@phdthesis{Hammer2011,
  author    = {Hammer, Maria},
  title     = {Charge transport in disordered organic and nanocrystalline inorganic semiconductors - Effect of charge carrier density variation},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-55188},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {The charge transport properties of disordered organic and nanocrystalline inorganic semiconductors as well as their combinations have been investigated in regard to the charge carrier density employing field-effect-transistor structures. The results were discussed in the framework of different theoretical models. In organic semiconductors the presence of positional and energetic disorder determines the transport of charges through the respective thin films and interfaces. The electronic disorder is characterized by statistically distributed and localized transport sites which were shown to form a Gaussian density of states. In this electronic environment the charge transport occurs via thermally activated hopping between the localized states and therefore depends on the temperature and the local electric field. Particularly, a dependence of the carrier mobility on the charge carrier concentration is observed due to filling of tail states. Inorganic nanocrystalline semiconductors, however, are expected to present a different electronic structure: Within the volume of a nanocrystallite the semiconductor is assumed to reflect the electronic properties of the crystalline bulk material. However, the outer shell is characterized by a relatively large density of surface states and correspondingly bending of the energy bands, which creates an energetic barrier between the adjacent particles. In a nanocrystalline thin film this characteristic can be rate-limiting for the inter-particle carrier transport as reflected by reduced charge carrier mobility. The effective barrier height can be reduced by controlled doping of the nanocrystals which results in improved majority carrier transfer rates across the barrier. However, doping results in the simultaneous increase of the defect density and consequently to enhanced limitation of the mobility due to charge carrier scattering. In the experiments, thin films of commercially available p- and n-type organic semiconductors (P3HT, and two derivatives of PCBM) were investigated in field-effect transistor structures. Further, sol-gel synthesized n-type nanocrystalline-ZnO (nc-ZnO) with varied doping concentration (agent: aluminum Al\$^{3+}\$) was introduced in order to establish an alternative way of customizing the charge transport properties of the neat material and in combination with the organic polymer semiconductor P3HT.},
  subject      = {Ladungstransport},
  language  = {en}
}
@phdthesis{Frey2011,
  author    = {Frey, Alexander},
  title     = {Spin-Dependent Tunneling and Heterovalent Heterointerface Effects in Diluted Magnetic II-VI Semiconductor Heterostructures},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-78133},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {The contribution of the present thesis consists of three parts. They are centered around investigating certain semiconductor heterointerfaces relevant to spin injection, exploring novel, diluted magnetic single barrier tunneling structures, and further developing diluted magnetic II-VI resonant tunneling diodes.},
  subject      = {Zwei-Sechs-Halbleiter},
  language  = {en}
}
@phdthesis{Gan2011,
  author    = {Gan, Qiang},
  title     = {Investigation on Distinct Roles of Smad Proteins in Mediating Bone Morphogenetic Proteins Signals},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-71127},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {Knochenmorphogenetische Proteine (engl. Bone morphogenetic Proteins, BMPs) sind eine Bestandteil von transforming growth factor-β (TGF-β)-Superfamilie und spielen wichtige Rollen in zahlreichen biologischen Ereignissen in der Entwicklung fast aller mehrzelligen Organismen. Fehlregulierte BMP-Signalweg ist die zugrunde liegenden Ursachen von zahlreichen erblichen und nicht erblichen Krankheiten wie Krebs. Die von BMP induziete breite Palette von biologischen Reaktionen konvergiert auf drei eng verwandten Smad Proteine. Sie vermitteln intrazellul{\"a}re Signale von BMP-Rezeptoren in den Zellkern. Die Spezifit{\"a}t des BMP-Signalwegs wurde intensiv auf der Ebene der Ligand-Rezeptor-Wechselwirkungen erforscht, aber, wie die verschiedenen Smad Proteine die durch BMPs hervorgerufen differenziellen Signale beitragen, bleibt unklar. In dieser Arbeit haben wir die BMP / Smad Signalweg in verschiedenen Aspektenuntersucht. Auf der Suche nach einem geeigneten Fluoreszenz-Reporter im Zebrafisch, verglichen wir verschiedene photo-schaltbaren Proteine und fand EosFP der beste Kandidat f{\"u}r diesen Modellorganismus im Bezug auf seine schnelle Reifung und Fluoreszenz-Intensit{\"a}t. Wir haben durch molekulare Modifizierung geeignete Vektoren erstellt, die Tol2-Transposon basieren trangenesis im Zebrafisch zu erm{\"o}glichen. Damit wurden schließlich transgenzebrafisch-Linien erzeugt. Wir kombinierten Fluoreszenz-Protein-Tagging mit hochaufl{\"o}sender Mikroskopie und untersuchten die Dynamik der Smad-Proteine in Modellsystem Zebrafisch. Es wurde beobachteten, dass Smad5 Kern-Translokation erf{\"a}hrt, als BMP Signalgeber bei Zebrafisch Gastrulation. Wir erkundeten die Beteiligung der Smad Proteine w{\"a}hrend der Myogenese-zu-Osteogenese Umwandlung von C2C12 Zelllinie, die durch BMP4 induziert wurde. Mit siRNA versuchten wir die endogene Smad Proteine niederzuschlagen, wobei die Auswirkungen auf diesen gekoppelten noch unterschiedlichen Verfahren durch quantitative real-time PCR und Terminal-Marker F{\"a}rbung ausgewertet. Wir spekulieren, dass verschiedene Smad-Komplex St{\"o}chiometrie f{\"u}r unterschiedliche durch BMPs hervorgerufe zellul{\"a}re Signale verantwortlich sein k{\"o}nnte.},
