASH to analyze human gut metagenomes of 39 individuals from 6 countries encompassing a wide range of host properties such as age, body mass index and disease states. We find that the variation in the gut microbiome is not continuous but stratified into enterotypes. Enterotypes are complex host-microbial symbiotic states that are not explained by host properties, nutritional habits or possible technical biases. The concept of enterotypes might have far reaching implications, for example, to explain different responses to diet or drug intake. We also find several functional markers in the human gut microbiome that correlate with a number of host properties such as body mass index, highlighting the need for functional analysis and raising hopes for the application of microbial markers as diagnostic or even prognostic tools for microbiota-associated human disorders.
The thesis deals with the question which motivation direction—approach or avoidance—is connected to the emotion relief—a positive, low-arousal emotion, which is caused by an expected or nonexpected, motive-consistent change for the better, thus caused by the absence of an aversive stimulus. Based on the idea of postulating different levels of approach avoidance motivation, the Reflective-Impulsive Model of Behavior (RIM, Strack & Deutsch, 2004) is applied to relief and approach avoidance. The RIM differentiates between an impulsive and a reflective system of information processing, with both systems working in relative independence from each other. Two central variables moderate the relation between relief and approach avoidance. The first is the psychological system in which approach avoidance is processed and assessed. Two levels of approach avoidance are distinguished: an impulsive distance orientation (distance change in relation to specific stimuli) and a reflective goal orientation (attainment of positive versus avoidance of negative end states). The second is the psychological system in which relief developed: In the impulsive system, relief develops as the affect that is conditioned to the absence of negative states; in the reflective system, relief develops as a result of goal-oriented behaviour of controlling or preventing of negative stimulation. The thesis looks at both moderators (level of approach avoidance and psychological system of development of relief) at once. The central prediction for the impulsive distance orientation is: Relief leads to an approach distance orientation (distance reduction), independent from the system in which relief develops. The central prediction for the reflective goal orientation is: Relief leads to an avoidance goal orientation (control of negative end states). This latter prediction is only made for the case when relief was caused by (develops in) the reflective system, that is by one’s own, goal-directed behaviour; it is further necessary for an avoidance goal orientation that the relief state cannot certainly reached, instead there always has to uncertainty in the control of negative states. The methodology in the thesis is based on studies of aversive conditioning. In most studies, a differentiation paradigm is applied. The impulsive relief is operationalized via a classically conditioned relief (aversive CS-), whereas the reflective relief is operationalized via an active avoidance paradigm which ensures the methodological comparability of “reflective relief” to “impulsive relief”. The predictions are as follows: Prediction A: Relief will elicit positive affective valence and an approach distance orientation. This should be true for both relief that is caused by the impulsive system and for relief that is caused by the reflective system (Experiments 2-3). Prediction B: More positive valence of relief—caused by a larger change of affective states—will elicit a stronger approach distance orientation (Experiment 4). Prediction C: Relief caused by the impulsive system will not elicit a specific goal orientation (Experiment 5). Prediction D: Uncertain self-induced relief—caused by the reflective system—will elicit an avoidance goal orientation (Experiments 6-7). In addition, Experiment 1 validated the conditioning paradigm used for the elicitation of relief. The experiments in the thesis support all predictions made in the theoretical part. The work has implications for the assumptions made in the RIM (Strack & Deutsch, 2004). In the impulsive system, the affective valence determines approach avoidance orientation (e.g., R. Neumann & Strack, 2000), the reflective goal not playing an important role. Relief elicits an approach orientation in the impulsive system. In the reflective system, the active goal is decisive for the approach avoidance orientation. Uncertain self-caused relief elicits an avoidance goal orientation in the reflective system. The studies of the thesis thus support and validate the assumptions made in the RIM (Strack & Deutsch, 2004) in the specific field of motivational direction.
