@phdthesis{Otto2013,
  author    = {Otto, Sebastian},
  title     = {Zulassungskonforme und schnelle massenspektronomische Analytik und pr{\"a}klinische Pharmakokinetik neuer Wirkstoffkandidaten},
  address   = {Potsdam},
  pages     = {143 S.},
  year      = {2013},
  language  = {de}
}
@article{MirhajBoitRazzaketal.2013,
  author    = {Mirhaj, M. and Boit, Alice and Razzak, M. A. and Wahab, M. A.},
  title     = {Yield performance comparison between cultures of rice cum prawn (Macrobrachium rosenbergii) and rice cum fish (Cyprinus carpio, Oreochromis niloticus) in North-Eastern Bangladesh},
  series = {Aquaculture : an international journal devoted to research on the exploration and improvement of all aquatic food resources, both floristic and faunistic, from freshwater, brackish and marine environment, related directly or indirectly to human consumption},
  volume    = {392},
  journal   = {Aquaculture : an international journal devoted to research on the exploration and improvement of all aquatic food resources, both floristic and faunistic, from freshwater, brackish and marine environment, related directly or indirectly to human consumption},
  number    = {5},
  publisher = {Elsevier},
  address   = {Amsterdam},
  issn      = {0044-8486},
  doi       = {10.1016/j.aquaculture.2013.01.038},
  pages     = {26 -- 33},
  year      = {2013},
  abstract  = {Integrated and concurrent cultures in rice fields are a promising approach to sustainable farming as the demand for aquacultural and agricultural products continues to grow while land and water resources become increasingly scarce. Prawn farming mainly takes place in coastal regions in improved extensive to semi-intensive aquacultures but a trend to shift the industry to inland regions has been noticed. This inland study in Northern Bangladesh used different input regimes such as fertilizer and additional feed to compare the performance of prawn and fish in flooded paddy fields in regard to water quality measurements. Maximal net yields and body weight gain with minimized negative impact on water quality were found when initial body weights of prawn were optimized. Regarding yield factors in reference to the reduction of costs due to the avoidance of expensive fertilizer/feed and effort, prawn performed better than integrated fish cultures considering a higher market value of prawn with net yields of up to 97 +/- 55 kg ha(-1) for unfed and 151 +/- 61 kg ha(-1) for fed treatments. Rice yields of up to 4.7 +/- 0.1 t ha(-1) for unfed and 4.4 +/- 0.1 t ha(-1) were achieved for fed treatments. The findings suggest that for small scale farmers, prawn cum rice cultures are an economically profitable and comparatively easily manageable alternative to rice cum fish cultures.},
  language  = {en}
}
@article{KlingstromSoldatovaStevensetal.2013,
  author    = {Klingstrom, Tomas and Soldatova, Larissa and Stevens, Robert and Roos, T. Erik and Swertz, Morris A. and M{\"u}ller, Kristian M. and Kalas, Matus and Lambrix, Patrick and Taussig, Michael J. and Litton, Jan-Eric and Landegren, Ulf and Bongcam-Rudloff, Erik},
  title     = {Workshop on laboratory protocol standards for the molecular methods database},
  series = {New biotechnology},
  volume    = {30},
  journal   = {New biotechnology},
  number    = {2},
  publisher = {Elsevier},
  address   = {Amsterdam},
  issn      = {1871-6784},
  doi       = {10.1016/j.nbt.2012.05.019},
  pages     = {109 -- 113},
  year      = {2013},
  abstract  = {Management of data to produce scientific knowledge is a key challenge for biological research in the 21st century. Emerging high-throughput technologies allow life science researchers to produce big data at speeds and in amounts that were unthinkable just a few years ago. This places high demands on all aspects of the workflow: from data capture (including the experimental constraints of the experiment), analysis and preservation, to peer-reviewed publication of results. Failure to recognise the issues at each level can lead to serious conflicts and mistakes; research may then be compromised as a result of the publication of non-coherent protocols, or the misinterpretation of published data. In this report, we present the results from a workshop that was organised to create an ontological data-modelling framework for Laboratory Protocol Standards for the Molecular Methods Database (MolMeth). The workshop provided a set of short- and long-term goals for the MolMeth database, the most important being the decision to use the established EXACT description of biomedical ontologies as a starting point.},
  language  = {en}
}
@phdthesis{Froemmel2013,
  author    = {Fr{\"o}mmel, Ulrike},
  title     = {Vergleichende geno- und ph{\"a}notypische Charakterisierung von Escherichia coli aus Menschen, Hausschweinen und Wildtieren},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-69147},
  school      = {Universit{\"a}t Potsdam},
  year      = {2013},
  abstract  = {Escherichia (E.) coli ist als kommensales Bakterium ein wichtiger Bestandteil des Mikrobioms von S{\"a}ugern, jedoch zudem der h{\"a}ufigste Infektionserreger des Menschen. Entsprechend des Infektionsortes werden intestinal (InPEC) und extraintestinal pathogene E. coli (ExPEC) unterschieden. Die Pathogenese von E. coli-Infektionen ist durch Virulenzfaktoren determiniert, welche von jeweils spezifischen virulenzassoziierten Genen (inVAGs und exVAGs) kodiert werden. H{\"a}ufig werden exVAGs auch in E. coli-Isolaten aus dem Darm gesunder Wirte nachgewiesen. Dies f{\"u}hrte zu der Vermutung, dass exVAGs die intestinale Kolonisierung des Wirtes durch E. coli unterst{\"u}tzen. Das Hauptziel dieser Arbeit bestand darin, das Wissen {\"u}ber den Einfluss von exVAGs auf die Besiedlung und damit die Adh{\"a}sion von E. coli an Epithelzellen des Darmtraktes zu erweitern. Die Durchf{\"u}hrung einer solch umfassenden E. coli-Populationsstudie erforderte die Etablierung neuer Screeningmethoden. F{\"u}r die genotypische Charakterisierung wurden mikropartikelbasierte Multiplex-PCR-Assays zum Nachweis von 44 VAGs und der Phylogenie etabliert. F{\"u}r die ph{\"a}notypische Charakterisierung wurden Adh{\"a}sions- und Zytotoxizit{\"a}tsassays etabliert. Die Screeningmethoden basieren auf der VideoScan-Technologie, einem automatisierten bildbasierten Multifluoreszenzdetektionssystem. Es wurden 398 E. coli-Isolate aus 13 Wilds{\"a}ugerarten und 5 Wildvogelarten sowie aus gesunden und harnwegserkrankten Menschen und Hausschweinen charakterisiert. Die Adh{\"a}sionsassays hatten zum Ziel, sowohl die Adh{\"a}sionsraten als auch die Adh{\"a}sionsmuster der 317 nicht h{\"a}molytischen Isolate auf 5 Epithelzelllinien zu bestimmen. Die Zytotoxizit{\"a}t der 81 h{\"a}molytischen Isolate wurde in Abh{\"a}ngigkeit der Inkubationszeit auf 4 Epithelzelllinien gepr{\"u}ft. In den E. coli-Isolaten wurde eine Reihe von VAGs nachgewiesen. Potentielle InPEC, insbesondere shigatoxinproduzierende und enteropathogene E. coli wurden aus Menschen, Hausschweinen und Wildtieren, vor allem aus Rehen und Feldhasen isoliert. exVAGs wurden mit stark variierender Pr{\"a}valenz in Isolaten aus allen Arten detektiert. Die gr{\"o}ßte Anzahl und das breiteste Spektrum an exVAGs wurde in Isolaten aus Urin harnwegserkrankter Menschen, gefolgt von Isolaten aus Dachsen und Rehen nachgewiesen. In Isolaten der phylogenetischen Gruppe B2 wurden mehr exVAGs detektiert als in den Isolaten der phylogenetischen Gruppen A, B1 und D. Die Ergebnisse der Adh{\"a}sionsassays zeigten, dass die meisten Isolate zelllinien-, gewebe- oder wirtsspezifisch adh{\"a}rierten. Ein Drittel der Isolate adh{\"a}rierte an keiner Zelllinie und nur zwei Isolate adh{\"a}rierten stark an allen Zelllinien. Grunds{\"a}tzlich adh{\"a}rierten mehr Isolate an humanen sowie an intestinalen Zelllinien. Besonders Isolate aus Eichh{\"o}rnchen und Amseln sowie aus Urin harnwegserkrankter Menschen und Hausschweine waren in der Lage, stark zu adh{\"a}rieren. Hierbei bildeten die Isolate als Adh{\"a}sionsmuster diffuse Adh{\"a}sion, Mikrokolonien, Ketten und Agglomerationen. Mittels statistischer Analysen wurden Assoziationen zwischen exVAGs und einer hohen Adh{\"a}sionsrate ersichtlich. So war beispielsweise das Vorkommen von afa/dra mit einer h{\"o}heren Adh{\"a}sionsrate auf Caco-2- und 5637-Zellen und von sfa/foc auf IPEC-J2-Zellen assoziiert. Die Ergebnisse der Zytotoxizit{\"a}tsassays zeigten eine sehr starke und zeitabh{\"a}ngige Zerst{\"o}rung der Monolayer aller Epithelzelllinien durch die α-H{\"a}molysin-positiven Isolate. Auffallend war die hohe Toxizit{\"a}t h{\"a}molytischer Isolate aus Wildtieren gegen{\"u}ber den humanen Zelllinien. Mit den innerhalb dieser Arbeit entwickelten Screeningmethoden war es m{\"o}glich, große Mengen an Bakterien zu charakterisieren. Es konnte ein {\"U}berblick {\"u}ber die Verbreitung von VAGs in E. coli aus unterschiedlichen Wirten gewonnen werden. Besonders Wildtiere wurden sowohl durch den Nachweis von VAGs in den entsprechenden Isolaten, verbunden mit deren Adh{\"a}sionsf{\"a}higkeit und ausgepr{\"a}gter Zytotoxizit{\"a}t als Reservoire pathogener E. coli identifiziert. Ebenso wurde eine zelllinienspezifische Adh{\"a}sion von Isolaten mit bestimmten exVAGs deutlich. Damit konnte der m{\"o}gliche Einfluss von exVAGs auf die intestinale Kolonisierung best{\"a}tigt werden. In weiterf{\"u}hrenden Arbeiten sind jedoch Expressions- und Funktionsanalysen der entsprechenden Proteine unerl{\"a}sslich. Es wird anhand der Mikrokoloniebildung durch kommensale E. coli vermutet, dass Adh{\"a}sionsmuster und demzufolge Kolonisierungsstrategien, die bisher pathogenen E. coli zugeschrieben wurden, eher als generelle Kolonisierungsstrategien zu betrachten sind. Das E. coli-α-H{\"a}molysin wirkt im Allgemeinen zytotoxisch auf Epithelzellen. Ein in der Fachliteratur diskutierter adh{\"a}sionsunterst{\"u}tzender Mechanismus dieses Toxins ist demnach fragw{\"u}rdig. Innerhalb dieser Arbeit konnte gezeigt werden, dass die entwickelten Screeningmethoden umfassende Analysen einer großen Anzahl an E. coli-Isolaten erm{\"o}glichen.},
  language  = {de}
}
@phdthesis{Czech2013,
  author    = {Czech, Andreas},
  title     = {Variations in the tRNA pool of mammalian cells upon differentiation and oxidative stress},
  address   = {Potsdam},
  pages     = {98 S.},
  year      = {2013},
  language  = {en}
}
@article{Scheffler2013,
  author    = {Scheffler, Christiane},
  title     = {Variable and Invariable Proportions in the Ontogenesis of the Human Face},