  subject      = {Knochen-Morphogenese-Proteine},
  language  = {en}
}
@phdthesis{Hsieh2011,
  author    = {Hsieh, Samuel Yu-Lung},
  title     = {The diversity and ecology of the spider communities of European beech canopy},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-66966},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {Ein wesentliches Ziel {\"o}kologischer Forschung ist es, die Frage zu beantworten, wie Arten koexistieren k{\"o}nnen und die biologische Vielfalt erhalten bleibt. Um zu verstehen, wie dabei Gemeinschaften in unterschiedlichen r{\"a}umlich-zeitlichen Dimensionen interagieren, um die biologische Vielfalt zu erhalten, ist ein umfassendes prozessorientiertes Wissen erforderlich. Demzufolge konzentrierte sich meine Studie im Wesentlichen auf die Biodiversit{\"a}t und die sie beeinflussenden raum-zeitlichen {\"o}kologischen Prozesse. Vergleicht man die {\"A}hnlich- bzw. Un{\"a}hnlichkeit der in verschieden alten Best{\"a}nden lebenden Spinnengemeinschaften der Buchen (Fagus sylvatica L.), dann zeigt sich, dass die {\"a}lteste Baumkohorte offensichtlich einzigartige Ressourcen besitzt, welche die Zusammensetzung der Spinnengemeinschaften deutlich pr{\"a}gen. {\"U}ber das Jahr hin zeigten die Spinnengemeinschaften trotz der jahreszeitlich unterschiedlich {\"o}kologischen Randbedingungen eine sich wiederholende, vorhersehbare Dynamik. Der Vergleich {\"u}ber die Jahre ergab, dass das "Neutrale Modell" und das "Nischen-Modell" gleichzeitig funktionieren k{\"o}nnen. Beide sind notwendig, um die Dynamik der in den Buchenkronen der verschiedenen Altersklassen lebenden Spinnengemeinschaften vollst{\"a}ndig erkl{\"a}ren zu k{\"o}nnen.},
  subject      = {Spinnen},
  language  = {en}
}
@inproceedings{FoerstnerHagedornKoltzenburgetal.2011,
  author    = {F{\"o}rstner, Konrad and Hagedorn, Gregor and Koltzenburg, Claudia and Kubke, Fabiana and Mietchen, Daniel},
  title     = {Collaborative platforms for streamlining workflows in Open Science},
  series = {Proceedings of the 6th Open Knowledge Conference},
  booktitle = {Proceedings of the 6th Open Knowledge Conference},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-101678},
  year      = {2011},
  abstract  = {Despite the internet's dynamic and collaborative nature, scientists continue to produce grant proposals, lab notebooks, data files, conclusions etc. that stay in static formats or are not published online and therefore not always easily accessible to the interested public. Because of limited adoption of tools that seamlessly integrate all aspects of a research project (conception, data generation, data evaluation, peerreviewing and publishing of conclusions), much effort is later spent on reproducing or reformatting individual entities before they can be repurposed independently or as parts of articles. We propose that workflows - performed both individually and collaboratively - could potentially become more efficient if all steps of the research cycle were coherently represented online and the underlying data were formatted, annotated and licensed for reuse. Such a system would accelerate the process of taking projects from conception to publication stages and allow for continuous updating of the data sets and their interpretation as well as their integration into other independent projects. A major advantage of such work ows is the increased transparency, both with respect to the scientific process as to the contribution of each participant. The latter point is important from a perspective of motivation, as it enables the allocation of reputation, which creates incentives for scientists to contribute to projects. Such work ow platforms offering possibilities to fine-tune the accessibility of their content could gradually pave the path from the current static mode of research presentation into a more coherent practice of open science.},
  language  = {en}
}
@phdthesis{Saxena2011,
  author    = {Saxena, Ambrish},
  title     = {Role of the novel protein tyrosine phosphatase AUM for cell adhesion},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-65503},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {Cell adhesion and migration are essential for development and homeostasis. Adhesion to the extracellular matrix occurs at specialized plasma membrane domains where transmembrane adhesion receptors, signaling proteins such as kinases and phosphatases, and a large number of adaptor proteins interact with the cytoskeleton in a tightly regulated and synchronized fashion. Whereas altered cell adhesion and migration are known to be important in cardiovascular disease and malignant tumors, the target proteins and molecular interactions that regulate these complex processes still remain incompletely understood. Whereas numerous kinases are known to regulate cell adhesion dynamics, information about the involved protein phosphatases is still very limited. A newly emerging phosphatase family contains the unconventional active site sequence DXDX(T/V) and belongs to the haloacid dehalogenase (HAD) superfamily of hydrolases. Our laboratory has recently discovered AUM, a novel phosphatase that belongs to this poorly characterized enzyme family. Initial findings pointed toward a potential involvement of AUM in the regulation of cell adhesion to the extracellular matrix. The objective of the present study was to study the potential role of AUM in cell adhesion. We could show that cells stably depleted of AUM are characterized by accelerated adhesion on immobilized fibronectin. To confirm these findings, we used an siRNA-based approach for the acute depletion of AUM and observed a similar phenomenon. Rescue experiments were performed with stably AUM-depleted cells to ensure that the above mentioned effects are indeed AUM