TY - JOUR A1 - Abda, Ebrahim M. A1 - Krysciak, Dagmar A1 - Krohn-Molt, Ines A1 - Mamat, Uwe A1 - Schmeisser, Christel A1 - Förstner, Konrad U. A1 - Schaible, Ulrich E. A1 - Kohi, Thomas A. A1 - Nieman, Stefan A1 - Streit, Wolfgang R. T1 - Phenotypic Heterogeneity Affects Stenotrophomonas maltophilia K279a Colony Morphotypes and \(\beta\)-Lactamase Expression JF - Frontiers in Microbiology N2 - Phenotypic heterogeneity at the cellular level in response to various stresses, e.g., antibiotic treatment has been reported for a number of bacteria. In a clonal population, cell-to-cell variation may result in phenotypic heterogeneity that is a mechanism to survive changing environments including antibiotic therapy. Stenotrophomonas rnaltophilia has been frequently isolated from cystic fibrosis patients, can cause numerous infections in other organs and tissues, and is difficult to treat due to antibiotic resistances. S. maltophilia K279a produces the Li and L2 beta-lactamases in response to beta-lactam treatment. Here we report that the patient isolate S. rnaltophilia K279a diverges into cellular subpopulations with distinct but reversible morphotypes of small and big colonies when challenged with ampicillin. This observation is consistent with the formation of elongated chains of bacteria during exponential growth phase and the occurrence of mainly rod-shaped cells in liquid media. RNA-seq analysis of small versus big colonies revealed differential regulation of at least seven genes among the colony morphotypes. Among those, bleu and bla(L2) were transcriptionally the most strongly upregulated genes. Promoter fusions of b/a(L1) and b/a(L2) genes indicated that expression of both genes is also subject to high levels of phenotypic heterogeneous expression on a single cell level. Additionally, the comE homolog was found to be differentially expressed in homogenously versus heterogeneously bla(L2) expressing cells as identified by RNA(seq) analysis. Overexpression of cornE in S. maltophilia K279a reduced the level of cells that were in a bla(L2)-ON mode to 1% or lower. Taken together, our data provide strong evidence that S. maltophilia K279a populations develop phenotypic heterogeneity in an ampicillin challenged model. This cellular variability is triggered by regulation networks including b/a(L1), b/a(L2), and comE. KW - xanthomonas maltophilia KW - gram-negative bacteria KW - RNA-seq KW - pseudomas aeruginosa KW - antibiotic resistance KW - colony morphotypes KW - beta-lactamases KW - K279a KW - Stenotrophomonas maltophilia KW - phenotypic heterogeneity KW - persister cells KW - streptococcus pneumoniae KW - nosocomial pathogen KW - membrane vesicles KW - sinorhizobium fredii NGR234 KW - red fluorescent protein KW - escherichia coli Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-136446 VL - 6 IS - 1373 ER - TY - JOUR A1 - Adelfinger, Marion A1 - Bessler, Simon A1 - Cecil, Alexander A1 - Langbein-Laugwitz, Johanna A1 - Frentzen, Alexa A1 - Gentschev, Ivaylo A1 - Szalay, Aladar A. T1 - Preclinical Testing Oncolytic Vaccinia Virus Strain GLV-5b451 Expressing an Anti-VEGF Single-Chain Antibody for Canine Cancer Therapy JF - Viruses N2 - Virotherapy on the basis of oncolytic vaccinia virus (VACV) strains is a novel approach for canine cancer therapy. Here we describe, for the first time, the characterization and the use of VACV strain GLV-5b451 expressing the anti-vascular endothelial growth factor (VEGF) single-chain antibody (scAb) GLAF-2 as therapeutic agent against different canine cancers. Cell culture data demonstrated that GLV-5b451 efficiently infected and destroyed all four tested canine cancer cell lines including: mammary carcinoma (MTH52c), mammary adenoma (ZMTH3), prostate carcinoma (CT1258), and soft tissue sarcoma (STSA-1). The GLV-5b451 virus-mediated production of GLAF-2 antibody was observed in all four cancer cell lines. In addition, this antibody specifically recognized canine VEGF. Finally, in canine soft tissue sarcoma (CSTS) xenografted mice, a single systemic administration of GLV-5b451 was found to be safe and led to anti-tumor effects resulting in the significant reduction and substantial long-term inhibition of tumor growth. A CD31-based immuno-staining showed significantly decreased neo-angiogenesis in GLV-5b451-treated tumors compared to the controls. In summary, these findings indicate that GLV-5b451 has potential for use as a therapeutic agent in the treatment of CSTS. KW - canine cancer therapy KW - canine soft tissue sarcoma (CSTS) KW - oncolytic virus KW - cancer KW - canine cancer cell lines KW - antibody production KW - angiogenesis Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-125705 VL - 7 ER - TY - JOUR A1 - Adolfi, Mateus C. A1 - Carreira, Ana C. O. A1 - Jesus, Lázaro W. O. A1 - Bogerd, Jan A1 - Funes, Rejane M. A1 - Schartl, Manfred A1 - Sogayar, Mari C. A1 - Borella, Maria I. T1 - Molecular cloning and expression analysis of dmrt1 and sox9 during gonad development and male reproductive cycle in the lambari fish, Astyanax altiparanae JF - Reproductive Biology and Endocrinology N2 - Background The dmrt1 and sox9 genes have a well conserved function related to testis formation in vertebrates, and the group of fish presents a great diversity of species and reproductive mechanisms. The lambari fish (Astyanax altiparanae) is an important Neotropical species, where studies on molecular level of sex determination and gonad maturation are scarce. Methods Here, we employed molecular cloning techniques to analyze the cDNA sequences of the dmrt1 and sox9 genes, and describe the expression pattern of those genes during development and the male reproductive cycle by qRT-PCR, and related to histology of the gonad. Results Phylogenetic analyses of predicted amino acid sequences of dmrt1 and sox9 clustered A. altiparanae in the Ostariophysi group, which is consistent with the morphological phylogeny of this species. Studies of the gonad development revealed that ovary formation occurred at 58 days after hatching (dah), 2 weeks earlier than testis formation. Expression studies of sox9 and dmrt1 in different tissues of adult males and females and during development revealed specific expression in the testis, indicating that both genes also have a male-specific role in the adult. During the period of gonad sex differentiation, dmrt1 seems to have a more significant role than sox9. During the male reproductive cycle dmrt1 and sox9 are down-regulated after spermiation, indicating a role of these genes in spermatogenesis. Conclusions For the first time the dmrt1 and sox9 were cloned in a Characiformes species. We show that both genes have a conserved structure and expression, evidencing their role in sex determination, sex differentiation and the male reproductive cycle in A. altiparanae. These findings contribute to a better understanding of the molecular mechanisms of sex determination and differentiation in fish. KW - spermatogenesis KW - SOX9 KW - DMRT1 KW - sex differentiation KW - teleostei Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-126486 VL - 13 IS - 2 ER - TY - JOUR A1 - Afonso-Grunz, Fabian A1 - Hoffmeier, Klaus A1 - Müller, Sören A1 - Westermann, Alexander J. A1 - Rotter, Björn A1 - Vogel, Jörg A1 - Winter, Peter A1 - Kahl, Günter T1 - Dual 3'Seq using deepSuperSAGE uncovers transcriptomes of interacting Salmonella enterica Typhimurium and human host cells JF - BMC Genomics N2 - Background: The interaction of eukaryotic host and prokaryotic pathogen cells is linked to specific changes in the cellular proteome, and consequently to infection-related gene expression patterns of the involved cells. To simultaneously assess the transcriptomes of both organisms during their interaction we developed dual 3'Seq, a tag-based sequencing protocol that allows for exact quantification of differentially expressed transcripts in interacting pro-and eukaryotic cells without prior fixation or physical disruption of the interaction. Results: Human epithelial cells were infected with Salmonella enterica Typhimurium as a model system for invasion of the intestinal epithelium, and the transcriptional response of the infected host cells together with the differential expression of invading and intracellular pathogen cells was determined by dual 3'Seq coupled with the next-generation sequencing-based transcriptome profiling technique deepSuperSAGE (deep Serial Analysis of Gene Expression). Annotation to reference transcriptomes comprising the operon structure of the employed S. enterica Typhimurium strain allowed for in silico separation of the interacting cells including