  year      = {2013},
  language  = {en}
}
@article{Scheffler2013,
  author    = {Scheffler, Christiane},
  title     = {Variable and invariable proportions in the ontogenesis of the human face},
  series = {The journal of craniofacial surgery : an international journal dedicated to the practice of the art and science of craniofacial surgery ; official publication of the American Association of Pediatric Plastic Surgeons},
  volume    = {24},
  journal   = {The journal of craniofacial surgery : an international journal dedicated to the practice of the art and science of craniofacial surgery ; official publication of the American Association of Pediatric Plastic Surgeons},
  number    = {1},
  publisher = {Lippincott Williams \& Wilkins},
  address   = {Philadelphia},
  issn      = {1049-2275},
  doi       = {10.1097/SCS.0b013e31826d07a3},
  pages     = {237 -- 241},
  year      = {2013},
  abstract  = {The human face shows individual features and features that are characteristic for sex and age (the loss of childlike characteristics during maturation). The analysis of facial dimensions is essential for identifying individual features also for forensic issues. The analysis of facial proportions was performed on photogrammetric data from front views of 125 children. The data were pooled from 2 different studies. The children's data were obtained from a longitudinal study and reduced by random generator to ensure the data of adults from a separate cross-sectional study. We applied principal component analysis on photogrammetric facial proportions of 169 individuals: 125 children (63 boys and 62 girls) aged 2-7 years and 44 adults (18 men and 26 women) aged 18-65 years. Facial proportions depend on age and sex. Three components described age: (1) proportions of facial height to head height, (2) proportions that involve endocanthal breadth, and (3) bigonial to bizygonial proportions. Proportions that associate with sex are connected with nasal distances and nasal to bizygonial distances. Twenty-three percent of the variance, particularly variance that are connected with proportions of lower and middle face heights to head height, do neither depend on sex nor on age and thus appear useful for screening purposes, eg, for dysmorphic genetic syndromes.},
  language  = {en}
}
@article{NeumannSchaalMesserschmidtGrenzetal.2013,
  author    = {Neumann-Schaal, Meina and Messerschmidt, Katrin and Grenz, Nicole and Heilmann, Katja},
  title     = {Use of antibody gene library for the isolation of specific single chain antibodies. by ampicillin-antigen conjugates},
  series = {Immunology letters : an international journal providing for the rapid publication of short reports in immunology},
  volume    = {151},
  journal   = {Immunology letters : an international journal providing for the rapid publication of short reports in immunology},
  number    = {1-2},
  publisher = {Elsevier},
  address   = {Amsterdam},
  issn      = {0165-2478},
  doi       = {10.1016/j.imlet.2013.02.005},
  pages     = {39 -- 43},
  year      = {2013},
  abstract  = {Isolation of recombinant antibodies from antibody libraries is commonly performed by different molecular display formats including phage display and ribosome display or different cell-surface display formats. We describe a new method which allows the selection of Escherichia coil cells producing the required single chain antibody by cultivation in presence of ampicillin conjugated to the antigen of interest. The method utilizes the neutralization of the conjugate by the produced single chain antibody which is secreted to the periplasm. Therefore, a new expression system based on the pET26b vector was designed and a library was constructed. The method was successfully established first for the selection of E. coli BL21 Star (DE3) cells expressing a model single chain antibody (anti-fluorescein) by a simple selection assay on LB-agar plates. Using this selection assay, we could identify a new single chain antibody binding biotin by growing E. coil BL21 Star (DE3) containing the library in presence of a biotin-ampicillin conjugate. In contrast to methods as molecular or cell surface display our selection system applies the soluble single chain antibody molecule and thereby avoids undesired effects, e.g. by the phage particle or the yeast fusion protein. By selecting directly in an expression strain, production and characterization of the selected single chain antibody is possible without any further cloning or transformation steps.},
  language  = {en}
}
@inproceedings{MesserschmidtNeumannSchaalHeilmann2013,
  author    = {Messerschmidt, Katrin and Neumann-Schaal, Meina and Heilmann, Katja},
  title     = {Use of antibody gene library for the isolation of specific single chain antibodies by ampicillinantigen conjugates},
  series = {The journal of immunology},
  volume    = {190},
  booktitle = {The journal of immunology},
  publisher = {American Assoc. of Immunologists},
  address   = {Bethesda},
  issn      = {0022-1767},
  pages     = {1},
  year      = {2013},
  language  = {en}
}
@article{BochMuellerPratiletal.2013,
  author    = {Boch, Steffen and M{\"u}ller, J{\"o}rg and Pratil, Daniel and Blaser, Stefan and Fischer, Markus},
  title     = {Up in the tree - the overlooked richness of bryophytes and lichens in Tree Crowns},
  series = {PLoS one},
  volume    = {8},
  journal   = {PLoS one},
  number    = {12},
  publisher = {PLoS},
  address   = {San Fransisco},
  issn      = {1932-6203},
  doi       = {10.1371/journal.pone.0084913},
  pages     = {8},
  year      = {2013},
  abstract  = {Assessing diversity is among the major tasks in ecology and conservation science. In ecological and conservation studies, epiphytic cryptogams are usually sampled up to accessible heights in forests. Thus, their diversity, especially of canopy specialists, likely is underestimated. If the proportion of those species differs among forest types, plot-based diversity assessments are biased and may result in misleading conservation recommendations. We sampled bryophytes and lichens in 30 forest plots of 20 m x 20 m in three German regions, considering all substrates, and including epiphytic litter fall. First, the sampling of epiphytic species was restricted to the lower 2 m of trees and shrubs. Then, on one representative tree per plot, we additionally recorded epiphytic species in the crown, using tree climbing techniques. Per tree, on average 54\% of lichen and 20\% of bryophyte species were overlooked if the crown was not been included. After sampling all substrates per plot, including the bark of all shrubs and trees, still 38\% of the lichen and 4\% of the bryophyte species were overlooked if the tree crown of the sampled tree was not included. The number of overlooked lichen species varied strongly among regions. Furthermore, the number of overlooked bryophyte and lichen species per plot was higher in European beech than in coniferous stands and increased with increasing diameter at breast height of the sampled tree. Thus, our results indicate a bias of comparative studies which might have led to misleading conservation recommendations of plot-based diversity assessments.},
  language  = {en}
}
@phdthesis{Fuenfhaus2013,
  author    = {F{\"u}nfhaus, Anne},
  title     = {Untersuchungen zur molekularen Pathogenese der amerikanischen Faulbrut der Honigbiene},
  address   = {Potsdam},
  pages     = {136 S.},
  year      = {2013},
  language  = {de}
}
@phdthesis{Reschke2013,
  author    = {Reschke, Stefan},
  title     = {Untersuchungen zur Bildung und Modifizierung des Molybd{\"a}ncofaktors und dessen Einbau in Molybdoenzyme},
  address   = {Potsdam},
  pages     = {133 S.},
  year      = {2013},
  language  = {de}
}
@phdthesis{Schmidt2013,
  author    = {Schmidt, Stefanie},
  title     = {Untersuchung des Einflusses der stressregulierten rei1 homologen Proteine auf die Physiologie und den Metabolismus von Arabidopsis thaliana},
  address   = {Potsdam},
  pages     = {106, XXII S.},
  year      = {2013},
  language  = {de}
}
@article{Scheffler2013,
  author    = {Scheffler, Christiane},
  title     = {Types of Body Shape},
  series = {Auxology : Studying Human Growth and Development},
  journal   = {Auxology : Studying Human Growth and Development},
  publisher = {Schweizerbart Science Publishers},
  address   = {Stuttgart},
  isbn      = {978-3-510-65278-5},
  pages     = {28 -- 29},
  year      = {2013},
  language  = {en}
}
@inproceedings{GraccevaHerdeKoolhaasetal.2013,
  author    = {Gracceva, Giulia and Herde, Antje and Koolhaas, J. M. and Palme, R. and Eccard, Jana and Groothuis, T. G. G.},
  title     = {Turning shy on winter's day effects of season on personality and stress response in Microtus arvalis},
  series = {Integrative and comparative biology},
  volume    = {53},
  booktitle = {Integrative and comparative biology},
  publisher = {Oxford Univ. Press},
  address   = {Cary},
  issn      = {1540-7063},
  pages     = {E80 -- E80},
  year      = {2013},
  language  = {en}
}
@article{SivanesanLyAdamkiewiczetal.2013,
  author    = {Sivanesan, Arumugam and Ly, Khoa H. and Adamkiewicz, Witold and Stiba, Konstanze and Leimk{\"u}hler, Silke and Weidinger, Inez M.},
  title     = {Tunable electric field enhancement and redox chemistry on TiO2 Island films via covalent attachment to Ag or Au nanostructures},
  series = {The journal of physical chemistry : C, Nanomaterials and interfaces},
  volume    = {117},
  journal   = {The journal of physical chemistry : C, Nanomaterials and interfaces},
  number    = {22},
  publisher = {American Chemical Society},
  address   = {Washington},
  issn      = {1932-7447},
  doi       = {10.1021/jp4032578},
  pages     = {11866 -- 11872},
  year      = {2013},
  abstract  = {Ag-TiO2 and Au-TiO2 hybrid electrodes were designed by covalent attachment of TiO2 nanoparticles to Ag or Au electrodes via an organic linker. The optical and electronic properties of these systems were investigated using the cytochrome b(5) (Cyt b(5)) domain of sulfite oxidase, exclusively attached to the TiO2 surface, as a Raman marker and model redox enzyme. Very strong SERR signals of Cyt b(5) were obtained for Ag-supported systems due to plasmonic field enhancement of Ag. Time-resolved surface-enhanced resonance Raman spectroscopic measurements yielded a remarkably fast electron transfer kinetic (k = 60 s(-1)) of Cyt b(5) to Ag. A much lower Raman intensity was observed for Au-supported systems with undefined and slow redox behavior. We explain this phenomenon on the basis of the different potential of zero charge of the two metals that largely influence the electronic properties of the TiO2 island film.},