specific. We observed that the re-addition of AUM normalizes cellular adhesion kinetics on fibronectin. These results clearly show that AUM exerts important functions in cell-matrix adhesion. To investigate the molecular basis of these effects, we have characterized integrin expression patterns using flow cytometry. Interestingly, fibronectin-stimulated AUM-depleted cells are characterized by an increase in the cell surface expression of conformationally active 1-integrins. Consistent with the important role of 1-integrins in the regulation of RhoA activity, we also observed a specific increase in RhoA-GTP, but not Rac1-GTP-levels during cell adhesion to fibronectin. Consistent with these findings and with the important role of RhoA for focal adhesion maturation, AUM depleted cells showed more elongated and more centripetally oriented focal adhesions as compared to control cells when spread on fibronectin. Taken together, this study has revealed an important role of AUM for cell-matrix adhesion. Our findings strongly suggest that AUM functions as a negative regulator of 1-integrins and RhoA-dependent cytoskeletal dynamics during cell adhesion.},
  subject      = {Proteintyrosinphosphatase},
  language  = {en}
}
@phdthesis{Schlippverh:Woelfel2011,
  author    = {Schlipp [verh.: W{\"o}lfel], Angela},
  title     = {Characterization of anti-beta1-adrenoceptor antibodies with F{\"o}rster resonance energy transfer microscopy},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-67162},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {Dilated cardiomyopathy (DCM) represents an important subgroup of patients suffering from heart failure. The disease is supposed to be associated with autoimmune mechanisms in about one third of the cases. In the latter patients functionally active conformational autoantibodies directed against the second extracellular loop of the β1-adrenergic receptor (AR, β1ECII-aabs) have been detected. Such antibodies chronically stimulate the β1-AR thereby inducing the adrenergic signaling cascade in cardiomyocytes, which, in the long run, contributes to heart failure progression. We analyzed the production of cAMP after aab-mediated β1-AR activation in vitro using a fluorescence resonance energy transfer (FRET) assay. This assay is based on HEK293 cells stably expressing human β1-AR as well as the cAMP-sensor Epac1-camps. The assay showed a concentration-dependent increase in intracellular cAMP upon stimulation with the full agonist (-) isoproterenol. This response was comparable to results obtained in isolated adult murine cardiomyocytes and was partially blockable by a selective β1-AR antagonist. In the same assay poly- and monoclonal anti-β1ECII-abs (induced in different animals) could activate the adrenergic signaling cascade, whereas isotypic control abs had no effect on intracellular cAMP levels. Using the same method, we were able to detect functionally activating aabs in the serum of heart failure patients with ischemic and hypertensive heart disease as well as patients with DCM, but not in sera of healthy control subjects. In patients with DCM we observed an inverse correlation between the stimulatory potential of anti-β1-aabs and left ventricular pump function. To adopt this assay for the detection of functionally activating anti-β1ECII-aabs in clinical routine we attempted to establish an automated large-scale approach. Neither flow cytometry nor FRET detection with a fluorescence plate reader provided an acceptable signal-to-noise ratio. It was possible to detect (-) isoproterenol in a concentration-dependent manner using two different FRET multiwell microscopes. However, due to focus problems large-scale detection of activating anti-β1ECII-abs could not be implemented. Neutralization of anti-β1-aabs with the corresponding epitope-mimicking peptides is a possible therapeutic approach to treat aab-associated autoimmune DCM. Using our FRET assay we could demonstrate a reduction in the stimulatory potential of anti-β1ECII-abs after in vitro incubation with β1ECII-mimicking peptides. Cyclic (and to a lesser extent linear) peptides in 40-fold molar excess acted as efficient ab-scavengers in vitro. Intravenously injected cyclic peptides in a rat model of DCM also neutralized functionally active anti-β1ECII-abs efficiently in vivo. For a detailed analysis of the receptor-epitope targeted by anti-β1ECII-abs we used sequentially alanine-mutated β1ECII-mimicking cyclic peptides. Our data revealed that the disulfide bridge between the cysteine residues C209 and C215 of the human β1-AR appears essential for the formation of the ab-epitope. Substitution of further amino acids relevant for ab-binding in the cyclic scavenger peptide by alanine reduced its affinity to the ab and the receptor-activating potential was blocked less efficiently. In contrast, the non-mutant cyclic peptide almost completely blocked ab-induced receptor activation. Using this ala-scan approach we were able to identify a "NDPK"-epitope as essential for ab binding to the β1ECII. In summary, neutralization of conformational activating anti-β1ECII-(a)abs by cyclic peptides is a plausible therapeutic concept in heart failure that should be further exploited based on the here presented data.},
  subject      = {Adrenerger Rezeptor},
  language  = {en}
}
@phdthesis{Duechs2011,
  author    = {D{\"u}chs, Matthias},