The genus Borrelia belongs to the Spirochaetes phylum which is far related to Gram negative bacteria. This phylum possesses a characteristic long helically coiled shape with lengths that vary from 5 to 250 μm. Other pathogens as Treponema and Leptospira which cause syphilis and leptospirosis, also belong to the Spirochaetes. Borrelia itself is the causative agent of two human diseases, the Lyme disease and relapsing fever. Borreliae are pathogenic bacteria which cycle between their arthropod vector, in most cases a tick, and a mammal host, very often small rodents. This complex life cycle requires an extraordinary protein up- and down-regulation in order to survive in such different organisms and avoid their immunologic systems. Lyme disease is a multisystemic disease that can affect different organs like skin, joints and nervous system. A red rash with concentric rings, called erythema migrans is a distinctive manifestation that allows clinical diagnosis. It appears after the bite of an infected tick and spreads out to diameters that can reach 15 cm. Relapsing fever is characterized by sudden recurrent fever peaks accompanied with chills, headache, muscle and joint pain and nausea. Both diseases are easily treated with antibiotics in early infection stages. Borrelia species possess a small genome. Many of their genes are related with virulence and the adaptation to the different hosts. The absence of genes in Borrelia involved in the biosynthesis of amino acids, fatty acids or nucleotide is very remarkable. This metabolic deficiency makes Borrelia species dependent on substances produced by the host. The first step in nutrient uptake is accomplished by porins. Bacterial porins are water-filled channels that facilitate the transport of essential molecules through the outer membrane. Four porins have been described in Borrelia up to this point. P66, P13 and Oms28 have been found in Borrelia burgdorferi while Oms38 was discovered in relapsing fever spirochetes. P66 is a singular porin with an extremely high single channel conductance of 11 nS. P13 is a small protein with an α-helical secondary structure which does not fit into the general porin model. The function of Oms28 as a porin has been questioned recently due to its periplasmic membrane-associated location. Finally, Oms38 is a specific porin for dicarboxilates with homologues in Lyme disease species. The aim of this thesis was to broaden the knowledge of the P66 and P13 porins described in the genus Borrelia. Both differ in structure and size from the general Gram negative porin model and could be highly involved in specific tasks in the genus Borrelia. In the first project of this thesis, the presence and pore forming capacity of P66 was studied in several Borrelia species including members of the relapsing fever group. P66 is the best studied porin in Borrelia with a dual function as porin and adhesin. This knowledge is restricted to B. burgdorferi and little or nothing is known about homologues in other Borrelia species. Therefore, three Lyme disease and three relapsing fever species were chosen as representative agents of the genus and the pore forming activity of their P66 homologues was studied. Five out of the six homologues exhibited a similar single channel conductance in a range from 9 to 11 nS. All of them showed no selectivity for cations or anions, and they were voltage dependent starting at different voltages from 30 to 70 mV. Only in the case of the B. hermsii homologue no pore forming activity could be established. It remains unclear if the lack of activity was due to an evolutionary loss of its porin function or to a higher sensibility to the detergents used for purification. In another project, the controversial P66 pore diameter of B. burgdorferi was analyzed with an empirical method. In a former study, the diameter of the P66 channel was estimated to be 2.6 nm based on theoretical considerations. This diameter is rather large and could impair the outer membrane protective function. Different non-electrolytes were used to study the P66 pore diameter indicating a 1.8 nm entrance diameter and a 0.8 nm inner constriction. In addition, the blockage of the channel with some of those non-electrolytes disclosed an oligomeric organization formed by approximately eight independent channels. Such a structure has not been observed so far in any other living organism and could be exclusive of Borrelia or spirochetes. The third project of this thesis deal with the recombinant production of a B. burgdorferi protein with immunogenic potential. This protein might be used to develop new diagnosis tests and therapeutic treatments. P13 is an outer membrane protein present in LD and RF species and it does not have any other known bacterial homologue. These facts make of P13 a good candidate to be used as a therapeutic target. For such purpose, P13 was cloned in two organisms. First, in Escherichia coli were two different constructs were designed to establish the role of a periplasmic cleaved C-terminus. Second, in a virus based vector delivered by Agrobacterium tumefaciens into tobacco plant cells. The vector replicates inside the plant cells spreading the infection to adjacent cells and at the same time producing the recombinant protein. This second expression method should enable the production of large amounts of the recombinant protein reducing time and costs. The