  language  = {en}
}
@phdthesis{Duensing2013,
  author    = {Duensing, Nina},
  title     = {Transport processes in the arbuscular mycorrhizal symbiosis},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-68210},
  school      = {Universit{\"a}t Potsdam},
  year      = {2013},
  abstract  = {The nutrient exchange between plant and fungus is the key element of the arbuscular mycorrhizal (AM) symbiosis. The fungus improves the plant's uptake of mineral nutrients, mainly phosphate, and water, while the plant provides the fungus with photosynthetically assimilated carbohydrates. Still, the knowledge about the mechanisms of the nutrient exchange between the symbiotic partners is very limited. Therefore, transport processes of both, the plant and the fungal partner, are investigated in this study. In order to enhance the understanding of the molecular basis underlying this tight interaction between the roots of Medicago truncatula and the AM fungus Rhizophagus irregularis, genes involved in transport processes of both symbiotic partners are analysed here. The AM-specific regulation and cell-specific expression of potential transporter genes of M. truncatula that were found to be specifically regulated in arbuscule-containing cells and in non-arbusculated cells of mycorrhizal roots was confirmed. A model for the carbon allocation in mycorrhizal roots is suggested, in which carbohydrates are mobilized in non-arbusculated cells and symplastically provided to the arbuscule-containing cells. New insights into the mechanisms of the carbohydrate allocation were gained by the analysis of hexose/H+ symporter MtHxt1 which is regulated in distinct cells of mycorrhizal roots. Metabolite profiling of leaves and roots of a knock-out mutant, hxt1, showed that it indeed does have an impact on the carbohydrate balance in the course of the symbiosis throughout the whole plant, and on the interaction with the fungal partner. The primary metabolite profile of M. truncatula was shown to be altered significantly in response to mycorrhizal colonization. Additionally, molecular mechanisms determining the progress of the interaction in the fungal partner of the AM symbiosis were investigated. The R. irregularis transcriptome in planta and in extraradical tissues gave new insight into genes that are differentially expressed in these two fungal tissues. Over 3200 fungal transcripts with a significantly altered expression level in laser capture microdissection-collected arbuscules compared to extraradical tissues were identified. Among them, six previously unknown specifically regulated potential transporter genes were found. These are likely to play a role in the nutrient exchange between plant and fungus. While the substrates of three potential MFS transporters are as yet unknown, two potential sugar transporters are might play a role in the carbohydrate flow towards the fungal partner. In summary, this study provides new insights into transport processes between plant and fungus in the course of the AM symbiosis, analysing M. truncatula on the transcript and metabolite level, and provides a dataset of the R. irregularis transcriptome in planta, providing a high amount of new information for future works.},
  language  = {en}
}
@article{MesserschmidtHeilmann2013,
  author    = {Messerschmidt, Katrin and Heilmann, Katja},
  title     = {Toxin-antigen conjugates as selection tools for antibody producing cells},
  series = {Journal of immunological methods},
  volume    = {387},
  journal   = {Journal of immunological methods},
  number    = {1-2},
  publisher = {Elsevier},
  address   = {Amsterdam},
  issn      = {0022-1759},
  doi       = {10.1016/j.jim.2012.10.010},
  pages     = {167 -- 172},
  year      = {2013},
  abstract  = {The generation of antibodies with designated specificity requires cost-intensive and time-consuming screening procedures. Here we present a new method by which hybridoma cells can be selected based on the specificity of the produced antibody by the use of antigen-toxin-conjugates thus eliminating the need of a screening procedure. Initial experiments were done with methotrexate as low molecular weight toxin and fluorescein as model antigen. Methotrexate and a methotrexate-fluorescein conjugate were characterized regarding their toxicity. Afterwards the effect of the fluorescein-specific antibody B13-DE1 on the toxicity of the methotrexate-fluorescein conjugate was determined. Finally, first results showed that hybridoma cells that produce fluorescein specific antibodies are able to grow in the presence of fluorescein-toxin-conjugates.},
  language  = {en}
}
@article{LeunertGrossartGerhardtetal.2013,
  author    = {Leunert, Franziska and Grossart, Hans-Peter and Gerhardt, Volkmar and Eckert, Werner},
  title     = {Toxicant induced changes on delayed fluorescence decay kinetics of cyanobacteria and green algae a rapid and sensitive biotest},
  series = {PLoS one},
  volume    = {8},
  journal   = {PLoS one},
  number    = {4},
  publisher = {PLoS},
  address   = {San Fransisco},
  issn      = {1932-6203},
  doi       = {10.1371/journal.pone.0063127},
  pages     = {7},
  year      = {2013},
  abstract  = {Algal tests have developed into routine tools for testing toxicity of pollutants in aquatic environments. Meanwhile, in addition to algal growth rates, an increasing number of fluorescence based methods are used for rapid and sensitive toxicity measures. The present study stresses the suitability of delayed fluorescence (DF) as a promising parameter for biotests. DF is based on the recombination fluorescence at the reaction centre of photosystem II, which is emitted only by photosynthetically active cells. We analyzed the effects of three chemicals (3-(3,4-dichlorophenyl)-1,1-dimethylurea (DCMU), 3,5 Dichlorophenol (3,5 DCP) and copper) on the shape of the DF decay kinetics for potential use in phytoplankton toxicity tests. The short incubation tests were done with four phytoplankton species, with special emphasis on the cyanobacterium Microcystis aeruginosa. All species exhibited a high sensitivity to DCMU, but cyanobacteria were more affected by copper and less by 3,5 DCP than the tested green algae. Analyses of changes in the DF decay curve in response to the added chemicals indicated the feasibility of the DF decay approach as a rapid and sensitive testing tool.},
  language  = {en}
}
@misc{BecherOsborneThorbeketal.2013,
  author    = {Becher, Matthias A. and Osborne, Juliet L. and Thorbek, Pernille and Kennedy, Peter J. and Grimm, Volker},
  title     = {Towards a systems approach for understanding honeybee decline - a stocktaking and synthesis of existing models},
  series = {Journal of applied ecology : an official journal of the British Ecological Society},
  volume    = {50},
  journal   = {Journal of applied ecology : an official journal of the British Ecological Society},
  number    = {4},
  publisher = {Wiley-Blackwell},
  address   = {Hoboken},
  issn      = {0021-8901},
  doi       = {10.1111/1365-2664.12112},
  pages     = {868 -- 880},
  year      = {2013},
  abstract  = {1. The health of managed and wild honeybee colonies appears to have declined substantially in Europe and the United States over the last decade. Sustainability of honeybee colonies is important not only for honey production, but also for pollination of crops and wild plants alongside other insect pollinators. A combination of causal factors, including parasites, pathogens, land use changes and pesticide usage, are cited as responsible for the increased colony mortality. 2. However, despite detailed knowledge of the behaviour of honeybees and their colonies, there are no suitable tools to explore the resilience mechanisms of this complex system under stress. Empirically testing all combinations of stressors in a systematic fashion is not feasible. We therefore suggest a cross-level systems approach, based on mechanistic modelling, to investigate the impacts of (and interactions between) colony and land management. 3. We review existing honeybee models that are relevant to examining the effects of different stressors on colony growth and survival. Most of these models describe honeybee colony dynamics, foraging behaviour or honeybee - varroa mite - virus interactions. 4. We found that many, but not all, processes within honeybee colonies, epidemiology and foraging are well understood and described in the models, but there is no model that couples in-hive dynamics and pathology with foraging dynamics in realistic landscapes. 5. Synthesis and applications. We describe how a new integrated model could be built to simulate multifactorial impacts on the honeybee colony system, using building blocks from the reviewed models. The development of such a tool would not only highlight empirical research priorities but also provide an important forecasting tool for policy makers and beekeepers, and we list examples of relevant applications to bee disease and landscape management decisions.},
  language  = {en}
}
@article{WisselManackBrainin2013,
  author    = {Wissel, J{\"o}rg and Manack, Aubrey and Brainin, Michael},
  title     = {Toward an epidemiology of poststroke spasticity},
  series = {Neurology : official journal of the American Academy of Neurology},
  volume    = {80},
  journal   = {Neurology : official journal of the American Academy of Neurology},
  number    = {1},
  publisher = {Lippincott Williams \& Wilkins},
  address   = {Philadelphia},
  issn      = {0028-3878},
  pages     = {S13 -- S19},
  year      = {2013},