  title     = {Effects of Toll-like receptor agonists on the pathogenesis of atopic asthma in mice},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-66369},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {In the last decades, both the incidence and the severity of asthma have steadily increased. Furthermore, available therapies only treat the symptoms but do not cure the disease. Immune modulation induced by TLR agonists may be a promising novel approach to effectively treat asthma as it targets the underlying immunopathology directly rather than one mediator alone. The aim of this thesis was to investigate if the immunostimulatory properties of Toll-like receptor (TLR) agonists can be utilized to develop novel therapeutic intervention strategies for the treatment of asthma using murine models of allergic inflammation. For this purpose five different TLR agonists were tested in preclinical mouse models of acute and chronic asthma, both in preventive and therapeutic settings. Firstly, TLR-2, 3, 4, 7/8 and 9 agonists were delivered intratracheally at different doses before pulmonary allergen exposure in the asthma model of acute inflammation. TLR9 agonist CpG-containing oligodeoxynucleotides (CpG) > TLR7 agonist Resiquimod (R848) > TLR3 agonists poly(I:C) strongly reduced allergen induced airway eosinophilia and IL-4 levels in a dose-dependent manner. All TLR agonists increased neutrophil numbers, TLR4 agonist lipopolysaccharide (LPS) > TLR2 agonist lipoteichonic acid (LTA) > poly(I:C) > CpG > R848 and, with the exception of R848, the amount of pro-inflammatory cytokines in the airways. Suppressive effects were not dependent upon IFN-γ and IL-10 or associated with increased numbers of regulatory T cells in the airways. All TLR agonists, except LTA, similarly reduced airway eosinophilia and IL-4 levels when applied therapeutically after allergen challenge. These results show that the TLR agonists have different suppressive effects on TH2 responses in the airways which further depend on the dose and the experimental setup in which they were tested. Interestingly, all agonists induced airway neutrophilia, albeit to different degrees, raising the question if TLR ligands are safe for human use when applied directly into the lung. Different TLR agonists are also being developed for human use as adjuvants combined with allergen in specific immunotherapy. Recent clinical data suggest that this may be achieved by induction of allergen-specific TH1 responses. For this reason, the ability of different TLR agonists to induce allergen-specific TH1 and suppress allergen-specific TH2 responses in a preclinical setting was investigated in this thesis. Different doses of the TLR agonists were applied together with allergen, then mice were exposed to allergen aerosol. CpG > LPS >LTA dose-dependently strongly suppressed the development of airway eosinophilia with poly(I:C) and R848 having no effect. The decrease in eosinophilic numbers was associated withincreased neutrophils present in the airways. IL-4 and IL-5 levels in the bronchoalveolar lavage fluid were also decreased when poly(I:C), LPS, and CpG were used. All TLR agonists increased allergen-specific IgG2a, and with the exception of poly(I:C), reduced allergen-specific IgE levels in the serum. Cutaneous anaphylaxis to allergen was completely prevented when LPS or CpG were given as adjuvant. The strongest TH1 responses were induced by CpG and poly(I:C), characterized by the presence of IFN-γ in the bronchoalveolar lavage and the highest allergen-specific IgG2a levels in the serum. This data supports approaches to use TLR9 or TLR4 agonists for human therapy as adjuvant in combination with allergen in novel specific immunotherapy formulations. In the last part of the thesis, it was investigated if TLR activation can also affect the pathology of severe chronic asthma. Therapeutic administration of R848 or CpG reduced features of inflammation and remodeling. Both agonists showed superior effects to dexamethasone, with CpG being more efficient than R848. This result again supports a TLR9-based therapy as a viable option for the treatment of severe chronic asthma which may present a potential alternative for anti-inflammatory therapy with steroids. Taken together, the results of this thesis support the use of TLR agonists to treat asthma. The most favorable efficacy/safety ratio is to be expected from TLR-based therapies combining TLR4 or TLR9 agonists with allergen in specific immunotherapy. In regard to TLR agonist monotherapy, R848 and CpG showed the most promising profiles, CpG particularly in a model of severe chronic asthma. However, since all TLR agonists used in this study also showed pro-inflammatory potential, the safety aspect of such an approach needs to be taken into account.},
  subject      = {Toll-like Rezeptor},
  language  = {en}
}
@phdthesis{Hagedorn2011,
  author    = {Hagedorn, Ina},
  title     = {Novel mechanisms underlying arterial thrombus formation: in vivo studies in (genetically modified) mice},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-85752},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {Thrombus formation at sites of vascular lesions is a dynamic process that requires a defined series of molecular events including the action of platelet adhesion/activation receptors, intracellular signal transduction, cytoskeletal rearrangements and activation of plasma coagulation factors. This process is essential to limit post-traumatic blood loss but may also contribute to acute thrombotic diseases such as myocardial infarction and stroke. With the help of genetically modified mice and the use of specific protein inhibitors and receptordepleting antibodies, the work presented in this thesis identified novel mechanisms underlying thrombus formation in hemostasis and thrombosis. In the first part of the study, it was shown that von Willebrand Factor (vWF) binding to glycoprotein (GP)Iba is critical for the formation of stable pathological thrombi at high shear rates, suggesting GPIba as an attractive pharmacological target for antithrombotic therapy. The subsequent analysis of recently generated phospholipase (PL)D1-deficient mice identified this enzyme, whose role in platelet function had been largely unknown, as a potential target protein downstream of