quantification of polycistronic RNAs. Eighty-nine percent of the known loci are found to be transcribed in prokaryotic cells prior or subsequent to infection of the host, while 75% of all protein-coding loci are represented in the polyadenylated transcriptomes of human host cells. Conclusions: Dual 3'Seq was alternatively coupled to MACE (Massive Analysis of cDNA ends) to assess the advantages and drawbacks of a library preparation procedure that allows for sequencing of longer fragments. Additionally, the identified expression patterns of both organisms were validated by qRT-PCR using three independent biological replicates, which confirmed that RELB along with NFKB1 and NFKB2 are involved in the initial immune response of epithelial cells after infection with S. enterica Typhimurium. KW - complete genome sequence KW - secretion systems KW - RNA-Seq KW - deepSuperSAGE KW - transcriptome KW - gene expression KW - serovar Typhimurium KW - human macrophages KW - epithelial cells KW - infection KW - SuperSAGE KW - receptors KW - Dual 3'seq KW - MACE KW - tag based KW - simultaneous KW - genome wide KW - gene expression profiling KW - host pathogen interaction KW - Salmonella enterica Typhimurium strain SL1344 Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-143230 VL - 16 IS - 323 ER - TY - JOUR A1 - Alavipanah, Sadroddin A1 - Wegmann, Martin A1 - Qureshi, Salman A1 - Weng, Qihao A1 - Koellner, Thomas T1 - The role of vegetation in mitigating urban land surface temperatures: a case study of Munich, Germany during the warm season JF - Sustainability N2 - The Urban Heat Island (UHI) is the phenomenon of altered increased temperatures in urban areas compared to their rural surroundings. UHIs grow and intensify under extreme hot periods, such as during heat waves, which can affect human health and also increase the demand for energy for cooling. This study applies remote sensing and land use/land cover (LULC) data to assess the cooling effect of varying urban vegetation cover, especially during extreme warm periods, in the city of Munich, Germany. To compute the relationship between Land Surface Temperature (LST) and Land Use Land Cover (LULC), MODIS eight-day interval LST data for the months of June, July and August from 2002 to 2012 and the Corine Land Cover (CLC) database were used. Due to similarities in the behavior of surface temperature of different CLCs, some classes were reclassified and combined to form two major, rather simplified, homogenized classes: one of built-up area and one of urban vegetation. The homogenized map was merged with the MODIS eight-day interval LST data to compute the relationship between them. The results revealed that (i) the cooling effect accrued from urban vegetation tended to be non-linear; and (ii) a remarkable and stronger cooling effect in terms of LST was identified in regions where the proportion of vegetation cover was between seventy and almost eighty percent per square kilometer. The results also demonstrated that LST within urban vegetation was affected by the temperature of the surrounding built-up and that during the well-known European 2003 heat wave, suburb areas were cooler from the core of the urbanized region. This study concluded that the optimum green space for obtaining the lowest temperature is a non-linear trend. This could support urban planning strategies to facilitate appropriate applications to mitigate heat-stress in urban area. KW - Surface Urban Heat Island (SUHI) KW - cities KW - buildings KW - Land Surface Temperature (LST) KW - urban vegetation KW - climate change KW - heat waves Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-143447 VL - 7 ER - TY - CHAP A1 - Ali, Qasim A1 - Montenegro, Sergio T1 - A Simple Approach to Quadrocopter Formation Flying Test Setup for Education and Development T2 - INTED2015 Proceedings N2 - A simple test setup has been developed at Institute of Aerospace Information Technology, University of Würzburg, Germany to realize basic functionalities for formation flight of quadrocopters. The test environment is planned to be utilized for developing and validating the algorithms for formation flying capability in real environment as well as for education purpose. An already existing test bed for single quadrocopter was extended with necessary inter-communication and distributed control mechanism to test the algorithms for formation flights in 2 degrees of freedom (roll / pitch). This study encompasses the domain of communication, control engineering and embedded systems programming. Bluetooth protocol has been used for inter-communication between two quadrocopters. A simple approach of PID control in combination with Kalman filter has been exploited. MATLAB Instrument Control Toolbox has been used for data display, plotting and analysis. Plots can be drawn in real-time and received information can also be stored in the form of files for later use and analysis. The test setup has been developed indigenously and at considerably low cost. Emphasis has been placed on simplicity to facilitate students learning process. Several lessons have been learnt during the course of development of this setup. Proposed setup is quite flexible that can be modified as per changing requirements. KW - Flugkörper KW - Design and Development KW - Formation Flight KW - Instrument Control Toolbox KW - Quadrocopter KW - Unmanned Aerial Vehicle KW - Quadrocopter Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-114495 SN - 978-84-606-5763-7 SN - 2340-1079 SP - 2776 EP - 2784 PB - International Academy of Technology, Education and Development (IATED) ER - TY - JOUR A1 - Alizadehrad, Davod A1 - Krüger, Timothy A1 - Engstler, Markus A1 - Stark, Holger T1 - Simulating the complex cell design of Trypanosoma brucei and its motility JF - PLOS Computational Biology N2 - The flagellate Trypanosoma brucei, which causes the sleeping sickness when infecting a mammalian host, goes through an intricate life cycle. It has a rather complex propulsion mechanism and swims in diverse microenvironments. These continuously exert selective pressure, to which the trypanosome adjusts with its architecture and behavior. As a result, the trypanosome assumes a diversity of complex morphotypes during its life cycle. However, although cell biology has detailed form and function of most of them, experimental data on the dynamic behavior and development of most morphotypes is lacking. Here we show that simulation science can predict intermediate cell designs by conducting specific and controlled modifications of an accurate, nature-inspired cell model, which we developed using information from live cell analyses. The cell models account for several important characteristics of the real trypanosomal morphotypes, such as the geometry and elastic properties of the cell body, and their swimming mechanism using an eukaryotic flagellum. We introduce an elastic network model for the cell body, including bending rigidity and simulate swimming in a fluid environment, using the mesoscale simulation technique called multi-particle collision dynamics. The in silico trypanosome of the bloodstream form displays the characteristic in vivo rotational and translational motility pattern that is crucial for survival and virulence in the vertebrate host. Moreover, our model accurately simulates the trypanosome's tumbling and backward motion. We show that the distinctive course of the attached flagellum around the cell body is one important aspect to produce the observed swimming behavior in a viscous fluid, and also required to reach the maximal swimming velocity. Changing details of the flagellar attachment generates less efficient swimmers. We also simulate different morphotypes that occur during the parasite's development in the tsetse fly, and predict a flagellar course we have not been able to measure in experiments so far. KW - multiparticle collision dynamics KW - human african trypanosomiasis KW - biology KW - cytoskeleton KW - flow KW - flagellar motility KW - tsetse fly KW - propulsion KW - cytokinesis KW - parasites Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-144610 VL - 11 IS - 1 ER - TY - THES A1 - Ames, Christopher T1 - Molecular Beam Epitaxy of 2D and 3D HgTe, a Topological Insulator T1 - Molekularstrahlepitaxie von 2D und 3D HgTe, ein topologischer Isolator N2 - In the present thesis the MBE growth and sample characterization of HgTe structures is investigated and discussed. Due to the first experimental discovery of the quantum Spin Hall effect (QSHE) in HgTe quantum wells, this material system attains a huge interest in the spintronics society. Because