  abstract  = {Poststroke spasticity (PSS)-related disability is emerging as a significant health issue for stroke survivors. There is a need for predictors and early identification of PSS in order to minimize complications and maladaptation from spasticity. Reviewing the literature on stroke and upper motor neuron syndrome, spasticity, contracture, and increased muscle tone measured with the Modified Ashworth Scale and the Tone Assessment Scale provided data on the dynamic time course of PSS. Prevalence estimates of PSS were highly variable, ranging from 4\% to 42.6\%, with the prevalence of disabling spasticity ranging from 2\% to 13\%. Data on phases of the PSS continuum revealed evidence of PSS in 4\% to 27\% of those in the early time course (1-4 weeks poststroke), 19\% to 26.7\% of those in the postacute phase (1-3 months poststroke), and 17\% to 42.6\% of those in the chronic phase (>3 months poststroke). Data also identified key risk factors associated with the development of spasticity, including lower Barthel Index scores, severe degree of paresis, stroke-related pain, and sensory deficits. Although such indices could be regarded as predictors of PSS and thus enable early identification and treatment, the different measures of PSS used in those studies limit the strength of the findings. To optimize evaluation in the different phases of care, the best possible assessment of PSS would make use of a combination of indicators for clinical impairment, motor performance, activity level, quality of life, and patient-reported outcome measures. Applying these recommended measures, as well as increasing our knowledge of the physiologic predictors of PSS, will enable us to perform clinical and epidemiologic studies that will facilitate identification and early, multimodal treatment.},
  language  = {en}
}
@article{SagollaLoehmannsroebenHille2013,
  author    = {Sagolla, Kristina and L{\"o}hmannsr{\"o}ben, Hans-Gerd and Hille, Carsten},
  title     = {Time-resolved fluorescence microscopy for quantitative Ca2+ imaging in living cells},
  series = {Analytical \& bioanalytical chemistry},
  volume    = {405},
  journal   = {Analytical \& bioanalytical chemistry},
  number    = {26},
  publisher = {Springer},
  address   = {Heidelberg},
  issn      = {1618-2642},
  doi       = {10.1007/s00216-013-7290-6},
  pages     = {8525 -- 8537},
  year      = {2013},
  abstract  = {Calcium (Ca2+) is a ubiquitous intracellular second messenger and involved in a plethora of cellular processes. Thus, quantification of the intracellular Ca2+ concentration ([Ca2+](i)) and of its dynamics is required for a comprehensive understanding of physiological processes and potential dysfunctions. A powerful approach for studying [Ca2+](i) is the use of fluorescent Ca2+ indicators. In addition to the fluorescence intensity as a common recording parameter, the fluorescence lifetime imaging microscopy (FLIM) technique provides access to the fluorescence decay time of the indicator dye. The nanosecond lifetime is mostly independent of variations in dye concentration, allowing more reliable quantification of ion concentrations in biological preparations. In this study, the feasibility of the fluorescent Ca2+ indicator Oregon Green Bapta-1 (OGB-1) for two-photon fluorescence lifetime imaging microscopy (2P-FLIM) was evaluated. In aqueous solution, OGB-1 displayed a Ca2+-dependent biexponential fluorescence decay behaviour, indicating the presence of a Ca2+-free and Ca2+-bound dye form. After sufficient dye loading into living cells, an in situ calibration procedure has also unravelled the Ca2+-free and Ca2+-bound dye forms from a global biexponential fluorescence decay analysis, although the dye's Ca2+ sensitivity is reduced. Nevertheless, quantitative [Ca2+](i) recordings and its stimulus-induced changes in salivary gland cells could be performed successfully. These results suggest that OGB-1 is suitable for 2P-FLIM measurements, which can gain access to cellular physiology.},
  language  = {en}
}
@phdthesis{Fiedler2013,
  author    = {Fiedler, Sebastian},
  title     = {Thermodynamic stability of the a-Helical membrane-interacting protein mistic in detergent micelles},
  address   = {Potsdam},
  pages     = {99 S.},
  year      = {2013},
  language  = {en}
}
@misc{BertilssonBurginCareyetal.2013,
  author    = {Bertilsson, Stefan and Burgin, Amy and Carey, Cayelan C. and Fey, Samuel B. and Grossart, Hans-Peter and Grubisic, Lorena M. and Jones, Ian D. and Kirillin, Georgiy and Lennon, Jay T. and Shade, Ashley and Smyth, Robyn L.},
  title     = {The under-ice microbiome of seasonally frozen lakes},
  series = {Limnology and oceanography},
  volume    = {58},
  journal   = {Limnology and oceanography},
  number    = {6},
  publisher = {Wiley},
  address   = {Waco},
  issn      = {0024-3590},
  doi       = {10.4319/lo.2013.58.6.1998},
  pages     = {1998 -- 2012},
  year      = {2013},
  abstract  = {Compared to the well-studied open water of the "growing" season, under-ice conditions in lakes are characterized by low and rather constant temperature, slow water movements, limited light availability, and reduced exchange with the surrounding landscape. These conditions interact with ice-cover duration to shape microbial processes in temperate lakes and ultimately influence the phenology of community and ecosystem processes. We review the current knowledge on microorganisms in seasonally frozen lakes. Specifically, we highlight how under-ice conditions alter lake physics and the ways that this can affect the distribution and metabolism of auto-and heterotrophic microorganisms. We identify functional traits that we hypothesize are important for understanding under-ice dynamics and discuss how these traits influence species interactions. As ice coverage duration has already been seen to reduce as air temperatures have warmed, the dynamics of the under-ice microbiome are important for understanding and predicting the dynamics and functioning of seasonally frozen lakes in the near future.},
  language  = {en}
}
@article{ChengvandenBerghZengetal.2013,
  author    = {Cheng, Shifeng and van den Bergh, Erik and Zeng, Peng and Zhong, Xiao and Xu, Jiajia and Liu, Xin and Hofberger, Johannes and de Bruijn, Suzanne and Bhide, Amey S. and Kuelahoglu, Canan and Bian, Chao and Chen, Jing and Fan, Guangyi and Kaufmann, Kerstin and Hall, Jocelyn C. and Becker, Annette and Br{\"a}utigam, Andrea and Weber, Andreas P. M. and Shi, Chengcheng and Zheng, Zhijun and Li, Wujiao and Lv, Mingju and Tao, Yimin and Wang, Junyi and Zou, Hongfeng and Quan, Zhiwu and Hibberd, Julian M. and Zhang, Gengyun and Zhu, Xin-Guang and Xu, Xun and Schranz, M. Eric},
  title     = {The Tarenaya hassleriana Genome Provides insight Into Reproductive Trait and Genome Evolution of Crucifers},
  series = {The plant cell},
  volume    = {25},
  journal   = {The plant cell},
  number    = {8},
  publisher = {American Society of Plant Physiologists},
  address   = {Rockville},
  issn      = {1040-4651},
  doi       = {10.1105/tpc.113.113480},
  pages     = {2813 -- 2830},
  year      = {2013},
  abstract  = {The Brassicaceae, including Arabidopsis thaliana and Brassica crops, is unmatched among plants in its wealth of genomic and functional molecular data and has long served as a model for understanding gene, genome, and trait evolution. However, genome information from a phylogenetic outgroup that is essential for inferring directionality of evolutionary change has been lacking. We therefore sequenced the genome of the spider flower (Tarenaya hassleriana) from the Brassicaceae sister family, the Cleomaceae. By comparative analysis of the two lineages, we show that genome evolution following ancient polyploidy and gene duplication events affect reproductively important traits. We found an ancient genome triplication in Tarenaya (Th-alpha) that is independent of the Brassicaceae-specific duplication (At-alpha) and nested Brassica (Br-a) triplication. To showcase the potential of sister lineage genome analysis, we investigated the state of floral developmental genes and show Brassica retains twice as many floral MADS (for MINICHROMOSOME MAINTENANCE1, AGAMOUS, DEFICIENS and SERUM RESPONSE FACTOR) genes as Tarenaya that likely contribute to morphological diversity in Brassica. We also performed synteny analysis of gene families that confer self-incompatibility in Brassicaceae and found that the critical SERINE RECEPTOR KINASE receptor gene is derived from a lineage-specific tandem duplication. The T. hassleriana genome will facilitate future research toward elucidating the evolutionary history of Brassicaceae genomes.},
  language  = {en}
}
@article{DahlRadonBuehningetal.2013,
  author    = {Dahl, Jan-Ulrik and Radon, Christin and B{\"u}hning, Martin and Nimtz, Manfred and Leichert, Lars I. and Denis, Yann and Jourlin-Castelli, Cecile and Iobbi-Nivol, Chantal and Mejean, Vincent and Leimk{\"u}hler, Silke},
  title     = {The Sulfur Carrier Protein TusA Has a Pleiotropic Role in Escherichia coli That Also Affects Molybdenum Cofactor Biosynthesis},
  series = {JOURNAL OF BIOLOGICAL CHEMISTRY},
  volume    = {288},
  journal   = {JOURNAL OF BIOLOGICAL CHEMISTRY},
  number    = {8},
  publisher = {AMER SOC BIOCHEMISTRY MOLECULAR BIOLOGY INC},
  address   = {BETHESDA},
  issn      = {0021-9258},
  doi       = {10.1074/jbc.M112.431569},
  pages     = {5426 -- 5442},
  year      = {2013},
  abstract  = {The Escherichia coli L-cysteine desulfurase IscS mobilizes sulfur from L-cysteine for the synthesis of several biomolecules such as iron-sulfur (FeS) clusters, molybdopterin, thiamin, lipoic acid, biotin, and the thiolation of tRNAs. The sulfur transfer from IscS to various biomolecules is mediated by different interaction partners (e.g. TusA for thiomodification of tRNAs, IscU for FeS cluster biogenesis, and ThiI for thiamine biosynthesis/tRNA thiolation), which bind at different sites of IscS. Transcriptomic and proteomic studies of a Delta tusA strain showed that the expression of genes of the moaABCDE operon coding for proteins involved in molybdenum cofactor biosynthesis is increased under aerobic and anaerobic conditions. Additionally, under anaerobic conditions the expression of genes encoding hydrogenase 3 and several molybdoenzymes such as nitrate reductase were also increased. On the contrary, the activity of all molydoenzymes analyzed was significantly reduced in the Delta tusA mutant. Characterization of the Delta tusA strain under aerobic conditions showed an overall low molybdopterin content and an accumulation of cyclic pyranopterin monophosphate. Under anaerobic conditions the activity of nitrate reductase was reduced by only 50\%, showing that TusA is not essential for molybdenum cofactor biosynthesis. We present a model in which we propose that the direction of sulfur transfer for each sulfur-containing biomolecule is regulated by the availability of the interaction partner of IscS. We propose that in the absence of TusA, more IscS is available for FeS cluster biosynthesis and that the overproduction of FeS clusters leads to a modified expression of several genes.},
  language  = {en}
}
@article{JedrusikBodeStudenckaSmolkaetal.2013,