GPIba. This was based on the finding that PLD1- deficient mice displayed severely defective GPIba-dependent thrombus stabilization under high shear conditions in vitro and in vivo without affecting normal hemostasis. The second part of the thesis characterizes the functional relevance of the immunoreceptor tyrosine-based activation motif (ITAM)-bearing collagen receptor GPVI and the recently identified hemITAM-coupled C-type lectin-like receptor 2 (CLEC-2) for in vivo thrombus formation. Genetic- and antibody-induced GPVI deficiency was found to similarly protect mice from arterial vessel occlusion in three different thrombosis models. These results confirmed GPVI as a promising antithrombotic target and revealed that antibody-treatment had no obvious off-target effects on platelet function. Similarly, immunodepletion of CLEC-2 by treating mice with the specific antibody INU1 resulted in markedly impaired thrombus growth and stabilization under flow in vitro and in vivo. Furthermore, it could be demonstrated that double-immunodepletion of GPVI and CLEC-2 resulted in severely decreased arterial thrombus formation accompanied by dramatically prolonged bleeding times. These data revealed an unexpected redundant function of the two receptors for in vivo thrombus formation and might have important implications for the potential development of anti-GPVI and anti-CLEC-2 antithrombotic agents. The third part of the thesis provides the first functional analysis of megakaryocyte- and platelet-specific RhoA knockout mice. RhoA-deficient mice displayed a defined signaling defect in platelet activation, leading to a profound protection from arterial thrombosis andand ischemic brain infarction, but at the same time also strongly increased bleeding times. These findings identified the GTPase as an important player for thrombus formation in hemostasis and thrombosis. Based on the previous proposal that the coagulation factor (F)XII might represent an ideal target for safe antithrombotic therapy without causing bleeding side effects, the last part of this thesis assesses the antithrombotic potential of the newly generated FXIIa inhibitor rHAInfestin- 4. It was found that rHA-Infestin-4 injection into mice resulted in virtually abolished arterial thrombus formation but no change in bleeding times. Moreover, rHA-Infestin-4 was similarly efficient in a murine model of ischemic stroke, suggesting that the inhibitor might be a promising agent for effective and safe therapy of cardio- and cerebrovascular diseases.},
  subject      = {Thrombus},
  language  = {en}
}
@article{WolterEndesfelderLindeetal.2011,
  author    = {Wolter, Steve and Endesfelder, Ulrike and Linde, Sebastian van de and Heilemann, Mike and Sauer, Markus},
  title     = {Measuring localization performance of super-resolution algorithms on very active samples},
  series = {Optics Express},
  journal   = {Optics Express},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-85936},
  year      = {2011},
  abstract  = {Super-resolution fluorescence imaging based on inglemolecule localization relies critically on the availability of efficient processing algorithms to distinguish, identify, and localize emissions of single fluorophores. In multiple current applications, such as threedimensional, time-resolved or cluster imaging, high densities of fluorophore emissions are common. Here, we provide an analytic tool to test the performance and quality of localization microscopy algorithms and demonstrate that common algorithms encounter difficulties for samples with high fluorophore density. We demonstrate that, for typical single-molecule localization microscopy methods such as dSTORM and the commonly used rapidSTORM scheme, computational precision limits the acceptable density of concurrently active fluorophores to 0.6 per square micrometer and that the number of successfully localized fluorophores per frame is limited to 0.2 per square micrometer.},
  language  = {en}
}
@phdthesis{Subota2011,
  author    = {Subota, Ines},
  title     = {Switches in trypanosome differentiation: ALBA proteins acting on post-transcriptional mRNA control},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-85707},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {Trypanosoma brucei is a digenetic eukaryotic parasite that develops in different tissues of a mammalian host and a tsetse fly. It is responsible for sleeping sickness in sub-saharan Africa. The parasite cycle involves more than nine developmental stages that can be clearly distinguished by their general morphology, their metabolism and the relative positioning of their DNA-containing organelles. During their development, trypanosomes remain exclusively extracellular and encounter changing environments with different physico-chemical properties (nutritional availability, viscosity, temperature, etc.). It has been proposed that trypanosomes use their flagellum as a sensing organelle, in agreement with the established role of structurally-related cilia in metazoa and ciliates. Recognition of environmental triggers is presumed to be at the initiation of differentiation events, leading to the parasite stage that is the best suited to the new environment. These changes are achieved by the modification of gene expression programmes, mostly underlying post-transcriptional control of mRNA transcripts. We first demonstrate that the RNA-binding proteins ALBA3/4 are involved in specific differentiation processes during the parasite development in the fly. They are cytosolic and expressed throughout the parasite cycle with the exception of the stages found in the tsetse fly proventriculus, as shown by both immunofluorescence and live cell analysis upon endogenous tagging with YFP. Knock-down of both proteins in the developmental stage preceding these forms leads to striking modifications: cell