last project of this thesis looked into the outer membrane complexome of B. burgdorferi focusing on the P13 and P66 porin complexes. Blue Native Page and second dimension SDS Page were the technique chosen for this purpose. P66 could be shown to be the only protein involved in the formation of the 11 nS pore which complex is probably formed by eight monomers. It was also possible to divide this complex in two halves with approximately half the molecular weight and a conductance of 5.5 nS. In the case of the P13 complex, a possible association with the lipoprotein OspC was revealed. The gel extraction of the P13 complex and its test with the Back Lipid Bilayer assay exhibited a 0.6 nS activity. This is in high contrast with the 3.5 nS activity previously described for this protein. To sum up, P66 is a porin present in many Borrelia species including not only LD but also RF species and which homologues show similar biophysical properties. The diameter of this pore is smaller than previously thought and it has molecular weight sieving properties. In the case of P13, its recombinant procurement will allow the use of P13 as a diagnostic and therapeutic target. The possible association with OspC could facilitate to unravel in future experiments the function of this intriguing protein.
Since the beginning, central banks have used a wide range of instruments to achieve their ultimate purpose of price stability. One measure in the authorities toolbox is a foreign exchange market intervention. The discussion about this instrument has come a long way. So far, the discussion relied mainly on industrialized countries' experiences. The negative outcomes of most studies with respect to the effectiveness of the intervention tool, opened up a discussion, whether interventions should be used by the authorities to manage exchange rate aspects. Consequently, the question about the dynamics of foreign exchange market interventions is now open to the subject-matter of developing and emerging market countries. Monetary policy in those countries often constitutes an active management of exchange rates. However, the basic discussions about intervention dynamics have had one essential drawback. Neither the primary literature of industrialized countries nor studies dealing with developing countries have considered the fact that intervention purposes and the corresponding effects are likely to vary over time. This thesis is designed to provide the reader with essential issues of central bank interventions, and aims to give further, as well as new contributions, in terms of empirical research on interventions in emerging markets. The main objectives of this study are the analysis of central bank intervention motives, and the corresponding effects on exchange rates in emerging markets. The time dependency of both issues is explicitly considered, which states a novelty in academic research of central bank interventions. Additionally, the outcomes are discussed against the background of underlying economic and monetary policy fundamentals. This could well serve as a starting point for further research.
Shigellosis, or bacillary dysentery, is a rectocolitis caused by the gram-negative, enteroinvasive bacteria of the genus Shigella. Shigellosis still remains a major public health burden with an estimated 80 million cases of bloody diarrhoea and 700.000 deaths per year, primarily in children under the age of 5. Shigella disrupts, invades, and causes inflammatory destruction of the colonic epithelium in humans through virulence effectors secreted by the type III secretion apparatus (TTSA). In contrast to the Shigella-induced manipulation of the host innate immune response, the impact of Shigella on the adaptive immunity has been poorly studied thus far. In order to understand why the naturally induced protective humoral response requires several infections to be primed and is of short duration, the work presented here investigates if Shigella is able to directly interact with T cells. Indeed, it has been shown that Shigella was able to invade and proliferate inside T cells. Furthermore, Shigella was able to inhibit T cell migration through a TTSA effector. Moreover, the Shigella effector IpgD, a phosphoinositide 4-phosphatase that specifically dephosphorylates phosphatidylinositol-(4,5)-bisphosphate (PIP2) into phosphatidylinositol-(5)-monophosphate (PI(5)P), was identified as the effector responsible for the observed inhibition. It could be demonstrated that IpgD was responsible for a reduction of intracellular PIP2 levels in T cells. Further experiments showed a reduced level of phosphorylated ezrin, radixin and moesin (ERM) proteins in infected, as well as with IpgD transfected, T cells. The ERM protein family plays an imported role in signal transduction and motility and their activity is closely related to the binding of PIP2. Therefore, the low level of PIP2 leads to a dephosphorylation of the ERM proteins which inhibits T cells response to chemokine stimulation. Indeed, IpgD transfected T cells show a reduced ability to re-localise the ERM proteins upon chemokine stimulation. Targeting T cell motility, via TTSA effectors, could explain the low level of specific T cell priming during Shigella infection. This is the first report of Shigella induced manipulation of T cell function and on the inhibition of T cell migration by a bacterial effector.