  author    = {Jedrusik-Bode, Monika and Studencka, Maja and Smolka, Christian and Baumann, Tobias and Schmidt, Henning and Kampf, Jan and Paap, Franziska and Martin, Sophie and Tazi, Jamal and M{\"u}ller, Kristian M. and Kr{\"u}ger, Marcus and Braun, Thomas and Bober, Eva},
  title     = {The sirtuin SIRT6 regulates stress granule formation in C. elegans and mammals},
  series = {Journal of cell science},
  volume    = {126},
  journal   = {Journal of cell science},
  number    = {22},
  publisher = {Company of Biologists Limited},
  address   = {Cambridge},
  issn      = {0021-9533},
  doi       = {10.1242/jcs.130708},
  pages     = {5166 -- +},
  year      = {2013},
  abstract  = {SIRT6 is a NAD(+)-dependent deacetylase that modulates chromatin structure and safeguards genomic stability. Until now, SIRT6 has been assigned to the nucleus and only nuclear targets of SIRT6 are known. Here, we demonstrate that in response to stress, C. elegans SIR-2.4 and its mammalian orthologue SIRT6 localize to cytoplasmic stress granules, interact with various stress granule components and induce their assembly. Loss of SIRT6 or inhibition of its catalytic activity in mouse embryonic fibroblasts impairs stress granule formation and delays disassembly during recovery, whereas deficiency of SIR-2.4 diminishes maintenance of P granules and decreases survival of C. elegans under stress conditions. Our findings uncover a novel, evolutionary conserved function of SIRT6 in the maintenance of stress granules in response to stress.},
  language  = {en}
}
@inproceedings{EbenhoehKartalSkupinetal.2013,
  author    = {Ebenh{\"o}h, O. and Kartal, Oe. and Skupin, A. and Mahlow, S. and Steup, Martin},
  title     = {The role of mixing entropy in carbohydrate metabolism},
  series = {European biophysics journal : with biophysics letters ; an international journal of biophysics},
  volume    = {42},
  booktitle = {European biophysics journal : with biophysics letters ; an international journal of biophysics},
  publisher = {Springer},
  address   = {New York},
  issn      = {0175-7571},
  pages     = {S73 -- S73},
  year      = {2013},
  language  = {en}
}
@misc{SharmaDreyerRiedelsberger2013,
  author    = {Sharma, Tripti and Dreyer, Ingo and Riedelsberger, Janin},
  title     = {The role of K+ channels in uptake and redistribution of potassium in the model plant Arabidopsis thaliana},
  series = {Frontiers in plant science},
  volume    = {4},
  journal   = {Frontiers in plant science},
  publisher = {Frontiers Research Foundation},
  address   = {Lausanne},
  issn      = {1664-462X},
  doi       = {10.3389/fpls.2013.00224},
  pages     = {16},
  year      = {2013},
  abstract  = {Potassium (K+) is inevitable for plant growth and development. It plays a crucial role in the regulation of enzyme activities, in adjusting the electrical membrane potential and the cellular turgor, in regulating cellular homeostasis and in the stabilization of protein synthesis. Uptake of K+ from the soil and its transport to growing organs is essential for a healthy plant development. Uptake and allocation of K+ are performed by K+ channels and transporters belonging to different protein families. In this review we summarize the knowledge on the versatile physiological roles of plant K+ channels and their behavior under stress conditions in the model plant Arabidopsis thaliana.},
  language  = {en}
}
@article{HartmannLeimkuehler2013,
  author    = {Hartmann, Tobias and Leimk{\"u}hler, Silke},
  title     = {The oxygen-tolerant and NAD+-dependent formate dehydrogenase from Rhodobacter capsulatus is able to catalyze the reduction of CO2 to formate},
  series = {The FEBS journal},
  volume    = {280},
  journal   = {The FEBS journal},
  number    = {23},
  publisher = {Wiley-Blackwell},
  address   = {Hoboken},
  issn      = {1742-464X},
  doi       = {10.1111/febs.12528},
  pages     = {6083 -- 6096},
  year      = {2013},
  abstract  = {The formate dehydrogenase from Rhodobactercapsulatus (RcFDH) is an oxygen-tolerant protein with an ()(2) subunit composition that is localized in the cytoplasm. It belongs to the group of metal and NAD(+)-dependent FDHs with the coordination of a molybdenum cofactor, four [Fe4S4] clusters and one [Fe2S2] cluster associated with the -subunit, one [Fe4S4] cluster and one FMN bound to the -subunit, and one [Fe2S2] cluster bound to the -subunit. RcFDH was heterologously expressed in Escherichiacoli and characterized. Cofactor analysis showed that the bis-molybdopterin guanine dinucleotide cofactor is bound to the FdsA subunit containing a cysteine ligand at the active site. A turnover rate of 2189min(-1) with formate as substrate was determined. The back reaction for the reduction of CO2 was catalyzed with a k(cat) of 89min(-1). The preference for formate oxidation shows an energy barrier for CO2 reduction of the enzyme. Furthermore, the FMN-containing and [Fe4S4]-containing -subunit together with the [Fe2S2]-containing -subunit forms a diaphorase unit with activities for both NAD(+) reduction and NADH oxidation. In addition to the structural genes fdsG, fdsB, and fdsA, the fds operon in R.capsulatus contains the fdsC and fdsD genes. Expression studies showed that RcFDH is only active when both FdsC and FdsD are present. Both proteins are proposed to be involved in bis-molybdopterin guanine dinucleotide modification and insertion into RcFDH.},
  language  = {en}
}
@article{LukasFrostWacker2013,
  author    = {Lukas, Marcus and Frost, Paul C. and Wacker, Alexander},
  title     = {The neonate nutrition hypothesis - early feeding affects the body stoichiometry of Daphnia offspring},
  series = {Freshwater biology},
  volume    = {58},
  journal   = {Freshwater biology},
  number    = {11},
  publisher = {Wiley-Blackwell},
  address   = {Hoboken},
  issn      = {0046-5070},
  doi       = {10.1111/fwb.12213},
  pages     = {2333 -- 2344},
  year      = {2013},
  abstract  = {Aquatic herbivores consume variable quantities and qualities of food. In freshwater systems, where phosphorus (P) is often a primary limiting element, inadequate dietary P can slow maternal growth and reduce body P content. There remains uncertainty about whether and how dietary effects on mothers are transferred to offspring by way of egg provisioning. Using the keystone herbivore Daphnia, we tested a novel explanation (the neonate nutrition hypothesis') to determine whether the early nutrition of newborns affects their elemental composition and whether the indications of differences in maternal P nutrition found previously might be overestimated. We thus examined the P content of mothers and their eggs from deposition through development to the birth of neonates. We examined further whether very short periods of ingestion (3h) by the offspring alter the overall P content of juvenile Daphnia. We showed that strong dietary P effects on mothers were not directly transferred to their eggs. Irrespective of the supply of P in the maternal diet, the P content of eggs in different developmental stages and in (unfed) neonates did not differ. This indicates that Daphnia mothers do not reduce the quality (in terms of P) of newly produced offspring after intermittent periods (i.e. several days) of poor nutrition. In contrast, the P content of neonates reflected that of their food after brief periods of feeding, indicating that even temporary exposure to nutrient poor food immediately after birth may strongly affect the elemental composition of neonates. Our results thus support the neonate nutrition hypothesis, which, like differential maternal provisioning, is a possible explanation for the variable elemental quality of young Daphnia.},
  language  = {en}
}
@inproceedings{SmithMattosBarbirz2013,
  author    = {Smith, Mychal Daijon and Mattos, Carla and Barbirz, Stefanie},
  title     = {The multiple solvent crystal structures method of P22TSP},
  series = {The FASEB journal : the official journal of the Federation of American Societies for Experimental Biology},
  volume    = {27},
  booktitle = {The FASEB journal : the official journal of the Federation of American Societies for Experimental Biology},
  number    = {11},
  publisher = {Federation of American Societies for Experimental Biology},
  address   = {Bethesda},
  issn      = {0892-6638},
  pages     = {1},
  year      = {2013},
  language  = {en}
}
@misc{SenguptaChattopadhyayGrossart2013,
  author    = {Sengupta, Saswati and Chattopadhyay, Madhab K. and Grossart, Hans-Peter},
  title     = {The multifaceted roles of antibiotics and antibiotic resistance in nature},
  series = {Frontiers in microbiology},
  volume    = {4},
  journal   = {Frontiers in microbiology},
  publisher = {Frontiers Research Foundation},
  address   = {Lausanne},
  issn      = {1664-302X},
  doi       = {10.3389/fmicb.2013.00047},
  pages     = {13},
  year      = {2013},
  abstract  = {Antibiotics are chemotherapeutic agents, which have been a very powerful tool in the clinical management of bacterial diseases since the 1940s. However, benefits offered by these magic bullets have been substantially lost in subsequent days following the widespread emergence and dissemination of antibiotic-resistant strains. While it is obvious that excessive and imprudent use of antibiotics significantly contributes to the emergence of resistant strains, antibiotic resistance is also observed in natural bacteria of remote places unlikely to be impacted by human intervention. Both antibiotic biosynthetic genes and resistance-conferring genes have been known to evolve billions of years ago, long before clinical use of antibiotics. Hence it appears that antibiotics and antibiotics resistance determinants have some other roles in nature, which often elude our attention because of overemphasis on the therapeutic importance of antibiotics and the crisis imposed by the antibiotic resistance in pathogens. In the natural milieu, antibiotics are often found to be present in sub-inhibitory concentrations acting as signaling molecules supporting the process of quorum sensing and biofilm formation. They also play an important role in the production of virulence factors and influence host-parasite interactions (e.g., phagocytosis, adherence to the target cell, and so on). The evolutionary and ecological aspects of antibiotics and antibiotic resistance in the naturally occurring microbial community are little understood. Therefore, the actual role of antibiotics in nature warrants in-depth investigations. Studies on such an intriguing behavior of the microorganisms promise insight into the intricacies of the microbial physiology and are likely to provide some lead in controlling the emergence and subsequent dissemination of antibiotic resistance. This article highlights some of the recent findings on the role of antibiotics and the genes that confer resistance to antibiotics in nature.},