elongation, cell cycle arrest and relocalization of the nucleus in a posterior position, all typical of processes acting in parasites found in the proventriculus region. When ALBA3 is over-expressed from an exogenous copy during infection, it interferes with the relocalization of the nucleus in proventricular parasites. This is not observed for ALBA4 over-expression that does not visibly impede differentiation. Both ALBA3/4 proteins react to starvation conditions by accumulating in cytoplasmic stress granules together with DHH1, a recognized RNA-binding protein. ALBA3/4 proteins also partially colocalize with granules formed by polyA+ RNA in these conditions. We propose that ALBA are involved in trypanosome differentiation processes where they control a subset of developmentally regulated transcripts. These processes involving ALBA3/4 are likely to result from the specific activation of sensing pathways. In the second part of the thesis, we identify novel flagellar proteins that could act in sensing mechanisms. Several protein candidates were selected from a proteomic analysis of intact flagella performed in the host laboratory. This work validates their flagellar localization with high success (85\% of the proteins examined) and defines multiple different patterns of protein distribution in the flagellum. Two proteins are analyzed during development, one of them showing down-regulation in proventricular stages. The functional analysis of one novel flagellar membrane protein reveals its rapid dynamics within the flagellum but does not yield a visible phenotype in culture. This is coherent with sensory function that might not be needed in stable culture conditions, but could be required in natural conditions during development. In conclusion, this work adds new pieces to the puzzle of identifying molecular switches involved in developmental mRNA control and environmental sensing in trypanosome stages in the tsetse fly.},
  subject      = {Trypanosoma brucei},
  language  = {en}
}
@misc{Knauer2011,
  type      = {Master Thesis},
  author    = {Knauer, Kim},
  title     = {Monitoring ecosystem health of Fynbos remnant vegetation in the City of Cape Town using remote sensing},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-92495},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {Increasing urbanisation is one of the biggest pressures to vegetation in the City of Cape Town. The growth of the city dramatically reduced the area under indigenous Fynbos vegetation, which remains in isolated fragments. These are subject to a number of threats including atmospheric deposition, atypical fire cycles and invasion by exotic plant and animal species. Especially the Port Jackson willow (Acacia saligna) extensively suppresses the indigenous Fynbos vegetation with its rapid growth. The main objective of this study was to investigate indicators for a quick and early prediction of the health of the remaining Fynbos fragments in the City of Cape Town with help of remote sensing. First, the productivity of the vegetation in response to rainfall was determined. For this purpose, the Enhanced Vegetation Index (EVI), derived from Terra MODIS data with a spatial resolution of 250m, and precipitation data of 19 rainfall stations for the period from 2000 till 2008 were used. Within the scope of a flexible regression between the EVI data and the precipitation data, different lags of the vegetation response to rainfall were analysed. Furthermore, residual trends (RESTREND) were calculated, which result from the difference between observed EVI and the one predicted by precipitation. Negative trends may suggest a degradation of the habitats. In addition, the so-called Rain-use Efficiency (RUE) was tested in this context. It is defined as the ratio between net primary production (NPP) - represented by the annual sum of EVI - and the annual rainfall sum. These indicators were analysed for their suitability to determine the health of the indigenous Fynbos vegetation. Furthermore, the degree of dispersal of invasive species especially the Acacia saligna was investigated. With the specific characteristics of the tested indicators and the spectral signature of Acacia saligna, i.e. its unique reflectance over the course of the year, the dispersal was estimated. Since the growth of invasive species dramatically reduces the biodiversity of the fragments, their presence is an important factor for the condition of ecosystem health. This work focused on 11 test sites with an average size of 200ha, distributed over the whole area of the City of Cape Town. Five of these fragments are under conservation and the others shall be protected in the near future, too, which makes them of special interest. In January 2010, fieldwork was undertaken in order to investigate the state and composition of the local vegetation. The results show promising indicators for the assessment of ecosystem health. The coefficients of determination of the EVI-rainfall regression for Fynbos are minor, because the reaction of this vegetation type to rainfall is considerably lower than the one of the invasive species. Thus, a good distinction between indigenous and alien vegetation is possible on the basis of this regression. On the other hand, the RESTREND method, for which the regression forms the basis, is only of limited use, since the significance of these trends is not given for Fynbos vegetation. Furthermore, the RUE has considerable potential for the assessment of ecosystem health in the study area. The Port Jackson willow has an explicitly higher EVI than the Fynbos vegetation and thus its RUE is more efficient for a similar amount of rainfall. However, it has to be used with caution, because local and temporal variability cannot be extinguished in the study area over the rather short MODIS time series. These results display that