of the long history of growing Hg-based heterostructures here at the Experimentelle Physik III in Würzburg, there are very good requirements to analyze this material system more precisely and in new directions. Since in former days only doped HgTe quantum wells were grown, this thesis deals with the MBE growth in the (001) direction of undoped HgTe quantum wells, surface located quantum wells and three dimensional bulk layers. All Hg-based layers were grown on CdTe substrates which generate strain in the layer stack and provide therefore new physical effects. In the same time, the (001) CdTe growth was investigated on n-doped (001) GaAs:Si because the Japanese supplier of CdTe substrates had a supply bottleneck due to the Tohoku earthquake and its aftermath in 2011. After a short introduction of the material system, the experimental techniques were demonstrated and explained explicitly. After that, the experimental part of this thesis is displayed. So, the investigation of the (001) CdTe growth on (001) GaAs:Si is discussed in chapter 4. Firstly, the surface preparation of GaAs:Si by oxide desorption is explored and analyzed. Here, rapid thermal desorption of the GaAs oxide with following cool down in Zn atmosphere provides the best results for the CdTe due to small holes at the surface, while e.g. an atomic flat GaAs buffer deteriorates the CdTe growth quality. The following ZnTe layer supplies the (001) growth direction of the CdTe and exhibits best end results of the CdTe for 30 seconds growth time at a flux ratio of Zn/Te ~ 1/1.2. Without this ZnTe layer, CdTe will grow in the (111) direction. However, the main investigation is here the optimization of the MBE growth of CdTe. The substrate temperature, Cd/Te flux ratio and the growth time has to be adjusted systematically. Therefore, a complex growth process is developed and established. This optimized CdTe growth process results in a RMS roughness of around 2.5 nm and a FWHM value of the HRXRD w-scan of 150 arcsec. Compared to the literature, there is no lower FWHM value traceable for this growth direction. Furthermore, etch pit density measurements show that the surface crystallinity is matchable with the commercial CdTe substrates (around 1x10^4 cm^(-2)). However, this whole process is not completely perfect and offers still room for improvements. The growth of undoped HgTe quantum wells was also a new direction in research in contrast to the previous n-doped grown HgTe quantum wells. Here in chapter 5, the goal of very low carrier densities was achieved and therefore it is now possible to do transport experiments in the n - and p - region by tuning the gate voltage. To achieve this high sample quality, very precise growth of symmetric HgTe QWs and their HRXRD characterization is examined. Here, the quantum well thickness can now determined accurate to under 0.3 nm. Furthermore, the transport analysis of different quantum well thicknesses shows that the carrier density and mobility increase with rising HgTe layer thickness. However, it is found out that the band gap of the HgTe QW closes indirectly at a thickness of 11.6 nm. This is caused by the tensile strained growth on CdTe substrates. Moreover, surface quantum wells are studied. These quantum wells exhibit no or a very thin HgCdTe cap. Though, oxidization and contamination of the surface reduces here the carrier mobility immensely and a HgCdTe layer of around 5 nm provides the pleasing results for transport experiments with superconductors connected to the topological insulator [119]. A completely new achievement is the realization of MBE growth of HgTe quantum wells on CdTe/GaAs:Si substrates. This is attended by the optimization of the CdTe growth on GaAs:Si. It exposes that HgTe quantum wells grown in-situ on optimized CdTe/GaAs:Si show very nice transport data with clear Hall plateaus, SdH oscillations, low carrier densities and carrier mobilities up to 500 000 cm^2/Vs. Furthermore, a new oxide etching process is developed and analyzed which should serve as an alternative to the standard HCl process which generates volcano defects at some time. However, during the testing time the result does not differ in Nomarski, HRXRD, AFM and transport measurements. Here, long-time tests or etching and mounting in nitrogen atmosphere may provide new elaborate results. The main focus of this thesis is on the MBE growth and standard characterization of HgTe bulk layers and is discussed in chapter 6. Due to the tensile strained growth on lattice mismatched CdTe, HgTe bulk opens up a band gap of around 22 meV at the G-point and exhibits therefore its topological surface states. The analysis of surface condition, roughness, crystalline quality, carrier density and mobility via Nomarski, AFM, XPS, HRXRD and transport measurements is therefore included in this work. Layer thickness dependence of carrier density and mobility is identified for bulk layer grown directly on CdTe substrates. So, there is no clear correlation visible between HgTe layer thickness and carrier density or mobility. So, the carrier density is almost constant around 1x10^11 cm^(-2) at 0 V gate voltage. The carrier mobility of these bulk samples however scatters between 5 000 and 60 000 cm^2/Vs almost randomly. Further experiments should be made for a clearer understanding and therefore the avoidance of unusable bad samples.But, other topological insulator materials show much higher carrier densities and lower mobility values. For example, Bi2Se3 exhibits just density values around 1019 cm^(-2) and mobility values clearly below 5000 cm2/Vs. The carrier density however depends much on lithography and surface treatment after growth. Furthermore, the relaxation behavior and critical thickness of HgTe grown on CdTe is determined and is in very good agreement with theoretical prediction (d_c = 155 nm). The embedding of the HgTe bulk layer between HgCdTe layers created a further huge improvement. Similar to the quantum well structures the carrier mobility increases immensely while the carrier density levels at around 1x10^11 cm^(-2) at 0 V gate voltage as well. Additionally, the relaxation behavior and critical thickness of these barrier layers has to be determined. HgCdTe grown on commercial CdTe shows a behavior as predicted except the critical thickness which is slightly higher than expected (d_c = 850 nm). Otherwise, the relaxation of HgCdTe grown on CdTe/GaAs:Si occurs in two parts. The layer is fully strained up to 250 nm. Between 250 nm and 725 nm the HgCdTe film starts to relax randomly up to 10 %. The relaxation behavior for thicknesses larger than 725 nm occurs than linearly to the inverse layer thickness. A explanation is given due to rough interface conditions and crystalline defects of the CdTe/GaAs:Si compared to the commercial CdTe substrate. HRXRD and AFM data support this statement. Another point is that the HgCdTe barriers protect the active HgTe layer and because of the high carrier mobilities the Hall measurements provide new transport data which have to be interpreted more in detail in the future. In addition, HgTe bulk samples show very interesting transport data by gating the sample from the top and the back. It is now possible to manipulate the carrier densities of the top and bottom surface states almost separately. The back gate consisting of the n-doped GaAs substrate and the thick insulating CdTe buffer can tune the carrier density for Delta(n) ~ 3x10^11 cm^(-2). This is sufficient to tune the Fermi energy from the p-type into the n-type region [138]. In this thesis it is shown that strained HgTe bulk layers exhibit superior transport data by embedding between HgCdTe barrier layers. The n-doped GaAs can here serve as a back gate. Furthermore, MBE growth of high crystalline, undoped HgTe quantum wells shows also new and extended transport output. Finally, it is notable that due to the investigated CdTe growth on GaAs the Hg-based heterostructure MBE growth is partially independent from commercial suppliers. N2 - In der vorliegenden Dissertation wurde das MBE-Wachstum von HgTe Strukturen erforscht und die anschließende Probencharakterisierung durchgeführt und diskutiert. Durch die erste experimentelle Entdeckung des Quanten-Spin-Hall-Effekts (QSHE) in HgTe Quantentrögen hat dieses Materialsystem großes Interesse im Gebiet der Spintronics erfahren. Aufgrund der langen Wachstumshistorie von quecksilberbasierenden Heterostrukturen am Lehrstuhl Experimentelle Physik III der Universität Würzburg sind die Voraussetzungen ausgesprochen gut, um dieses Materialsystem sehr ausführlich und auch in neue