@article{RaetzelKummer2010, author = {Raetzel, Stefan and Kummer, Volker}, title = {Die Erforschung der in Brandenburg vorkommenden Kryptogamen nach 1945 (Moose, Pilze)}, year = {2010}, language = {de} } @article{WronskiApioWankeretal.2006, author = {Wronski, Torsten and Apio, Ann and Wanker, R and Plath, Martin}, title = {Behavioural repertoire of the bushbuck (Tragelaphus scriptus): agonistic interactions, mating behaviour and parent-offspring relations}, doi = {10.1007/s10164-005-0186-y}, year = {2006}, abstract = {A free-ranging bushbuck (Tragelaphus scriptus) population was observed over a period of 3 years, thereby enabling a detailed description of the behavioural repertoire of this widespread but barely investigated solitary African antelope species. Agonistic and submissive behaviour patterns are described, among them several hitherto un- described behaviour patterns - such as "escorting", where territorial males guide intruders to the periphery of their territory - and "push-up position", an extreme form of submissive behaviour. Furthermore, we report on behaviour patterns of males and females during mating as well as on behaviour patterns of parents directed towards their offspring. Again, we describe a hitherto unknown behaviour: the protection of calves by adult males, which may be a socio-positive behaviour directed towards their offspring led by kin selection}, language = {en} } @article{YuryevKascheIgnatovaetal.2010, author = {Yuryev, Ruslan and Kasche, Volker and Ignatova, Zoya and Galunsky, Boris}, title = {Improved A. faecalis penicillin amidase mutant retains the thermodynamic and pH stability of the wild type enzyme}, issn = {1572-3887}, doi = {10.1007/s10930-010-9238-4}, year = {2010}, abstract = {Penicillin amidase from Alacaligenes faecalis is an attractive biocatalyst for hydrolysis of penicillin G for production of 6-aminopenicillanic acid, which is used in the synthesis of semi-synthetic beta-lactam antibiotics. Recently a mutant of this enzyme with extended C-terminus of the A-chain comprising parts of the connecting linker peptide was constructed. Its turnover number for the hydrolysis of penicillin G was 140 s(-1), about twice of the value for the wild-type enzyme (80 s(-1)). At the same time the specificity constant was improved about three-fold. The wild- type and the mutant enzymes showed similar pH stability suggesting that the linker peptide fragment covalently attached to the A-chain does not alter the electrostatic interactions in the protein core. Although the global stability of A. faecalis wild-type enzyme and the T206GS213G variant does not differ, the presence of the linker fragment stabilizes the domains interface, as evidenced by the monophasic transition of the mutant enzyme from folded to unfolded state during urea-induced denaturation. The high stability and activity of the mutant enzyme provides a rationale to use it as a biocatalyst in the industrial processes, where the enzyme must be more robust to fluctuations in the operational conditions.}, language = {en} } @article{LiuWollenbergerKatterleetal.2006, author = {Liu, Songqin and Wollenberger, Ursula and Katterle, Martin and Scheller, Frieder W.}, title = {Ferroceneboronic acid-based amperometric biosensor for glycated hemoglobin}, issn = {0925-4005}, doi = {10.1016/j.snb.2005.07.011}, year = {2006}, abstract = {An amperometric biosensor for the determination of glycated hemoglobin in human whole blood is proposed. The principle is based on the electrochemical measurement of ferroceneboronic acid (FcBA) that has been specifically bound to the glycated N-terminus. Hemoglobin is immobilized on a zirconium dioxide nanoparticle modified pyrolytic graphite electrode (PGE) in the presence of didodecyldimethylammonium bromide (DDAB). The incubation of this sensor in FcBA solution leads to the formation of an FcBA-modified surface due to the affinity interaction between boronate and the glycated sites of the hemoglobin. The binding of FcBA results in well-defined redox peaks with an E-0' of 0.299 V versus Ag/AgCl (1 M KCl). The square wave voltammetric response of the bound FcBA reflects the amount of glycated hemoglobin at the surface. This signal increases linearily with the degree of glycated hemoglobin from 6.8 to 14.0\% of total immobilized hemoglobin. The scheme was applied to the determination of the fraction of glycated hemoglobin in whole blood samples.