the interpretation of the indicators has to be conducted differently from the literature, because the element of invasive species was not considered in most of the previous papers. An increase in productivity is not necessarily equivalent with an improvement in health of the fragment, but can indicate a dispersal of Acacia saligna. This shows the general problem of the term 'degradation' which in most publications so far is only measured by productivity and other factors like invasive species are disregarded. On the basis of the EVI-rainfall regression and statistical measures of the EVI, the distribution of invasive species could be delineated. Generally, a strong invasion of the Port Jackson willow was discovered on the test sites. The results display that a reasoned and sustainable management of the fragments is essential in order to prevent the suppression of the indigenous Fynbos vegetation by Acacia saligna. For this purpose, remote sensing can give an indication which areas changed so that specific field surveys can be undertaken and subsequent management measures can be determined.},
  subject      = {remote sensing},
  language  = {en}
}
@phdthesis{Stieb2011,
  author    = {Stieb, Sara Mae},
  title     = {Synaptic plasticity in visual and olfactory brain centers of the desert ant Cataglyphis},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-85584},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {W{\"u}stenameisen der Gattung Cataglyphis wurden zu Modellsystemen bei der Erforschung der Navigationsmechanismen der Insekten. Ein altersabh{\"a}ngiger Polyethismus trennt deren Kolonien in Innendienst-Arbeiterinnen und kurzlebige lichtausgesetzte Fourageure. Nachdem die Ameisen in strukturlosem oder strukturiertem Gel{\"a}nde bis zu mehrere hundert Meter weite Distanzen zur{\"u}ckgelegt haben, k{\"o}nnen sie pr{\"a}zise zu ihrer oft unauff{\"a}lligen Nest{\"o}ffnung zur{\"u}ckzukehren. Um diese enorme Navigationsleistung zu vollbringen, bedienen sich die Ameisen der sogenannten Pfadintegration, welche die Informationen aus einem Polarisationskompass und einem Entfernungsmesser verrechnet; des Weiteren orientieren sie sich an Landmarken und nutzen olfaktorische Signale. Im Fokus dieser Arbeit steht C. fortis, welche in Salzpfannen des westlichen Nordafrikas endemisch ist - einem Gebiet, welches vollst{\"a}ndig von anderen Cataglyphis Arten gemieden wird. Die Tatsache, dass Cataglyphis eine hohe Verhaltensflexibilit{\"a}t aufweist, welche mit sich drastisch {\"a}ndernden sensorischen Anforderungen verbunden ist, macht diese Ameisen zu besonders interessanten Studienobjekten bei der Erforschung synaptischer Plastizit{\"a}t visueller und olfaktorischer Gehirnzentren. Diese Arbeit fokussiert auf plastische {\"A}nderungen in den Pilzk{\"o}rpern (PK) - sensorischen Integrationszentren, die mutmaßlich an Lern- und Erinnerungsprozessen, und auch vermutlich am Prozess des Landmarkenlernens beteiligt sind - und auf plastische {\"A}nderungen in den synaptischen Komplexen des Lateralen Akzessorischen Lobus (LAL) - einer bekannten Relaisstation in der Polarisations-Leitungsbahn. Um die strukturelle synaptische Plastizit{\"a}t der PK in C. fortis zu quantifizieren, wurden mithilfe immunozytochemischer F{\"a}rbungen die pr{\"a}- und postsynaptischen Profile klar ausgepr{\"a}gter synaptischer Komplexe (Mikroglomeruli, MG) der visuellen Region (Kragen) und der olfaktorischen Region (Lippe) der PK-Kelche visualisiert. Die Ergebnisse legen dar, dass eine Volumenzunahme der PK-Kelche w{\"a}hrend des {\"U}bergangs von Innendiensttieren zu Fourageuren von einer Abnahme der MG-Anzahl im Kragen und, mit einem geringeren Anteil, in der Lippe - dieser Effekt wird als Pruning bezeichnet - und einem gleichzeitigen Auswachsen an Dendriten PK-intrinsischer Kenyonzellen begleitet wird. Im Dunkeln gehaltene Tiere unterschiedlichen Alters zeigen nach Lichtaussetzung den gleichen Effekt und im Dunkel gehaltene, den Fourageuren altersm{\"a}ßig angepasste Tiere weisen eine vergleichbare MG-Anzahl im Kragen auf wie Innendiensttiere. Diese Ergebnisse deuten darauf hin, dass die immense strukturelle synaptische Plastizit{\"a}t in der Kragenregion der PK-Kelche haupts{\"a}chlich durch visuelle Erfahrungen ausgel{\"o}st wird und nicht ausschließlich mit Hilfe eines internen Programms abgespielt wird. Ameisen, welche unter Laborbedingungen bis zu einem Jahr alt wurden, zeigen eine vergleichbare Plastizit{\"a}t. Dies deutet darauf hin, dass das System {\"u}ber die ganze Lebensspanne eines Individuums flexibel bleibt. Erfahrene Fourageure wurden in Dunkelheit zur{\"u}ckgef{\"u}hrt, um zu untersuchen, ob die lichtausgel{\"o}ste synaptische Umstrukturierung reversibel ist, doch ihre PK zeigen nur einige die Zur{\"u}ckf{\"u}hrung widerspiegelnde Plastizit{\"a}tsauspr{\"a}gungen, besonders eine {\"A}nderung der pr{\"a}synaptischen Synapsinexprimierung. Mithilfe immunozytochemischer F{\"a}rbungen, konfokaler Mikroskopie und 3D-Rekonstruktionen wurden die pr{\"a}- und postsynaptischen Strukturen synaptischer Komplexe des LAL in C. fortis analysiert und potentielle strukturelle {\"A}nderungen bei Innendiensttieren und Fourageuren quantifiziert. Die Ergebnisse zeigen, dass diese Komplexe aus postsynaptischen, in einer zentralen Region angeordneten Forts{\"a}tzen bestehen, welche umringt sind von einem pr{\"a}synaptischen kelchartigen Profil. Eingehende und ausgehende Trakte wurden durch Farbstoffinjektionen identifiziert: Projektionsneurone des Anterioren Optischen Tuberkels kontaktieren Neurone, welche in den Zentralkomplex ziehen. Der Verhaltens{\"u}bergang wird von einer Zunahme an synaptischen Komplexen um ~13\% begleitet. Dieser Zuwachs suggeriert eine Art Kalibrierungsprozess in diesen potentiell kr{\"a}ftigen synaptischen Kontakten, welche vermutlich eine schnelle und belastbare Signal{\"u}bertragung