Richtungen hin zu untersuchen. Da vor dieser Doktorarbeit fast ausschließlich dotierte HgTe Quantentröge auf verschiedenen Substratorientierungen gewachsen wurden, beschäftigte sich diese Dissertation nun mit dem MBE-Wachstum von undotierten HgTe Quantentrögen, oberflächennahen Quantentrögen und dreidimensionalen Volumenkristallen. Alle quecksilberbasierenden Schichten wurden hierzu auf CdTe Substraten gewachsen, welche tensile Verspannung in den Schichten erzeugten und lieferten daher neue physikalische Effekte. In der selben Zeit wurde weiterhin das Wachstum von (001) CdTe auf n-dotiertem (001) GaAs:Si erforscht, da der japanische Zulieferer der CdTe Substrate eine Lieferengpass hatte aufgrund des Tohoku Erdbebens und seinen verheerenden Folgen im Jahr 2011. Die Erforschung des MBE-Wachstums von (001) CdTe auf (001) GaAs:Si wird im Kapitel 4 behandelt. Zuerst wurde hier die Oberflächenvorbereitung des GaAs:Si Substrates durch thermische Desorption untersucht und ausgewertet. Es stellte sich heraus, dass schnelle, thermische Desorption des GaAs - Oxides mit anschließendem Abkühlen in Zn Atmosphäre die besten Ergebnisse für das spätere CdTe durch kleine Löcher an der Oberfläche liefert, während zum Beispiel ein glatter GaAs Puffer das CdTe Wachstum verschlechtert. Der folgende ZnTe Film verschafft die gewünschte (001) Wachstumsrichtung für CdTe und weist bei 30 Sekunden Wachstumszeit bei einem Flussverhältnis von Zn/Te ~ 1/1.2 die besten Endergebnisse für CdTe auf. Jedoch war die Haupterneuerung hier die Optimierung des CdTe Wachstums. Dafür wurde ein komplexer Wachstumsprozess entwickelt und etabliert. Dieser optimierte CdTe Wachstumsprozess lieferte Ergebnisse von einer RMS Rauigkeit von ungefähr 2.5 nm und FWHMWerte der HRXRD w-Scans von 150 arcsec. Die Defektätzdichte-Messung zeigte weiterhin, dass die Oberflächenkristallinität vergleichbar mit kommerziell erwerbbaren CdTe Substraten ist (um 1x10^4 cm^(-2)). Des Weiteren ist kein niedrigerer Wert für die Halbwertsbreite des w-Scans in der Literatur für diese Wachstumsrichtung aufgeführt. Dies spiricht ebenfalls für die hohe Qualität der Schichten. Jedoch ist dieser Wachstumsprozess noch nicht endgültig ausgereift und bietet weiterhin noch Platz für Verbesserungen. Das Wachstum von undotierten HgTe Quantentrögen war ebenso eine neue Forschungsrichtung im Gegensatz zu den dotierten HgTe Quantentrögen, die in der Vergangenheit gewachsen wurden. Das Ziel hierbei, die Ladungsträgerdichte zu verringern, wurde erreicht und daher ist es nun möglich, Transportexperimente sowohl im n- als auch im p-Regime durchzuführen, indem eine Gatespannung angelegt wird. Des Weiteren experimentierten andere Arbeitsgruppen mit diesen Quantentrögen, bei denen die Fermi Energie in der Bandlücke liegt [143]. Außerdem wurde das sehr präzise MBE Wachstum anhand von symmetrischen HgTe Quantentrögen und ihren HRXRD Charakterisierungen behandelt. Daher kann nun die Quantentrogdicke präzise auf 0,3 nm angegeben werden. Die Transportergebnisse von verschieden dicken Quantentrögen zeigten, dass die Ladungsträgerdichte und Beweglichkeit mit steigender HgTe Schichtdicke zunimmt. Jedoch wurde auch herausgefunden, dass sich die Bandlücke von HgTe Quantentrögen indirekt bei einer Dicke von 11.6 nm schließt. Dies wird durch das verspannte Wachstum auf CdTe Substraten verursacht. Überdies wurden oberflächennahe Quantentröge untersucht. Diese Quantentröge besitzen keine oder nur eine sehr dünne HgCdTe Deckschicht. Allerdings verringerte Oxidation und Oberflächenverschmutzung hier die Ladungsträgerbeweglichkeit dramatisch und eine HgCdTe Schicht von ungefähr 5 nm lieferte ansprechende Transportergebnisse für Supraleiter, die den topologischen Isolator kontaktieren. Eine komplett neue Errungenschaft war die Realisierung, via MBE, HgTe Quantentröge auf CdTe/GaAs:Si Substrate zu wachsen. Dies ging einher mit der Optimierung des CdTe Wachstums auf GaAs:Si. Es zeigte sich, dass HgTe Quantentröge, die in-situ auf optimierten CdTe/GaAs:Si gewachsen wurden, sehr schöne Transportergebnisse mit deutlichen Hall Quantisierungen, SdH Oszillationen, niedrigen Ladungsträgerdichten und Beweglichkeiten bis zu 500 000 cm^2/Vs erreichen. Des Weiteren wurde ein neues Oxidätzverfahren entwickelt und untersucht, welches als Alternative zum Standard-HCl-Prozess dienen sollte, da dieses manchmal vulkan-artige Defekte hervorruft. Jedoch ergab sich kein Unterschied in den Nomarski, HRXRD, AFM und Transportexperimenten. Hier könnten vielleicht Langzeittests oder Ätzen und Befestigen in Stickstoffatmosphäre neue, gewinnbringende Ergbnisse aufzeigen. Der Hauptfokus dieser Doktorarbeit lag auf dem MBE Wachstum und der Standardcharakterisierung von HgTe Volumenkristallen und wurde in Kapitel 6 diskutiert. Durch das tensil verpannte Wachstum auf CdTe entsteht für HgTe als Volumenkristall eine Bandlücke von ungefähr 22 meV am G Punkt und zeigt somit seine topologischen Oberflächenzustände. Die Analyse der Oberfächenbeschaffenheit, der Rauigkeit, der kristallinen Qualität, der Ladungsdrägerdichte und Beweglichkeit mit Hilfe von Nomarski, AFM, XPS, HRXRD und Transportmessungen ist in dieser Arbeit anzutreffen. Außerdem wurde die Schichtdickenabhängigkeit von Ladungsträgerdichte und Beweglichkeit von HgTe Volumenkristallen, die direkt auf CdTe Substraten gewachsen wurden, ermittelt worden. So erhöhte sich durchschnittlich die Dichte und Beweglichkeit mit zunehmender HgTe Schichtdicke, aber die Beweglichkeit ging selten über μ ~ 40 000 cm^2/Vs hinaus. Die Ladungsträgerdichte n hing jedoch sehr von der Litographie und der Behandlung der Oberfläche nach dem Wachstum ab. Des Weiteren wurde das Relaxationsverhalten und die kritische Dicke bestimmt, welches sehr gut mit den theoretischen Vorhersagen übereinstimmt (dc = 155 nm). Das Einbetten des HgTe Volumenkristalls in HgCdTe Schichten brachte eine weitere große Verbesserung mit sich. Ähnlich wie bei den Quantentrögen erhörte sich die Beweglichkeit μ immens, während sich die Ladungsträgerdichte bei ungefähr 1x10^11 cm^(-2) einpendelte. Zusätzlich wurde auch hier das Relaxationsverhalten und die kritische Schichtdicke dieser Barrierenschichten ermittelt. HgCdTe, gewachsen auf kommerziellen CdTe Substraten, zeigte ein Verhalten ähnlich zu dem Erwarteten mit der Ausnahme, dass die kritische Schichtdicke leicht höher ist als die Vorhergesagte (dc = 850 nm). Auf der anderen Seite findet die Relaxation von HgCdTe auf CdTe/GaAs:Si zweigeteilt ab. Bis 250 nm ist die Schicht noch voll verspannt. Zwischen 250 nm und 725 nm beginnt die HgCdTe Schicht willkürlich bis zu 10 % zu relaxieren. Das Relaxationsverhalten für Dicken über 725 nm findet dann wieder linear zur invers aufgetragenen Schichtdicke statt. Eine Erklärung wurde durch das raue Interface der Schichten und der Defekte im Kristall von CdTe/GaAs:Si gegeben, im Vergleich zu den kommerziellen CdTe Substraten. HRXRD und AFM Ergebnisse belegten diese Aussage. Die HgCdTe Barrieren schützen die aktive HgTe Schicht und daher liegen nach Hall Messungen aufgrund der hohen Ladungsträgerbeweglichkeiten neue Transportergbnisse vor, welche in der Zukunft ausführlicher interpretiert werden müssen. Darüber hinaus zeigten HgTe Volumenkristalle neue, interessante Transportergebnisse durch das gleichzeitige Benutzen eines Top- und Backgates. Es ist nun möglich, die Ladungsträger der oberen und unteren Oberflächenzustände nahezu getrennt zu verändern und zu ermitteln. Das Backgate, bestehend aus dem n-dotierten GaAs:Si Substrate und dem dicken isolierenden CdTe Puffer, kann die Ladungsträgerdichte um ungefähr Delta(n) ~ 3x10^11 cm^(-2) varieren. Das ist ausreichend, um die Fermi Energie vom p- in den n-Bereich einzustellen [138]. In dieser Dissertation wurde also gezeigt, dass verspannte HgTe Volumenkristalle durch das Einbetten in HgCdTe Barrieren neue Transportergebnisse liefern. Das n-dotierte GaAs konnte hierbei als Backgate genutzt werden. Des Weiteren zeigte das MBE Wachstum von hochkristallinen , undotiereten HgTe Quantentrögen ebenso neue und erweiterte Transportergebnisse. Zuletzt ist es bemerkenswert, dass durch das erforschte CdTe Wachstum auf GaAs das MBE Wachstum von quecksilberbasierenden Heterostrukturen auf CdTe Substraten teilweise unabhänigig ist von kommerziellen Zulieferbetrieben. KW - Quecksilbertellurid KW - Topologischer Isolator KW - MBE KW - HgTe KW - topological insulator KW - Molekularstrahlepitaxie Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-151136 ER - TY - JOUR A1 - Ammar, Mohamed Raafet A1 - Thahouly, Tamou A1 - Hanauer, André A1 - Stegner, David A1 - Nieswandt, Bernhard A1 - Vitale, Nicolas T1 - PLD1 