This study focuses on phosphoantigen specific Vg9Vd2 T cells which only exist in human and non-human primates. This population accounts for 1%-5% of peripheral blood T-lymphocytes but their frequency can rise to 50% of total blood T cells upon infection. Vg9Vd2 T cells can be activated by nonpeptide compounds with critical phosphate moieties which are termed as phosphoantigens. These include isopentenyl pyrophosphate (IPP), a key compound of isoprenoid synthesis in all organisms, and (E)-4-Hydroxy-3-methyl-but-2-enyl pyrophosphate (HMBPP), a direct precursor of IPP in DOXP pathway which only exist in eubacteria, plants, apicomplexaen parasites. Its activity as phosphoantigen is at least 1000 fold higher than that of IPP. However, direct structural evidence of phosphoantigen binding to the TCR is missing so far. Moreover, Vg9Vd2 T cells have potent anti-tumor activity e.g. against the B-cell lymphoma Daudi, whose Vg9Vd2 T cell activating properties have been suggested to result from sensing of abnormal intracellular IPP levels by the Vg9Vd2 TCR or Vg9Vd2 TCR binding to other postulated ligands such as an ectopically expressed F1-ATPase or UL-16 binding protein 4 (ULBP4). Aminobisphosphonates and alkymines were hypothesized to activate Vg9Vd2 T cells indirectly by inhibiting the IPP consuming enzyme farnysyl pyrophosphates synthesis (FPPS) although off target effects of these drugs or a direct interaction with the Vg9Vd2 TCR could not be excluded. This thesis presents new approaches for the mechanistic analysis of Vg9Vd2 T cell activation. By employing retroviral transduction of FPPS specific shRNA, it shows that specific shRNA reduces expression of FPPS and is sufficient to convert hematopoietic and non-hematopoietic tumor cell lines into Vg9Vd2 T cell activators. FPPS knockdown cells activated Vg9Vd2 T cells as measured by increased levels of CD69 and CD107a, kill of FPPS knockdown cells and induction of IFN-γ secretion. The IPP-synthesis-inhibiting drug mevastatin reduced Vg9Vd2 T cell activation by FPPS knockdown cells or aminobisphosphonate treated cells but not activation by the phosphoantigen bromohydrin pyrophosphate (BrHPP). A reduced growth of the FPPS knockdown cells has not been observed which is different to what has been reported for aminobisphosphonate treated cells. Finally, the human B-cell lymphoma RAJI has been transduced with Tetracyclin-inducible FPPS specific shRNA and proven to gain and loose the capacity to activate Vg9Vd2 TCR transductants upon doxycylin provision or removal. Another approach for the analysis of Vg9Vd2 T cell activation is Vg9Vd2 TCR transduced mouse cell lines with specificity for phosphoantigens. In contrast to the previously used Vg9Vd2 TCR transduced Jurkat cells, these cells do not present phosphoantigens, and are therefore specially suited for analysis of phosphoantigen presentation. The response of the new TCR transductants to presumed Vg9Vd2 TCR ligands/activators such as phosphoantigens, aminobisphosphonates or FPPS knockdown cells, depended strongly on the expression of a rat/mouse CD28 molecule by the transductants and its ligation by the (CD80) counter receptor on the ligand-presenting cell. The response is likely to reflect recognition of cognate Vg9Vd2 TCR antigens since mutations in the TCR-δ chain CDR2 and 3 abolished this response but activation by TCR or CD3 specific antibodies. A major difference between TCR transductants and primary gd T cells, was the lacking response of TCR transductants to Daudi or IPP. In addition their sensitivity to other soluble phosphoantigens was about 100 fold weaker than that of primary cells, stimulation of both cell type to CD80 expressing FPPS knock down or aminobisphosphonates was