in der Polarisationsbahn liefern. Die Analyse von im Freiland aufgenommener Verhaltenweisen von C. fortis enth{\"u}llen, dass die Ameisen, bevor sie mit ihrer Fouragiert{\"a}tigkeit anfangen, bis zu zwei Tage lang in unmittelbarer N{\"a}he des Nestes Entdeckungsl{\"a}ufe unternehmen, welche Pirouetten {\"a}hnliche Drehungen beinhalten. W{\"a}hrend dieser Entdeckungsl{\"a}ufe sammeln die Ameisen Lichterfahrung und assoziieren m{\"o}glicherweise den Nesteingang mit spezifischen Landmarken oder werden anderen visuellen Informationen, wie denen des Polarisationsmusters, ausgesetzt und adaptieren begleitend ihre neuronalen Netzwerke an die bevorstehende Herausforderung. Dar{\"u}ber hinaus k{\"o}nnten die Pirouetten einer Stimulation der an der Polarisationsbahn beteiligten neuronalen Netzwerke dienen. Videoanalysen legen dar, dass Lichtaussetzung nach drei Tagen die Bewegungsaktivit{\"a}t der Ameisen heraufsetzt. Die Tatsache, dass die neuronale Umstrukturierung in visuellen Zentren wie auch die Ver{\"a}nderungen im Verhalten im selben Zeitrahmen ablaufen, deutet darauf hin, dass ein Zusammenhang zwischen struktureller synaptischer Plastizit{\"a}t und dem Verhaltens{\"u}bergang von der Innendienst- zur Fouragierphase bestehen k{\"o}nnte. Cataglyphis besitzen hervorragende visuelle Navigationsf{\"a}higkeiten, doch sie nutzen zudem olfaktorische Signale, um das Nest oder die Futterquelle aufzusp{\"u}ren. Mithilfe konfokaler Mikroskopie und 3D-Rekonstruktionen wurden potentielle Anpassungen der prim{\"a}ren olfaktorischen Gehirnzentren untersucht, indem die Anzahl, Gr{\"o}ße und r{\"a}umliche Anordnung olfaktorischer Glomeruli im Antennallobus von C. fortis, C. albicans, C. bicolor, C. rubra, und C. noda verglichen wurde. Arbeiterinnen aller Cataglyphis-Arten haben eine geringere Glomeruli-Anzahl im Vergleich zu denen der mehr olfaktorisch-orientierten Formica Arten - einer Gattung nah verwandt mit Cataglyphis - und denen schon bekannter olfaktorisch-orientierter Ameisenarten. C. fortis hat die geringste Anzahl an Glomeruli im Vergleich zu allen anderen Cataglyphis-Arten und besitzt einen vergr{\"o}ßerten Glomerulus, der nahe dem Eingang des Antennennerves lokalisiert ist. C. fortis M{\"a}nnchen besitzen eine signifikant geringere Glomeruli-Anzahl im Vergleich zu Arbeiterinnen und K{\"o}niginnen und haben einen hervorstechenden M{\"a}nnchen-spezifischen Makroglomerulus, welcher wahrscheinlich an der Pheromon-Kommunikation beteiligt ist. Die Verhaltensrelevanz des vergr{\"o}ßerten Glomerulus der Arbeiterinnen bleibt schwer fassbar. Die Tatsache, dass C. fortis Mikrohabitate bewohnt, welche von allen anderen Cataglyphis Arten gemieden werden, legt nahe, dass extreme {\"o}kologische Bedingungen nicht nur zu Anpassungen der visuellen F{\"a}higkeiten, sondern auch des olfaktorischen Systems gef{\"u}hrt haben. Die vorliegende Arbeit veranschaulicht, dass Cataglyphis ein exzellenter Kandidat ist bei der Erforschung neuronaler Mechanismen, welche Navigationsfunktionalit{\"a}ten zugrundeliegen, und bei der Erforschung neuronaler Plastizit{\"a}t, welche verkn{\"u}pft ist mit der lebenslangen Flexibilit{\"a}t eines individuellen Verhaltensrepertoires.},
  subject      = {Neuroethologie},
  language  = {en}
}
@article{Lin2011,
  author    = {Lin, Hang},
  title     = {The Traditional Confucianism and its Contemporary Relevance},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-68769},
  year      = {2011},
  abstract  = {After a century of its retreat from political and social stages in East Asia, Confucianism eventually found its revival together with the economic industrialization in the region. The awakening consciousness of the traditional Confucian values leads to a reconsideration of their implication on a modern society. Despite the criticism on the actual relevance of Confucianism and modernization, there are precious elements within the Confucian values which provide the relevance of Confucianism to the future, such as an ethic of responsibility and the understanding of the humanistic meaning of life.},
  subject      = {Ostasien},
  language  = {en}
}
@article{CeteciXuCetecietal.2011,
  author    = {Ceteci, Fatih and Xu, Jiajia and Ceteci, Semra and Zanucco, Emanuele and Thakur, Chitra and Rapp, Ulf R.},
  title     = {Conditional Expression of Oncogenic C-RAF in Mouse Pulmonary Epithelial Cells Reveals Differential Tumorigenesis and Induction of Autophagy Leading to Tumor Regression},
  series = {Neoplasia},
  volume    = {13},
  journal   = {Neoplasia},
  number    = {11},
  doi       = {10.1593/neo.11652},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-134347},
  pages     = {1005-1018},
  year      = {2011},
  abstract  = {Here we describe a novel conditional mouse lung tumor model for investigation of the pathogenesis of human lung cancer. On the basis of the frequent involvement of the Ras-RAF-MEK-ERK signaling pathway in human non-small cell lung carcinoma (NSCLC), we have explored the target cell availability, reversibility, and cell type specificity of transformation by oncogenic C-RAF. Targeting expression to alveolar type II cells or to Clara cells, the two likely precursors of human NSCLC, revealed differential tumorigenicity between these cells. Whereas expression of oncogenic C-RAF in alveolar type II cells readily induced multifocal macroscopic lung tumors independent of the developmental state, few tumors with type II pneumocytes features and incomplete penetrance were found when targeted to Clara cells. Induced tumors did not progress and were strictly dependent on the initiating oncogene. Deinduction of mice resulted in tumor regression due to autophagy rather than apoptosis. Induction of autophagic cell death in regressing lung tumors suggests the use of autophagy enhancers as a treatment choice for patients with NSCLC.},
  language  = {en}
}