participates in BDNF-induced signalling in cortical neurons JF - Scientific Reports N2 - The brain-derived neurotrophic factor BDNF plays a critical role in neuronal development and the induction of L-LTP at glutamatergic synapses in several brain regions. However, the cellular and molecular mechanisms underlying these BDNF effects have not been firmly established. Using in vitro cultures of cortical neurons from knockout mice for Pld1 and Rsk2, BDNF was observed to induce a rapid RSK2-dependent activation of PLD and to stimulate BDNF ERK1/2-CREB and mTor-S6K signalling pathways, but these effects were greatly reduced in Pld1\(^{-/-}\) neurons. Furthermore, phospho-CREB did not accumulate in the nucleus, whereas overexpression of PLD1 amplified the BDNF-dependent nuclear recruitment of phospho-ERK1/2 and phospho-CREB. This BDNF retrograde signalling was prevented in cells silenced for the scaffolding protein PEA15, a protein which complexes with PLD1, ERK1/2, and RSK2 after BDNF treatment. Finally PLD1, ERK1/2, and RSK2 partially colocalized on endosomal structures, suggesting that these proteins are part of the molecular module responsible for BDNF signalling in cortical neurons. KW - phospholipase D KW - ERK map kinease KW - long-term potentation KW - brain KW - protein RSK2 KW - dendritic growth KW - neurite outgrowth KW - neurotrophic factor KW - coffin-lowry-syndrome KW - phosphatidic acid Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-139962 VL - 5 IS - 14778 ER - TY - JOUR A1 - Andersen, Jens Peter A1 - Bøgsted, Martin A1 - Dybkær, Karen A1 - Mellqvist, Ulf-Henrik A1 - Morgan, Gareth J. A1 - Goldschmidt, Hartmut A1 - Dimopoulos, Meletios A. A1 - Einsele, Hermann A1 - San Miguel, Jesús A1 - Palumbo, Antonio A1 - Sonneveld, Pieter A1 - Johnsen, Hans Erik T1 - Global myeloma research clusters, output, and citations: a bibliometric mapping and clustering analysis JF - PLoS ONE N2 - Background International collaborative research is a mechanism for improving the development of disease-specific therapies and for improving health at the population level. However, limited data are available to assess the trends in research output related to orphan diseases. Methods and Findings We used bibliometric mapping and clustering methods to illustrate the level of fragmentation in myeloma research and the development of collaborative efforts. Publication data from Thomson Reuters Web of Science were retrieved for 2005-2009 and followed until 2013. We created a database of multiple myeloma publications, and we analysed impact and co-authorship density to identify scientific collaborations, developments, and international key players over time. The global annual publication volume for studies on multiple myeloma increased from 1,144 in 2005 to 1,628 in 2009, which represents a 43% increase. This increase is high compared to the 24% and 14% increases observed for lymphoma and leukaemia. The major proportion (> 90% of publications) was from the US and EU over the study period. The output and impact in terms of citations, identified several successful groups with a large number of intra-cluster collaborations in the US and EU. The US-based myeloma clusters clearly stand out as the most productive and highly cited, and the European Myeloma Network members exhibited a doubling of collaborative publications from 2005 to 2009, still increasing up to 2013. Conclusion and Perspective Multiple myeloma research output has increased substantially in the past decade. The fragmented European myeloma research activities based on national or regional groups are progressing, but they require a broad range of targeted research investments to improve multiple myeloma health care. KW - multiparametric flow cytometry KW - multiple myeloma KW - consensus statement KW - European experts KW - disorders KW - therapy KW - network Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-144214 VL - 10 IS - 1 ER - TY - JOUR A1 - Andreatta, Marta A1 - Pauli, Paul T1 - Appetitive vs. aversive conditioning in humans JF - Frontiers in Behavioral Neuroscience N2 - In classical conditioning, an initially neutral stimulus (conditioned stimulus, CS) becomes associated with a biologically salient event (unconditioned stimulus, US), which might be pain (aversive conditioning) or food (appetitive conditioning). After a few associations, the CS is able to initiate either defensive or consummatory responses, respectively. Contrary to aversive conditioning, appetitive conditioning is rarely investigated in humans, although its importance for normal and pathological behaviors (e.g., obesity, addiction) is undeniable. The present study intents to translate animal findings on appetitive conditioning to humans using food as an US. Thirty-three participants were investigated between 8 and 10 am without breakfast in order to assure that they felt hungry. During two acquisition phases, one geometrical shape (avCS+) predicted an aversive US (painful electric shock), another shape (appCS+) predicted an appetitive US (chocolate or salty pretzel according to the participants' preference), and a third shape (CS) predicted neither US. In a extinction phase, these three shapes plus a novel shape (NEW) were presented again without US delivery. Valence and arousal ratings as well as startle and skin conductance (SCR) responses were collected as learning indices. We found successful aversive and appetitive conditioning. On the one hand, the avCS+ was rated as more negative and more arousing than the CS and induced startle potentiation and enhanced SCR. On the other hand, the appCS+ was rated more positive than the CS and induced startle attenuation and larger SCR. In summary, we successfully confirmed animal findings in (hungry) humans by demonstrating appetitive learning and normal aversive learning. KW - extinction KW - attention KW - classical conditioning KW - skin conductance response KW - punishment KW - startle reflex KW - reward KW - fear KW - startle KW - model Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-148614 VL - 9 IS - 128 ER - TY - JOUR A1 - Andronic, Joseph A1 - Shirakashi, Ryo A1 - Pickel, Simone U. A1 - Westerling, Katherine M. A1 - Klein, Teresa A1 - Holm, Thorge A1 - Sauer, Markus A1 - Sukhorukov, Vladimir L. T1 - Hypotonic Activation of the Myo-Inositol Transporter SLC5A3 in HEK293 Cells Probed by Cell Volumetry, Confocal and Super-Resolution Microscopy JF - PLoS One N2 - Swelling-activated pathways for myo-inositol, one of the most abundant organic osmolytes in mammalian cells, have not yet been identified. The present study explores the SLC5A3 protein as a possible transporter of myo-inositol in hyponically swollen HEK293 cells. To address this issue, we examined the relationship between the hypotonicity-induced changes in plasma membrane permeability to myo-inositol Pino [m/s] and expression/localization of SLC5A3. Pino values were determined by cell volumetry over a wide tonicity range (100–275 mOsm) in myo-inositol-substituted solutions. While being negligible under mild hypotonicity (200–275 mOsm), Pino grew rapidly at osmolalities below 200 mOsm to reach a maximum of ∼3 nm/s at 100–125 mOsm, as indicated by fast cell swelling due to myo-inositol influx. The increase in Pino resulted most likely from the hypotonicity-mediated incorporation of cytosolic SLC5A3 into the plasma membrane, as revealed by confocal fluorescence microscopy of cells expressing EGFP-tagged SLC5A3 and super-resolution imaging of immunostained SLC5A3 by direct stochastic optical reconstruction microscopy (dSTORM). dSTORM in hypotonic cells revealed a surface density of membrane-associated SLC5A3 proteins of 200–2000 localizations/μm2. Assuming SLC5A3 to be the major path for myo-inositol, a turnover rate of 80–800 myo-inositol molecules per second for a single transporter protein was estimated from combined volumetric and dSTORM data. Hypotonic stress also caused a significant upregulation of SLC5A3 gene expression as detected by semiquantitative RT-PCR and Western blot analysis. In summary, our data provide first evidence for swelling-mediated activation of SLC5A3 thus suggesting a functional role of this transporter in hypotonic volume regulation of mammalian cells. KW - electrolytes KW - isotonic KW - membrane proteins KW - cell membranes KW - hypotonic KW - hypotonic solutions KW - tonicity KW - permeability Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-126408 VL - 10 IS - 3 ER - TY - THES A1 - Anjana Vaman, Vamadevan Sujatha T1 - LASP1, a newly identified melanocytic protein with a possible role in melanin release, but not in melanoma progression