}, language = {en} } @article{ReinekingSchroederEsselbach2006, author = {Reineking, Bj{\"o}rn and Schr{\"o}der-Esselbach, Boris}, title = {Constrain to perform : regularization of habitat models}, issn = {0304-3800}, doi = {10.1016/j.ecolmodel.2005.10.003}, year = {2006}, abstract = {Predictive habitat models are an important tool for ecological research and conservation. A major cause of unreliable models is excessive model complexity, and regularization methods aim to improve the predictive performance by adequately constraining model complexity. We compare three regularization methods for logistic regression: variable selection, lasso, and ridge. They differ in the way model complexity is measured: variable selection uses the number of estimated parameters, the lasso uses the sum of the absolute values of the parameter estimates, and the ridge uses the sum of the squared values of the parameter estimates. We performed a simulation study with environmental data of a real landscape and artificial species occupancy data. We investigated the effect of three factors on relative model performance: (1) the number of parameters (16, 10, 6, 2) in the 'true' model that determined the distribution of the artificial species, (2) the prevalence, i.e. the proportion of sites occupied by the species, and (3) the sample size (measured in events per variable, EPV). Regularization improved model discrimination and calibration. However, no regularization method performed best under all circumstances: the ridge generally performed best in the 16-parameter scenario. The lasso generally performed best in the 10-parameter scenario. Variable selection with AIC was best at large sample sizes (EPV >= 10) when less than half of the variables influenced the species distribution. However, at low sample sizes (EPV < 10), ridge and lasso always performed best, regardless of the parameter scenario or prevalence. Overall, calibration was best in ridge models. Other methods showed overconfidence, particularly at low sample sizes. The percentage of correctly identified models was low for both lasso and variable selection. Variable selection should be used with caution. Although it can produce the best performing models under certain conditions, these situations are difficult to infer from the data. Ridge and lasso are risk-averse model strategies that can be expected to perform well under a wide range of underlying species-habitat relationships, particularly at small sample sizes.}, language = {en} } @article{RossmanithGrimmBlaumetal.2006, author = {Rossmanith, Eva and Grimm, Volker and Blaum, Niels and Jeltsch, Florian}, title = {Behavioural flexibility in the mating system buffers population extinction: lessons from the Lesser Spotted Woodpecker (Picoides minor)}, doi = {10.1111/j.1365-2656.2006.01074.x}, year = {2006}, abstract = {In most stochastic models addressing the persistence of small populations, environmental noise is included by imposing a synchronized effect of the environment on all individuals. However, buffer mechanisms are likely to exist that may counteract this synchronization to some degree. We have studied whether the flexibility in the mating system, which has been observed in some bird species, is a potential mechanism counteracting the synchronization of environmental fluctuations. Our study organism is the lesser spotted woodpecker Picoides minor (Linnaeus), a generally monogamous species. However, facultative polyandry, where one female mates with two males with separate nests, was observed in years with male-biased sex ratio. We constructed an individual-based model from data and observations of a population in Taunus, Germany. We tested the impact of three behavioural scenarios on population persistence: (1) strict monogamy; (2) polyandry without costs; and (3) polyandry assuming costs in terms of lower survival and reproductive success for secondary males. We assumed that polyandry occurs only in years with male-biased sex ratio and only for females with favourable breeding conditions. Even low rates of polyandry had a strong positive effect on population persistence. The increase of persistence with carrying capacity was slower in the monogamous scenario, indicating strong environmental noise. In the polyandrous scenarios, the increase of persistence was stronger, indicating a buffer mechanism. In the polyandrous scenarios, populations had a higher mean population size, a lower variation in number of individuals, and recovered faster after a population breakdown. Presuming a realistic polyandry rate and costs for polyandry, there