  language  = {en}
}
@article{MareljaChowdhuryDoscheetal.2013,
  author    = {Marelja, Zvonimir and Chowdhury, Mita Mullick and Dosche, Carsten and Hille, Carsten and Baumann, Otto and L{\"o}hmannsr{\"o}ben, Hans-Gerd and Leimk{\"u}hler, Silke},
  title     = {The L-cysteine desulfurase NFS1 is localized in the cytosol where it provides the sulfur for molybdenum cofactor biosynthesis in humans},
  series = {PLoS one},
  volume    = {8},
  journal   = {PLoS one},
  number    = {4},
  publisher = {PLoS},
  address   = {San Fransisco},
  issn      = {1932-6203},
  doi       = {10.1371/journal.pone.0060869},
  pages     = {13},
  year      = {2013},
  abstract  = {In humans, the L-cysteine desulfurase NFS1 plays a crucial role in the mitochondrial iron-sulfur cluster biosynthesis and in the thiomodification of mitochondrial and cytosolic tRNAs. We have previously demonstrated that purified NFS1 is able to transfer sulfur to the C-terminal domain of MOCS3, a cytosolic protein involved in molybdenum cofactor biosynthesis and tRNA thiolation. However, no direct evidence existed so far for the interaction of NFS1 and MOCS3 in the cytosol of human cells. Here, we present direct data to show the interaction of NFS1 and MOCS3 in the cytosol of human cells using Forster resonance energy transfer and a split-EGFP system. The colocalization of NFS1 and MOCS3 in the cytosol was confirmed by immunodetection of fractionated cells and localization studies using confocal fluorescence microscopy. Purified NFS1 was used to reconstitute the lacking molybdoenzyme activity of the Neurospora crassa nit-1 mutant, giving additional evidence that NFS1 is the sulfur donor for Moco biosynthesis in eukaryotes in general.},
  language  = {en}
}
@article{SnijmanKocyan2013,
  author    = {Snijman, Deirdre A. and Kocyan, Alexander},
  title     = {The genus Pauridia (Hypoxidaceae) amplified to include Hypoxis sect. Ianthe, Saniella and Spiloxene, with revised nomenclature and typification},
  series = {Phytotaxa : a rapid international journal for accelerating the publication of botanical taxonomy},
  volume    = {116},
  journal   = {Phytotaxa : a rapid international journal for accelerating the publication of botanical taxonomy},
  number    = {1},
  publisher = {Magnolia Press},
  address   = {Auckland},
  issn      = {1179-3155},
  doi       = {10.11646/phytotaxa.116.1.2},
  pages     = {19 -- 33},
  year      = {2013},
  abstract  = {Recent phylogenetic analyses show that the species of the southern African genera Pauridia, Saniella and Spiloxene and the Australian, Tasmanian and New Zealand Hypoxis sect. Ianthe form a highly supported, monophyletic clade. In keeping with earlier suggestions that these taxa doubtfully warrant separate status, and to avoid the recognition of Hypoxis and Spiloxene as paraphyletic, we expand the circumscription of Pauridia to include Saniella, Spiloxene and Hypoxis sect. Ianthe. As a result 33 new combinations at specific and infraspecific level are proposed and one epitype, two neotypes and 30 lectotypes are newly designated. Three basionyms, of which Linnaeus, Linnaeus filius and Lamarck are the authors, are also typified (Amaryllis capensis, Hypoxis aquatica, and Hypoxis pumila).},
  language  = {en}
}
@article{SpeckRaeuberKuekenshoeneretal.2013,
  author    = {Speck, Janina and R{\"a}uber, Christina and K{\"u}kensh{\"o}ner, Tim and Niem{\"o}ller, Christoph and Mueller, Katelyn J. and Schleberger, Paula and Dondapati, Padmarupa and Hecky, Jochen and Arndt, Katja Maren and M{\"u}ller, Kristian M.},
  title     = {TAT hitchhiker selection expanded to folding helpers, multimeric interactions and combinations with protein fragment complementation},
  series = {Protein engineering design \& selection},
  volume    = {26},
  journal   = {Protein engineering design \& selection},
  number    = {3},
  publisher = {Oxford Univ. Press},
  address   = {Oxford},
  issn      = {1741-0126},
  doi       = {10.1093/protein/gzs098},
  pages     = {225 -- 242},
  year      = {2013},
  abstract  = {The twin-arginine translocation (TAT) pathway of the bacterial cytoplasmic membrane mediates translocation only of proteins that accomplished a native-like conformation. We deploy this feature in modular selection systems for directed evolution, in which folding helpers as well as dimeric or oligomeric proteinprotein interactions enable TAT-dependent translocation of the resistance marker TEM -lactamase (L). Specifically, we demonstrate and analyze selection of (i) enhancers for folding by direct TAT translocation selection of a target protein interposed between the TorA signal sequence and L, (ii) dimeric or oligomeric proteinprotein interactions by hitchhiker translocation (HiT) selection of proteins fused to the TorA signal sequence and to the L, respectively and (iii) heterotrimeric proteinprotein interactions by combining HiT with protein fragment complementation selection of proteins fused to two split L fragments and TorA, respectively. The lactamase fragments were additionally engineered for improved activity and stability. Applicability was benchmarked with interaction partners of known affinity and multimerization whereby cellular fitness correlated well with biophysical protein properties. Ultimately, the HiT selection was employed to identify peptides, which specifically bind to leukemia- and melanoma-relevant target proteins (MITF and ETO) by coiled-coil or tetra-helix-bundle formation with high affinity. The various versions of TAT selection led to inhibiting peptides (iPEPs) of disease-promoting interactions and enabled so far difficult to achieve selections.},
  language  = {en}
}
@article{MuellerWindhofMaximovetal.2013,
  author    = {M{\"u}ller, Sara and Windhof, Indra M. and Maximov, Vladimir and Jurkowski, Tomasz and Jeltsch, Albert and F{\"o}rstner, Konrad U. and Sharma, Cynthia M. and Gr{\"a}f, Ralph and Nellen, Wolfgang},
  title     = {Target recognition, RNA methylation activity and transcriptional regulation of the dictyostelium discoideum Dnmt2-homologue (DnmA)},
  series = {Nucleic acids research},
  volume    = {41},
  journal   = {Nucleic acids research},
  number    = {18},
  publisher = {Oxford Univ. Press},
  address   = {Oxford},
  issn      = {0305-1048},
  doi       = {10.1093/nar/gkt634},
  pages     = {8615 -- 8627},
  year      = {2013},
  abstract  = {Although the DNA methyltransferase 2 family is highly conserved during evolution and recent reports suggested a dual specificity with stronger activity on transfer RNA (tRNA) than DNA substrates, the biological function is still obscure. We show that the Dictyostelium discoideum Dnmt2-homologue DnmA is an active tRNA methyltransferase that modifies C38 in tRNA(Asp(GUC)) in vitro and in vivo. By an ultraviolet-crosslinking and immunoprecipitation approach, we identified further DnmA targets. This revealed specific tRNA fragments bound by the enzyme and identified tRNA(Glu(CUC/UUC)) and tRNA(Gly(GCC)) as new but weaker substrates for both human Dnmt2 and DnmA in vitro but apparently not in vivo. Dnmt2 enzymes form transient covalent complexes with their substrates. The dynamics of complex formation and complex resolution reflect methylation efficiency in vitro. Quantitative PCR analyses revealed alterations in dnmA expression during development, cell cycle and in response to temperature stress. However, dnmA expression only partially correlated with tRNA methylation in vivo. Strikingly, dnmA expression in the laboratory strain AX2 was significantly lower than in the NC4 parent strain. As expression levels and binding of DnmA to a target in vivo are apparently not necessarily accompanied by methylation, we propose an additional biological function of DnmA apart from methylation.},
  language  = {en}
}
@article{WeisseMoserScheffeletal.2013,
  author    = {Weisse, Thomas and Moser, Michael and Scheffel, Ulrike and Stadler, Peter and Berendonk, Thomas U. and Weithoff, Guntram and Berger, Helmut},
  title     = {Systematics and species-specific response to pH of Oxytricha acidotolerans sp nov and Urosomoida sp (Ciliophora, Hypotricha) from acid mining lakes},
  series = {European journal of protistology},
  volume    = {49},
  journal   = {European journal of protistology},
  number    = {2},
  publisher = {Elsevier},
  address   = {Jena},
  issn      = {0932-4739},
  doi       = {10.1016/j.ejop.2012.08.001},
  pages     = {255 -- 271},
  year      = {2013},
  abstract  = {We investigated the morphology, phylogeny of the 18S rDNA, and pH response of Oxytricha acidotolerans sp. nov. and Urosomoida sp. (Ciliophora, Hypotricha) isolated from two chemically similar acid mining lakes (pH similar to 2.6) located at Langau, Austria, and in Lusatia, Germany. Oxytricha acidotolerans sp. nov. from Langau has 18 frontal-ventral-transverse cirri but a very indistinct kinety 3 fragmentation so that the assignment to Oxytricha is uncertain. The somewhat smaller species from Lusatia has a highly variable cirral pattern and the dorsal kineties arranged in the Urosomoida pattern and is, therefore, preliminary designated as Urosomoida sp. The pH response was measured as ciliate growth rates in laboratory experiments at pH ranging from 2.5 to 7.0. Our hypothesis was that the shape of the pH reaction norm would not differ between these closely related (3\% difference in their SSU rDNA) species. Results revealed a broad pH niche for O. acidotolerans, with growth rates peaking at moderately acidic conditions (pH 5.2). Cyst formation was positively and linearly related to pH. Urosomoida sp. was more sensitive to pH and did not survive at circumneutral pH. Accordingly, we reject our hypothesis that similar habitats would harbour ciliate species with virtually identical pH reaction norm.},
  language  = {en}
}
@article{SachseWuestenhagenSamalikovaetal.2013,
  author    = {Sachse, Rita and W{\"u}stenhagen, Doreen Anja and Samalikova, Maria and Gerrits, Michael and Bier, Frank Fabian and Kubick, Stefan},
  title     = {Synthesis of membrane proteins in eukaryotic cell-free systems},
  series = {Engineering in life sciences : Industry, Environment, Plant, Food},
  volume    = {13},