T1 - LASP1, ein neu identifiziertes melanozytischen Protein mit einer möglichen Rolle bei der Freisetzung von Melanin, jedoch nicht in Melanomprogression N2 - LIM and SH3 protein 1 (LASP1) is a nucleocytoplasmic scaffolding protein. LASP1 interacts with various cytoskeletal proteins via its domain structure and is known to participate in physiological processes of cells. In the present study, a detailed investigation of the expression pattern of LASP1 protein in normal skin, melanocytic nevi and melanoma was carried out and the melanocyte–specific function of LASP1 was analyzed. LASP1 protein was identified in stratum basale of skin epidermis and a very high level was detected in nevi, the benign tumor of melanocyte. In the highly proliferative basal cells, an additional distinct nuclear localization of the protein was noted. In different tumor entities, an elevated LASP1 expression and nuclear localization, correlated positively with malignancy and tumor grade. However, LASP1 level was determined to be very low in melanoma and even reduced in metastases. Melanoma is distinguished as the first tumor tested to date – that displayed an absence of elevated LASP1 expression. In addition no significant relation was observed between LASP1 protein expression and clinicopathological parameters in melanoma. The epidermal melanin unit of skin comprises of melanocytes and keratinocytes. Melanocytes are specialized cells that synthesize the photo protective coloring pigment, melanin inside unique organelles called melanosomes. The presence of LASP1 in melanocytes is reported for the first time through this study and the existence was confirmed by immunoblotting analysis in cultured normal human epidermal melanocyte (NHEM) and in melanoma cell lines, along with the immunohistostaining imaging in normal skin and in melanocytic nevi. LASP1 depletion in MaMel2 cells revealed a moderate increase in the intracellular melanin level independently of de novo melanogenesis, pointing to a partial hindrance in melanin release. Immunofluorescence images of NHEM and MaMel2 cells visualized co-localization of LASP1 with dynamin and tyrosinase concomitant with melanosomes at the dendrite tips of the cells. Melanosome isolation experiments by sucrose density gradient centrifugation clearly demonstrated the presence of LASP1 and the melanosome specific markers tyrosinase and TRP1 in late stage melanosomes. The study identified LASP1 and dynamin as novel binding partners in melanocytes and provides first evidence for the existence of LASP1 and dynamin (a protein well–known for its involvement in vesicle formation and budding) in melanosomes. Co-localization of LASP1 and dynamin along the dendrites and at the tips of the melanocytes indicates a potential participation of the two proteins in the membrane vesicle fission at the plasma membrane. In summary, a possible involvement of LASP1 in the actin–dynamin mediated membrane fission and exocytosis of melanin laden melanosome vesicles into the extracellular matrix is suggested. N2 - LIM und SH3 protein 1 (LASP1) ist ein nukleozytoplasmatischen Gerüstprotein. LASP1 interagiert über seine Domänenstruktur mit verschiedenen Zytoskelettproteinen und ist an physiologischen Prozessen wie Migration und Zellproliferation beteiligt. In der vorliegenden Studie wurde eine detaillierte Untersuchung des Expressionsmusters von LASP1 in normale Haut, Nävi und Melanom durchgeführt und die Melanozyten-spezifische Funktion des Proteins analysiert. LASP1 konnte durch immunhistologische Färbungen im Stratum basale der Epidermis und in hoher Konzentration in Nävi (gutartige Tumore der Melanozyten) nachgewiesen werden, während die Expression in Melanom und Metastasen sehr gering ist. Auch wurde kein signifikanter Zusammenhang zwischen der LASP1 Proteinexpression in Melanomen und den klinisch-pathologischen Parametern bei 58 Patienten festgestellt. Dies steht im Gegensatz zu allen bisher getesteten Tumoren (u.a. Brust, HCC und Medulloblastom), bei der eine erhöhte LASP1 Expression in den Tumoren beobachtet wurde, die mit dem Tumorgrad korrelierte. Die hochproliferativen Basalzellen der Epidermis bestehen aus Keratinozyten und Melanozyten und weisen, im Gegensatz zu Nävi und Melanomzellen, eine deutliche Kernlokalisation des LASP1 Proteins auf. Melanozyten sind spezialisierte Zellen, die das UV-Schutzfarbpigment Melanin in einzigartigen Organellen, genannt Melanosomen, synthetisieren. Die Expression von LASP1 in diesen Melanozyten konnte zum ersten Mal in dieser Studie nachgewiesen werden. Immunfluoreszenzaufnahmen und Western Blots mit kultivierten normalen menschlichen epidermalen Melanozyten (NHEM) und Melanom-Zelllinien bestätigen die LASP1 Expression. Funktionelle Experimente mit LASP1 depletierten Zellen zeigen eine erhöhte Melaninkonzentration, die unabhängig von der de novo Melanogenese ist. Immunfluoreszenaufnahmen visualisieren eine Ko-Lokalisation von LASP1 mit Tyrosinase an den Melanosomen in den Zellausläufern von pigmentierten MaMel2 Zellen. Eine Auftrennung der einzelnen Melanosomenstadien durch Saccharose-Dichtegradienten-Zentrifugation erlauben die Detektion von LASP1 mit Dynamin, TRP1 und Tyrosinase in späten Stadium IV Melanosomen. Die vorliegende Studie liefert den ersten Beweis für die Existenz von Dynamin (einem für die Vesikelbildung essentiellem Protein) in Melanosomen und identifiziert Dynamin als neuartigen Bindungspartner von LASP1 in Melanozyten. Die Ko-Lokalisierung LASP1 und Dynamin entlang der Dendriten und in den Spitzen der Melanozyten weist auf eine mögliche Beteiligung beider Proteine an der Melanosomen-Vesikel-Abspaltung an der Plasmamembran hin. Zusammenfassend lässt sich sagen, dass LASP1 an der Actin-Dynamin vermittelten Exocytose von Melanin-beladenen Melanosomvesikeln in die Extrazellulärmatrix beteiligt ist. KW - Melanom KW - Melanin KW - LASP1 KW - melanocytic nevi KW - melanoma cancer KW - Molekularbiologie KW - Melanin release Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-116316 ER - TY - THES A1 - Ansorg, Kay T1 - Development of Accurate Physically Grounded Force Fields for Intermolecular Cation-$\pi$ Interactions based on SAPT Energy Decomposition Analysis and Computational Investigation of Covalent Irreversible Vinyl Sulfone-based Protease Inhibitors T1 - Entwicklung eines akkurat physikalisch basierten Kraftfeldes für Intermolekulare Kation-$\pi$ Wechselwirkungen auf Basis von SAPT Energieanalysen und Untersuchung von kovalent irreversiblem Vinyl Sulfon basierten Protease Inhibitoren N2 - Part 1 of this work describes the development of accurate physically grounded force fields for intermolecular Cation-π interactions based on SAPT energy decomposition analysis. The presented results demonstrate the benefits of the used DFT-SAPT method to describe non-bonding interactions. First of all, this method is able to reproduce the high level CCSD(T) energy values but using much less computational time. Second it provides the possibility to separate the total intermolecular interaction energy into several physically meaningful contributions. The relative contributions of the dimers investigated can be seen in Fig. 6.16. In Tab. 6.3 the percentage contribution of the attractive energy parts to the stabilization energy is shown. The polarization energy is important for the NH+...C6H6 interaction, whereas it becomes less crucial considering other dimers. The dispersion energy contribution is large in the case of the C6H6...H2O dimers, whereas it is relatively less important for the NH+...C6H6 interaction. The electrostatic energy contributes a large amount of stabilizing energy in all considered dimer interactions. ... N2 - In Teil 1 dieser Arbeit wird die Entwicklung eines akkuraten physikalisch fundierten Kraftfeldes für die exakte Beschreibung zwischenmolekularer Cation-π Wechselwir- kungen basierend auf Analysen der SAPT Energieaufspaltungen beschrieben. Die Ergebnisse zeigen die Vorteile der benutzten DFT-SAPT Methode zur Beschreibung von nicht-kovalent gebundenen Wechselwirkungen. Diese Methode ist zum einen in der Lage höchst akkurate CCSD(T) Ergebnisse zu reproduzieren wobei ein sehr viel geringerer computertechnicher Aufwand benötigt wird. Zum anderen ermöglicht es diese Methode die gesamte Wechselwirkungsenergie in einzelne physikalisch sinn- volle Komponenten zu separieren. In Abb. 6.17 sind die Energiekomponenten der untersuchten Dimere graphisch dargestellt. In Tab. 6.4 sind die Anteile der attrak- tiven Energiebeiträge zur Gesamtstabilisierungsenergie prozentual aufgelistet. Die Polarisationsenergie repräsentiert einen entscheidenden Anteil