similar. Finally, the transductants have also been used to analyze effects of over-expression or knockdown of enzymes of isoprenoid synthesis such as 3-hydroxy-3-methyl-glutaryl-CoA reductase (HMG-CoA reductase or HMGR), mevalonate-5-pyrophosphate decarboxylase (MVD), isopentenyl pyrophosphate isomerase (IDI), geranyl-geranyl pyrophosphate synthase (GGPPS) but no clear effects have been found. In conclusion, this thesis supports the concept of Vg9Vd2 T cells being sensors of a dysregulated isoprenoid metabolism and established new tools to study ligand recognition and TCR mediated activation of this T cell population. These tools will be most useful to address following questions: 1) How does the dysregulation of isoprenoid metabolism affect tumor growth? 2) What is the correlation between the modulation of IPP levels and the Vg9Vd2 TCR binding or expression of other postulated ligands? 3) Are there any mevalonate pathway enzymes other than FPPS and HMGR, which play an important role in Vg9Vd2 T cells activation? 4) What is/are the putative phosphoantigen-presenting molecule(s)?
Metastasis is the cause of death in 90% of cancer-related deaths in men. Melanoma and Non-Small-Cell Lung Cancer (NSCLC) are both tumour types with poor prognosis, lacking appropriate therapeutic possibilities, not least because of their high rate of metastasis. Thus understanding the process of metastasis might unravel therapeutic targets for developing further therapeutic strategies. The generation of a transgenic mouse model expressing B-RafV600E in melanocytes, a mutation that is found in about 60% of all melanoma, would result in an ideal tool to study melanoma progression and metastasis. In this work, a doxycycline-inducible system was constructed for expression of B-RafV600E and transgenic animals were generated, but the expression system has to be improved, since this strategy didn’t give rise to any viable, transgene carrying mice. Furthermore, since it was shown in the work of others that the metastatic behavior of tumour cell lines could be reversed by an embryonic microenvironment and the influence of a tumourigenic microenvironment on melanocytes lead to the acquisition of tumour cell-like characteristics, the question arose, whether B-Raf is as important in melanocyte development as it is in melanoma progression. In this work, the embryonal melanocyte development in B-Raf-deficient and wildtype mouse embryos was examined and there were no differences observed in the localization and number of neural crest stem cells as well as in the localization of the dopachrome-tautomerase positive melanoblasts in the embryos and in cultured neural tube explants. The expression of oncogenic C-Raf in lung epithelial cells has yielded a model for NSCLC giving rise to adenomas lacking spontaneous progression or metastasis. The co-expression of c-Myc in the same cells accelerates the tumour development and gives rise to liver and lymphnode metastases. The expression of c-Myc alone in lung epithelial cells leads to late tumour development with incomplete penetrance. A mutation screen in this work resulted in the observation that a secondary mutation in KRas or LKB1 is necessary for tumour formation in the c-Myc single transgenic animals and suggested metastasis as an early event, since the corresponding metastases of the mutation-prone primary lung tumours were negative for the observed mutations. Furthermore, in this work it was shown that the expression of chicken c-Myc in a non-metastatic NSCLC cell line leads to metastatic clones, showing that c-Myc is sufficient to induce metastasis. Additionally a panel of metastasis markers was identified, that might serve as diagnostic markers in the future.