  journal   = {Engineering in life sciences : Industry, Environment, Plant, Food},
  number    = {1},
  publisher = {Wiley-Blackwell},
  address   = {Hoboken},
  issn      = {1618-0240},
  doi       = {10.1002/elsc.201100235},
  pages     = {39 -- 48},
  year      = {2013},
  abstract  = {Cell-free protein synthesis (CFPS) is a valuable method for the fast expression of difficult-to-express proteins as well as posttranslationally modified proteins. Since cell-free systems circumvent possible cytotoxic effects caused by protein overexpression in living cells, they significantly enlarge the scale and variety of proteins that can be characterized. We demonstrate the high potential of eukaryotic CFPS to express various types of membrane proteins covering a broad range of structurally and functionally diverse proteins. Our eukaryotic cell-free translation systems are capable to provide high molecular weight membrane proteins, fluorescent-labeled membrane proteins, as well as posttranslationally modified proteins for further downstream analysis.},
  language  = {en}
}
@article{ReimThammRolkeetal.2013,
  author    = {Reim, Tina and Thamm, Markus and Rolke, Daniel and Blenau, Wolfgang and Scheiner, Ricarda},
  title     = {Suitability of three common reference genes for quantitative real-time PCR in honey bees},
  series = {Apidologie : a quality journal in bee science},
  volume    = {44},
  journal   = {Apidologie : a quality journal in bee science},
  number    = {3},
  publisher = {Springer},
  address   = {Paris},
  issn      = {0044-8435},
  doi       = {10.1007/s13592-012-0184-3},
  pages     = {342 -- 350},
  year      = {2013},
  abstract  = {Honey bees are important model organisms for neurobiology, because they display a large array of behaviors. To link behavior with individual gene function, quantitative polymerase chain reaction is frequently used. Comparing gene expression of different individuals requires data normalization using adequate reference genes. These should ideally be expressed stably throughout lifetime. Unfortunately, this is frequently not the case. We studied how well three commonly used reference genes are suited for this purpose and measured gene expression in the brains of honey bees differing in age and social role. Although rpl32 is used most frequently, it only remains stable in expression between newly emerged bees, nurse-aged bees, and pollen foragers but shows a peak at the age of 12 days. The genes gapdh and ef1 alpha-f1, in contrast, are expressed stably in the brain throughout all age groups except newly emerged bees. According to stability software, gapdh was expressed most stably, followed by rpl32 and ef1 alpha-f1.},
  language  = {en}
}
@misc{ScheinerAbramsonBrodschneideretal.2013,
  author    = {Scheiner, Ricarda and Abramson, Charles I. and Brodschneider, Robert and Crailsheim, Karl and Farina, Walter M. and Fuchs, Stefan and Gr{\"u}newald, Bernd and Hahshold, Sybille and Karrer, Marlene and Koeniger, Gudrun and K{\"o}niger, Niko and Menzel, Randolf and Mujagic, Samir and Radspieler, Gerald and Schmickl, Thomas and Schneider, Christof and Siegel, Adam J. and Szopek, Martina and Thenius, Ronald},
  title     = {Standard methods for behavioural studies of Apis mellifera},
  series = {Journal of apicultural research},
  volume    = {52},
  journal   = {Journal of apicultural research},
  number    = {4},
  publisher = {International Bee Research Association},
  address   = {Cardiff},
  issn      = {0021-8839},
  doi       = {10.3896/IBRA.1.52.4.04},
  pages     = {58},
  year      = {2013},
  abstract  = {In this BEEBOOK paper we present a set of established methods for quantifying honey bee behaviour. We start with general methods for preparing bees for behavioural assays. Then we introduce assays for quantifying sensory responsiveness to gustatory, visual and olfactory stimuli. Presentation of more complex behaviours like appetitive and aversive learning under controlled laboratory conditions and learning paradigms under free-flying conditions will allow the reader to investigate a large range of cognitive skills in honey bees. Honey bees are very sensitive to changing temperatures. We therefore present experiments which aim at analysing honey bee locomotion in temperature gradients. The complex flight behaviour of honey bees can be investigated under controlled conditions in the laboratory or with sophisticated technologies like harmonic radar or RFID in the field. These methods will be explained in detail in different sections. Honey bees are model organisms in behavioural biology for their complex yet plastic division of labour. To observe the daily behaviour of individual bees in a colony, classical observation hives are very useful. The setting up and use of typical observation hives will be the focus of another section. The honey bee dance language has important characteristics of a real language and has been the focus of numerous studies. We here discuss the background of the honey bee dance language and describe how it can be studied. Finally, the mating of a honey bee queen with drones is essential to survival of the entire colony. We here give detailed and structured information how the mating behaviour of drones and queens can be observed and experimentally manipulated. The ultimate goal of this chapter is to provide the reader with a comprehensive set of experimental protocols for detailed studies on all aspects of honey bee behaviour including investigation of pesticide and insecticide effects.},
  language  = {en}
}
@phdthesis{Baumann2013,
  author    = {Baumann, Tobias},
  title     = {Stability and Interconnected protein properties studied with TEM ß-lactamase},
  address   = {Potsdam},
  pages     = {155 S.},
  year      = {2013},
  language  = {en}
}
@article{DrygalaZoller2013,
  author    = {Drygala, Frank and Zoller, Hinrich},
  title     = {Spatial use and interaction of the invasive raccoon dog and the native red fox in Central Europe - competition or coexistence?},
  series = {European journal of wildlife research},
  volume    = {59},
  journal   = {European journal of wildlife research},
  number    = {5},
  publisher = {Springer},
  address   = {New York},
  issn      = {1612-4642},
  doi       = {10.1007/s10344-013-0722-y},
  pages     = {683 -- 691},
  year      = {2013},
  abstract  = {The main objective was to discover extent of interference and/or exploitative competition between the native red fox (Vulpes vulpes) and the introduced, invasive raccoon dog (Nyctereues proconoides) in the intensively used, agricultural landscape of northeast Germany (Mecklenburg-Western Pomerania) using very high frequency (VHF) radio telemetry. We recorded location data for 12 foxes and 16 raccoon dogs between July 2004 and December 2006. Species had similar average home range sizes estimated in each season (K95). Home ranges of adjacent raccoon dogs and foxes overlapped from 0.5 to 74.5 \% with a mean of 26.4 \%. We found a significantly different home range overlap index between the species showing that raccoon dog ranges shifted between seasons to a greater extent than red fox ranges. The raccoon dog differed significantly from the red fox in its use of habitat types, preferring dense vegetation cover and avoiding open areas. The red fox displayed less preference for or avoidance of specific habitat types. Moreover, an almost neutral inter-specific interaction index ranging from -0.12 to 0.12 indicates that raccoon dogs and red foxes ignored each other. It is concluded that widespread and available resources and differences in spatial use patterns prevent competition between red foxes and raccoon dogs in the agricultural landscape of northeast Germany.},
  language  = {en}
}
@phdthesis{May2013,
  author    = {May, Felix},
  title     = {Spatial models of plant diversity and plant functional traits : towards a better understanding of plant community dynamics in fragmented landscapes},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-68444},
  school      = {Universit{\"a}t Potsdam},
  year      = {2013},
  abstract  = {The fragmentation of natural habitat caused by anthropogenic land use changes is one of the main drivers of the current rapid loss of biodiversity. In face of this threat, ecological research needs to provide predictions of communities' responses to fragmentation as a prerequisite for the effective mitigation of further biodiversity loss. However, predictions of communities' responses to fragmentation require a thorough understanding of ecological processes, such as species dispersal and persistence. Therefore, this thesis seeks an improved understanding of community dynamics in fragmented landscapes. In order to approach this overall aim, I identified key questions on the response of plant diversity and plant functional traits to variations in species' dispersal capability, habitat fragmentation and local environmental conditions. All questions were addressed using spatially explicit simulations or statistical models. In chapter 2, I addressed scale-dependent relationships between dispersal capability and species diversity using a grid-based neutral model. I found that the ratio of survey area to landscape size is an important determinant of scale-dependent dispersal-diversity relationships. With small ratios, the model predicted increasing dispersal-diversity relationships, while decreasing dispersal-diversity relationships emerged, when the ratio approached one, i.e. when the survey area approached the landscape size. For intermediate ratios, I found a U-shaped pattern that has not been reported before. With this study, I unified and extended previous work on dispersal-diversity relationships. In chapter 3, I assessed the type of regional plant community dynamics for the study area in the Southern Judean Lowlands (SJL). For this purpose, I parameterised a multi-species incidence-function model (IFM) with vegetation data using approximate Bayesian computation (ABC). I found that the type of regional plant community dynamics in the SJL is best characterized as a set of isolated "island communities" with very low connectivity between local communities. Model predictions indicated a significant extinction debt with 33\% - 60\% of all species going extinct within 1000 years. In general, this study introduces a novel approach for combining a spatially explicit simulation model with field data from species-rich communities. In chapter 4, I first analysed, if plant