an der NH+...C6H6 Wechselwirkung, wobei diese für die weiteren hier gezeigten Dimere keine entschei- dende Rolle spielt. Die Dispersionsenergie hingegen liefert einen großen Beitrag zur C6H6...H2O Wechselwirkung, ist aber für die NH+...C6H6 Wechselwirkung rela- tiv unbedeutend. Die Elektrostatische Energie liefert in allen untersuchten Dimeren einen entscheidenden Anteil zur Stabilisierungsenergie. ... KW - Kraftfeld KW - Proteaseinhibitor KW - SAPT KW - Force Field KW - Computational Investigation KW - Kraftfeld KW - Theoretische Chemie KW - Theoretische Chemie Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-131084 ER - TY - JOUR A1 - Appel, Mirjam A1 - Scholz, Claus-Jürgen A1 - Müller, Tobias A1 - Dittrich, Marcus A1 - König, Christian A1 - Bockstaller, Marie A1 - Oguz, Tuba A1 - Khalili, Afshin A1 - Antwi-Adjei, Emmanuel A1 - Schauer, Tamas A1 - Margulies, Carla A1 - Tanimoto, Hiromu A1 - Yarali, Ayse T1 - Genome-Wide Association Analyses Point to Candidate Genes for Electric Shock Avoidance in Drosophila melanogaster JF - PLoS ONE N2 - Electric shock is a common stimulus for nociception-research and the most widely used reinforcement in aversive associative learning experiments. Yet, nothing is known about the mechanisms it recruits at the periphery. To help fill this gap, we undertook a genome-wide association analysis using 38 inbred Drosophila melanogaster strains, which avoided shock to varying extents. We identified 514 genes whose expression levels and/or sequences covaried with shock avoidance scores. We independently scrutinized 14 of these genes using mutants, validating the effect of 7 of them on shock avoidance. This emphasizes the value of our candidate gene list as a guide for follow-up research. In addition, by integrating our association results with external protein-protein interaction data we obtained a shock avoidance- associated network of 38 genes. Both this network and the original candidate list contained a substantial number of genes that affect mechanosensory bristles, which are hairlike organs distributed across the fly's body. These results may point to a potential role for mechanosensory bristles in shock sensation. Thus, we not only provide a first list of candidate genes for shock avoidance, but also point to an interesting new hypothesis on nociceptive mechanisms. KW - functional analysis KW - disruption project KW - natural variation KW - complex traits KW - networks KW - behavior KW - flies KW - temperature KW - genetics KW - painful Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-152006 VL - 10 IS - 5 ER - TY - JOUR A1 - Ardelt, Peter U. A1 - Ebbing, Jan A1 - Adams, Fabian A1 - Reiss, Cora A1 - Arap, Wadih A1 - Pasqualini, Renata A1 - Bachmann, Alexander A1 - Wetterauer, Ulrich A1 - Riedmiller, Hubertus A1 - Kneitz, Burkard T1 - An anti-ubiquitin antibody response in transitional cell carcinoma of the urinary bladder JF - PLoS ONE N2 - Background To use combinatorial epitope mapping ("fingerprinting") of the antibody response to identify targets of the humoral immune response in patients with transitional cell carcinoma (TCC) of the bladder. Methods A combinatorial random peptide library was screened on the circulating pool of immunoglobulins purified from an index patient with a high risk TCC (pTa high grade plus carcinoma in situ) to identify corresponding target antigens. A patient cohort was investigated for antibody titers against ubiquitin. Results We selected, isolated, and validated an immunogenic peptide motif from ubiquitin as a dominant epitope of the humoral response. Patients with TCC had significantly higher antibody titers against ubiquitin than healthy donors (p<0.007), prostate cancer patients (p<0.0007), and all patients without TCC taken together (p<0.0001). Titers from superficial tumors were not significantly different from muscle invasive tumors (p = 0.0929). For antibody response against ubiquitin, sensitivity for detection of TCC was 0.44, specificity 0.96, positive predictive value 0.96 and negative predictive value 0.41. No significant titer changes were observed during the standard BCG induction immunotherapy. Conclusions This is the first report to demonstrate an anti-ubiquitin antibody response in patients with TCC. Although sensitivity of antibody production was low, a high specificity and positive predictive value make ubiquitin an interesting candidate for further diagnostic and possibly immune modulating studies. KW - Bacillus-Calmette-Guerin KW - immune response KW - ubiquitin KW - protein biomarkers KW - system bcg KW - tumor cells KW - immunotherapy KW - cancer surveillance Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-143711 VL - 10 IS - 3 ER - TY - THES A1 - Arjona Esteban, Alhama T1 - Merocyanine Dyes as Organic Semiconductors for Vacuum-processed Solar Cell and Transistor Devices T1 - Merocyaninfarbstoffe als organische Halbleiter für vakuumprozessierte Solarzellen und Transistoren N2 - The present thesis comprises the synthesis of new functional merocyanine dyes, the study of their electro-optical properties as well as solid state packing and their application as p-type semiconductor materials in transistor and solar cell devices. The absorption properties of the obtained compounds could be modified by variation of the donor unit, the introduction of electron-withdrawing substituents in the acceptor unit or elongation of the polymethine chain. For a particular dye, the absorption band could be shifted by more than 160 nm by increasing the solvent polarity due to a conformational switch between a merocyanine-like and a cyanine-like structure. Single crystal analyses revealed that the studied dyes tend to pack either in an antiparallel fashion forming dimers with no overall dipole moment or in a staircase-like pattern where the dipole moments point to the same direction and are only balanced by another staircase oriented in the opposite direction (stair dimer). With respect to application as semiconductor materials, the latter packing arrangement resulted most favorable for charge carrier mobility. We concluded that this packing motif is preserved in the solar cell devices, where the selenium-containing dye afforded the highest performance of this series for an optimized planar-mixed heterojunction solar cell (6.2 %). N2 - Die vorliegende Arbeit beschreibt die Synthese neuer funktioneller Merocyaninfarbstoffe sowie die Studie ihrer elektro-optischen Eigenschaften, ihrer Packungsmotive im Festkörper und deren Anwendung als p-Halbleitermaterialien in Transistoren und Solarzellen. Die optischen Eigenschaften der erhaltenen Moleküle konnten durch Variation der Donoreinheiten, Einführung elektronenziehender Substituenten am Akzeptorgerüst oder durch Verlängerung der Polymethinkette modifiziert werden. Im Fall einer außergewöhnlichen Verbindung konnte die Absorption um mehr als 160 nm verschoben werden, indem die Lösemittelpolarität erhöht wurde. Diese Verschiebung entspricht einem Konformationswechsel zwischen einer merocyaninartigen zu einer cyaninartigen Struktur. Einkristallstrukturanalysen zeigten für mehrere Substanzen ein antiparalleles Packungsmuster, welches die Aufhebung des Dipolmoments auf der supramolekularen Ebene bewirkt. Die entstandenen Dimere können je nach Substituenten entweder isoliert vorliegen oder eindimensionale Stapel bilden. Andere Substanzen zeigten jedoch ein bisher unbekanntes Packungsmuster, in welchem sich die Moleküle mit parallelen Dipolmomenten in einer treppenartigen Struktur aufeinander stapeln. Das makromolekulare Dipolmoment der Treppe wird hierbei durch eine benachbarte Treppe, welche in Gegenrichtung orientiert ist, ausgeglichen. Dieses neue Packungsmotiv eignete sich sehr für guten Ladungstransport, wodurch der Wirkungsgrad einer optimierten Solarzelle des Selenderivats auf bis zu 6.2 % gesteigert werde konnte. KW - Merocyanine KW - Merocyanine dye KW - organische Solarzelle KW - organischer Transitor KW - organic solar cell KW - organic transistor Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-129096 ER - TY - JOUR A1 - Asare-Kyei, Daniel A1 - Forkuor, Gerald A1 - Venus, Valentijn T1 - Modeling Flood Hazard Zones at the Sub-District Level with the Rational Model Integrated with GIS and Remote Sensing Approaches JF - Water N2 - Robust risk assessment requires accurate flood intensity area mapping to allow for the identification of populations and elements at risk. However, available flood maps in West Africa lack spatial variability while global datasets have resolutions too coarse to be relevant for local scale risk assessment. Consequently, local disaster