functional traits in the SJL indicate trait convergence by habitat filtering and trait divergence by interspecific competition, as predicted by community assembly theory. Second, I assessed the interactive effects of fragmentation and the south-north precipitation gradient in the SJL on community-mean plant traits. I found clear evidence for trait convergence, but the evidence for trait divergence fundamentally depended on the chosen null-model. All community-mean traits were significantly associated with the precipitation gradient in the SJL. The trait associations with fragmentation indices (patch size and connectivity) were generally weaker, but statistically significant for all traits. Specific leaf area (SLA) and plant height were consistently associated with fragmentation indices along the precipitation gradient. In contrast, seed mass and seed number were interactively influenced by fragmentation and precipitation. In general, this study provides the first analysis of the interactive effects of climate and fragmentation on plant functional traits. Overall, I conclude that the spatially explicit perspective adopted in this thesis is crucial for a thorough understanding of plant community dynamics in fragmented landscapes. The finding of contrasting responses of local diversity to variations in dispersal capability stresses the importance of considering the diversity and composition of the metacommunity, prior to implementing conservation measures that aim at increased habitat connectivity. The model predictions derived with the IFM highlight the importance of additional natural habitat for the mitigation of future species extinctions. In general, the approach of combining a spatially explicit IFM with extensive species occupancy data provides a novel and promising tool to assess the consequences of different management scenarios. The analysis of plant functional traits in the SJL points to important knowledge gaps in community assembly theory with respect to the simultaneous consequences of habitat filtering and competition. In particular, it demonstrates the importance of investigating the synergistic consequences of fragmentation, climate change and land use change on plant communities. I suggest that the integration of plant functional traits and of species interactions into spatially explicit, dynamic simulation models offers a promising approach, which will further improve our understanding of plant communities and our ability to predict their dynamics in fragmented and changing landscapes.},
  language  = {en}
}
@article{LeuschnerWulfBaeuchleretal.2013,
  author    = {Leuschner, Christoph and Wulf, Monika and B{\"a}uchler, Patricia and Hertel, Dietrich},
  title     = {Soil C and nutrient stores under Scots pine afforestations compared to ancient beech forests in the German Pleistocene - the role of tree species and forest history},
  series = {Forest ecology and management},
  volume    = {310},
  journal   = {Forest ecology and management},
  number    = {6},
  publisher = {Elsevier},
  address   = {Amsterdam},
  issn      = {0378-1127},
  doi       = {10.1016/j.foreco.2013.08.043},
  pages     = {405 -- 415},
  year      = {2013},
  abstract  = {In the diluvial lowlands of northern Germany, the Netherlands and northern Poland, an estimated similar to 5 Mio ha of Scots pine plantations (Pinus sylvestris) has been established on sandy soil in the last 250 years replacing the former temperate broad-leaved forests after extended periods of cultivation in the Middle Ages. We examined the effect of variable stand continuity of pine plantations (recent vs. ancient: 51-128 vs. >230 years) on the soil organic carbon (SOC) store and soil nutrient capital in comparison to ancient beech forests (>230 years of continuity) which represent the potential natural forest vegetation. Recent and ancient pine stands had c. 75\% larger organic layer C stores than ancient beech forests, while the total C stock in the soil (organic layer and mineral soil to 100 cm) was similar to 25\% larger in the beech forests due to higher C concentrations in 0-50 cm depth of the mineral soil. The soil stores of N-tot were similar to 50\% and the exchangeable Ca, K and Mg pools about three times larger under beech than under the pine stands. Resin-exchangeable P was enriched in the soils under ancient pine stands probably due to manuring in the past. After clear-cut and long cultivation, it may take >230 years of forest presence to restore the greatly reduced mineral soil C and N pools. The C and N sequestration potential of the soils appeared to be particularly small under pine indicating a pronounced tree species (pine vs. beech) effect on soil C and N dynamics. We conclude that, in the face of rising greenhouse gas emissions, the limited soil C and nutrient storage potential of Scots pine plantations on sandy soils needs consideration when selecting suitable tree species for future forestry. (C) 2013 Elsevier B.V. All rights reserved.},
  language  = {en}
}
@article{BroekerGohlkeMuelleretal.2013,
  author    = {Br{\"o}ker, Nina Kristin and Gohlke, Ulrich and M{\"u}ller, J{\"u}rgen J. and Uetrecht, Charlotte and Heinemann, Udo and Seckler, Robert and Barbirz, Stefanie},
  title     = {Single amino acid exchange in bacteriophage HK620 tailspike protein results in thousand-fold increase of its oligosaccharide affinity},
  series = {Glycobiology},
  volume    = {23},
  journal   = {Glycobiology},
  number    = {1},
  publisher = {Oxford Univ. Press},
  address   = {Cary},
  issn      = {0959-6658},
  doi       = {10.1093/glycob/cws126},
  pages     = {59 -- 68},
  year      = {2013},
  abstract  = {Bacteriophage HK620 recognizes and cleaves the O-antigen polysaccharide of Escherichia coli serogroup O18A1 with its tailspike protein (TSP). HK620TSP binds hexasaccharide fragments with low affinity, but single amino acid exchanges generated a set of high-affinity mutants with submicromolar dissociation constants. Isothermal titration calorimetry showed that only small amounts of heat were released upon complex formation via a large number of direct and solvent-mediated hydrogen bonds between carbohydrate and protein. At room temperature, association was both enthalpy- and entropy-driven emphasizing major solvent rearrangements upon complex formation. Crystal structure analysis showed identical protein and sugar conformers in the TSP complexes regardless of their hexasaccharide affinity. Only in one case, a TSP mutant bound a different hexasaccharide conformer. The extended sugar binding site could be dissected in two regions: first, a hydrophobic pocket at the reducing end with minor affinity contributions. Access to this site could be blocked by a single aspartate to asparagine exchange without major loss in hexasaccharide affinity. Second, a region where the specific exchange of glutamate for glutamine created a site for an additional water molecule. Side-chain rearrangements upon sugar binding led to desolvation and additional hydrogen bonding which define this region of the binding site as the high-affinity scaffold.},
  language  = {en}
}
@phdthesis{Razzaq2013,
  author    = {Razzaq, Muhammad Yasar},
  title     = {Shape-memory investigations of magneto-sensitive polymer nanocomposites},
  address   = {Potsdam},
  pages     = {140 S.},
  year      = {2013},
  language  = {en}
}
@inproceedings{FunkeuGouadoSchweigertetal.2013,
  author    = {Funkeu, A. D. M. and Gouado, I. and Schweigert, Florian J. and Tchounguep, F.},
  title     = {Serum response to a single dose of dietary carotenoids from steamed, fried and steam-dried squashes pulp (Cucurbita spp)},
  series = {Annals of nutrition \& metabolism : journal of nutrition, metabolic diseases and dietetics ; an official journal of International Union of Nutritional Sciences (IUNS)},
  volume    = {63},
  booktitle = {Annals of nutrition \& metabolism : journal of nutrition, metabolic diseases and dietetics ; an official journal of International Union of Nutritional Sciences (IUNS)},
  number    = {3},
  publisher = {Karger},
  address   = {Basel},
  issn      = {0250-6807},
  pages     = {1501 -- 1501},
  year      = {2013},
  language  = {en}
}
@article{HuettlHettrichMilleretal.2013,
  author    = {H{\"u}ttl, Christine and Hettrich, Cornelia and Miller, Reinhard and Paulke, Bernd-Reiner and Henklein, Petra and Rawel, Harshadrai Manilal and Bier, Frank Fabian},
  title     = {Self-assembled peptide amphiphiles function as multivalent binder with increased hemagglutinin affinity},
  series = {BMC biotechnology},
  volume    = {13},
  journal   = {BMC biotechnology},
  number    = {22},
  publisher = {BioMed Central},
  address   = {London},
  issn      = {1472-6750},
  doi       = {10.1186/1472-6750-13-51},
  pages     = {10},
  year      = {2013},
  abstract  = {Background: A promising way in diagnostic and therapeutic applications is the development of peptide amphiphiles (PAs). Peptides with a palmitic acid alkylchain were designed and characterized to study the effect of the structure modifications on self-assembling capabilities and the multiple binding capacity to hemagglutinin (HA), the surface protein of influenza virus type A. The peptide amphiphiles consists of a hydrophilic headgroup with a biological functionality of the peptide sequence and a chemically conjugated hydrophobic tail. In solution they self-assemble easily to micelles with a hydrophobic core surrounded by a closely packed peptide-shell. Results: In this study the effect of a multiple peptide binding partner to the receptor binding site of HA could be determined with surface plasmon resonance measurements. The applied modification of the peptides causes signal amplification in relationship to the unmodified peptide wherein the high constant specificity persists. The molecular assembly of the peptides was characterized by the determination of critical micelle concentration (CMC) with concentration of 10(-5) M and the colloidal size distribution. Conclusion: The modification of the physico-chemical parameters by producing peptide amphiphiles form monomeric structures which enhances the binding affinity and allows a better examination of the interaction with the virus surface protein hemagglutinin.},
  language  = {en}
}
@article{EccardHerde2013,
  author    = {Eccard, Jana and Herde, Antje},
  title     = {Seasonal variation in the behaviour of a short-lived rodent},
  doi       = {10.1186/1472-6785-13-43},
  year      = {2013},
  language  = {en}
}