managers are forced to use traditional methods such as watermarks on buildings and media reports to identify flood hazard areas. In this study, remote sensing and Geographic Information System (GIS) techniques were combined with hydrological and statistical models to delineate the spatial limits of flood hazard zones in selected communities in Ghana, Burkina Faso and Benin. The approach involves estimating peak runoff concentrations at different elevations and then applying statistical methods to develop a Flood Hazard Index (FHI). Results show that about half of the study areas fall into high intensity flood zones. Empirical validation using statistical confusion matrix and the principles of Participatory GIS show that flood hazard areas could be mapped at an accuracy ranging from 77% to 81%. This was supported with local expert knowledge which accurately classified 79% of communities deemed to be highly susceptible to flood hazard. The results will assist disaster managers to reduce the risk to flood disasters at the community level where risk outcomes are first materialized. KW - climate change KW - rational model KW - community KW - flood hazard index KW - West Africa KW - GIS KW - vulnerability KW - performance KW - impact KW - risk KW - mapping KW - runoff Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-151581 VL - 7 SP - 3531 EP - 3564 ER - TY - JOUR A1 - Atak, Sinem A1 - Langlhofer, Georg A1 - Schaefer, Natascha A1 - Kessler, Denise A1 - Meiselbach, Heike A1 - Delto, Carolyn A1 - Schindelin, Hermann A1 - Villmann, Carmen T1 - Disturbances of ligand potency and enhanced degradation of the human glycine receptor at affected positions G160 and T162 originally identified in patients suffering from hyperekplexia JF - Frontiers in Molecular Neuroscience N2 - Ligand-binding of Cys-loop receptors is determined by N-terminal extracellular loop structures from the plus as well as from the minus side of two adjacent subunits in the pentameric receptor complex. An aromatic residue in loop B of the glycine receptor (GIyR) undergoes direct interaction with the incoming ligand via a cation-π interaction. Recently, we showed that mutated residues in loop B identified from human patients suffering from hyperekplexia disturb ligand-binding. Here, we exchanged the affected human residues by amino acids found in related members of the Cys-loop receptor family to determine the effects of side chain volume for ion channel properties. GIyR variants were characterized in vitro following transfection into cell lines in order to analyze protein expression, trafficking, degradation and ion channel function. GIyR α1 G160 mutations significantly decrease glycine potency arguing for a positional effect on neighboring aromatic residues and consequently glycine-binding within the ligand-binding pocket. Disturbed glycinergic inhibition due to T162 α1 mutations is an additive effect of affected biogenesis and structural changes within the ligand-binding site. Protein trafficking from the ER toward the ER-Golgi intermediate compartment, the secretory Golgi pathways and finally the cell surface is largely diminished, but still sufficient to deliver ion channels that are functional at least at high glycine concentrations. The majority of T162 mutant protein accumulates in the ER and is delivered to ER-associated proteasomal degradation. Hence, G160 is an important determinant during glycine binding. In contrast, 1162 affects primarily receptor biogenesis whereas exchanges in functionality are secondary effects thereof. KW - mutations KW - trafficking KW - domain KW - hyperekplexia KW - loop B KW - side chain properties KW - ligand potencies KW - Cys-loop receptor KW - glycine receptor KW - site KW - activation KW - binding KW - channel KW - mechanisms KW - dominant KW - startle Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-144818 VL - 8 IS - 79 ER - TY - THES A1 - Aulbach, Stefan T1 - Contributions to Extreme Value Theory in Finite and Infinite Dimensions: With a Focus on Testing for Generalized Pareto Models T1 - Beiträge zur endlich- und unendlichdimensionalen Extremwerttheorie: Mit einem Schwerpunkt auf Tests auf verallgemeinerte Pareto-Modelle N2 - Extreme value theory aims at modeling extreme but rare events from a probabilistic point of view. It is well-known that so-called generalized Pareto distributions, which are briefly reviewed in Chapter 1, are the only reasonable probability distributions suited for modeling observations above a high threshold, such as waves exceeding the height of a certain dike, earthquakes having at least a certain intensity, and, after applying a simple transformation, share prices falling below some low threshold. However, there are cases for which a generalized Pareto model might fail. Therefore, Chapter 2 derives certain neighborhoods of a generalized Pareto distribution and provides several statistical tests for these neighborhoods, where the cases of observing finite dimensional data and of observing continuous functions on [0,1] are considered. By using a notation based on so-called D-norms it is shown that these tests consistently link both frameworks, the finite dimensional and the functional one. Since the derivation of the asymptotic distributions of the test statistics requires certain technical restrictions, Chapter 3 analyzes these assumptions in more detail. It provides in particular some examples of distributions that satisfy the null hypothesis and of those that do not. Since continuous copula processes are crucial tools for the functional versions of the proposed tests, it is also discussed whether those copula processes actually exist for a given set of data. Moreover, some practical advice is given how to choose the free parameters incorporated in the test statistics. Finally, a simulation study in Chapter 4 compares the in total three different test statistics with another test found in the literature that has a similar null hypothesis. This thesis ends with a short summary of the results and an outlook to further open questions. N2 - Gegenstand der Extremwerttheorie ist die wahrscheinlichkeitstheoretische Modellierung von extremen, aber seltenen Ereignissen. Es ist wohlbekannt, dass sog. verallgemeinerte Pareto-Verteilungen, die in Kapitel 1 kurz zusammengefasst werden, die einzigen Wahrscheinlichkeitsverteilungen sind, mit denen sich Überschreitungen über hohe Schwellenwerte geeignet modellieren lassen, wie z. B. Fluthöhen, die einen Deich überschreiten, Erdbeben einer gewissen Mindeststärke, oder - nach einer einfachen Transformation - Aktienkurse, die einen festen Wert unterschreiten. Jedoch gibt es auch Fälle, in denen verallgemeinerte Pareto-Modelle fehlschlagen könnten. Deswegen beschäftigt sich Kapitel 2 mit gewissen Umgebungen einer verallgemeinerten Pareto-Verteilung und leitet mehrere statistische Tests auf diese Umgebungen her. Dabei werden sowohl multivariate Daten als auch Datensätze bestehend aus stetigen Funktionen auf [0,1] betrachtet. Durch Verwendung einer Notation basierend auf sog. D-Normen wird insbesondere gezeigt, dass die vorgestellten Testverfahren beide Fälle, den multivariaten und den funktionalen, auf natürliche Weise miteinander verbinden. Da das asymptotische Verhalten dieser Tests von einigen technischen Voraussetzungen abhängt, werden diese Annahmen in Kapitel 3 detaillierter analysiert. Insbesondere werden Beispiele für Verteilungen betrachtet, die die Nullhypothese erfüllen, und solche, die das nicht tun. Aufgrund ihrer Bedeutung für die funktionale Version der Tests wird auch der Frage nachgegangen, ob sich ein Datensatz durch stetige Copula-Prozesse beschreiben lässt. Außerdem wird auf die Wahl der freien Parameter in den Teststatistiken eingegangen. Schließlich befasst sich Kapitel 4 mit den Ergebnissen einer Simulationsstudie, um die insgesamt drei Testverfahren mit einem ähnlichen Test aus der Literatur zu vergleichen. Diese Arbeit endet mit einer kurzen Zusammenfassung und einem Ausblick auf weiterführende Fragestellungen. KW - Extremwertstatistik KW - Pareto-Verteilung KW - Copula KW - Stochastischer Prozess KW - Anpassungstest KW - Extreme Value Theory KW - Generalized Pareto Distribution KW - D-Norm KW - Copula KW - Stochastic Process KW - Continuous Sample Path KW - Nonparametric Inference KW - Goodness-of-Fit Test KW - Order Statistics KW - Monte Carlo Simulation KW - Extremwerttheorie Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:bvb:20-opus-127162 N1 - Details sind zu finden unter http://www.ism.ac.jp/editsec/aism/aism-permissions.html und http://www.ism.ac.jp/editsec/aism/aism-info-author.html ER -