was still a strong effect of polyandry on persistence. The results show that polyandry and in general flexibility in mating systems is a buffer mechanism that can significantly reduce the impact of environmental and demographic noise in small populations. Consequently, we suggest that even behaviour that seems to be exceptional should be considered explicitly when predicting the persistence of populations}, language = {en} } @article{BuscagliaSchulerLapidusetal.2003, author = {Buscaglia, Marco and Schuler, Benjamin and Lapidus, Lisa J. and Eaton, Wiliam A. and Hofrichter, James}, title = {Kinetics of intramolecular contact formation in a denatured protein}, issn = {0022-2836}, year = {2003}, abstract = {Quenching of the triplet state of tryptophan by cysteine has provided a new tool for measuring the rate of forming a specific intramolecular contact in disordered polypeptides. Here, we use this technique to investigate contact formation in the denatured state of CspTm, a small cold-shock protein from Thermotoga maritima, engineered to contain a single tryptophan residue (W29) and a single cysteine residue at the C terminus (C67). At all concentrations of denaturant, the decay rate of the W29 triplet of the unfolded protein is more than tenfold faster than the rate observed for the native protein (not, vert, similar104 s;1). Experiments on the unfolded protein without the added C- terminal cysteine residue show that this faster rate results entirely from contact quenching by C67. The quenching rate in the unfolded state by C67 increases at concentrations of denaturant that favor folding, indicating a compaction of the unfolded protein as observed previously in single-molecule Foerster resonance energy transfer (FRET) experiments.}, language = {en} } @article{MoodleyBrufordBleidornetal.2009, author = {Moodley, Yoshan and Bruford, Michael W. and Bleidorn, Christoph and Wronski, Torsten and Apio, Ann and Plath, Martin}, title = {Analysis of mitochondrial DNA data reveals non-monophyly in the bushbuck (Tragelaphus scriptus) complex}, issn = {1616-5047}, doi = {10.1016/j.mambio.2008.05.003}, year = {2009}, language = {en} } @article{NagelWarsinke2006, author = {Nagel, Birgit and Warsinke, Axel}, title = {Towards separation-free electrochemical affinity sensors by using antibodies, aptamers and molecularly imprinted polymers : a review}, doi = {10.1080/00032710600853903}, year = {2006}, language = {en} } @article{WallschlaegerRathgeber2006, author = {Wallschl{\"a}ger, Hans-Dieter and Rathgeber, J{\"o}rg}, title = {Beitr{\"a}ge zur Biologie einiger Spechtarten in S{\"u}dbrasilien}, issn = {0030-5723}, year = {2006}, language = {de} } @article{Klatt2006, author = {Klatt, Raimund}, title = {Assoziationen von Heuschrecken (Saltatoria: Ensifera et Caelifera) trockener Offenlandbiotope Brandenburgs in Abh{\"a}ngigkeit von der nat{\"u}rlichen Sukzession}, year = {2006}, language = {de} } @article{NitscheKurthDunkhorstetal.2007, author = {Nitsche, Andreas and Kurth, Andreas and Dunkhorst, Anna and P{\"a}nke, Oliver and Sielaff, Hendrik and Junge, Wolfgang and Muth, Doreen and Scheller, Frieder W. and St{\"o}cklein, Walter F. M. and Pauli, Georg and Kage, Andreas}, title = {One-step selection of vaccinia virus binding DNA-aptamers by MonoLEX}, doi = {10.1186/1472-6750-7-48}, year = {2007}, language = {en} } @article{FettkeChiaEckermannetal.2006, author = {Fettke, J{\"o}rg and Chia, Tansy and Eckermann, Nora and Smith, Alison M. and Steup, Martin}, title = {A transglucosidase necessary for starch degradation and maltose metabolism in leaves at night acts on cytosolic heteroglycans (SHG)}, issn = {0960-7412}, doi = {10.1111/j.1365-313X.2006.02732.x}, year = {2006}, abstract = {The recently characterized cytosolic transglucosidase DPE2 (EC 2.4.1.25) is essential for the cytosolic metabolism of maltose, an intermediate on the pathway by which starch is converted to sucrose at night. In in vitro assays, the enzyme utilizes glycogen as a glucosyl acceptor but the in vivo acceptor molecules remained unknown. In this communication we present evidence that DPE2 acts on the recently identified cytosolic water-soluble heteroglycans (SHG) as does the cytosolic phosphorylase (EC 2.4.1.1) isoform. By using in vitro two-step C-14 labeling assays we demonstrate that the two transferases can utilize the same acceptor sites of the SHG. Cytosolic heteroglycans from a DPE2-deficient Arabidopsis mutant were characterized. Compared with the wild type the glucose content of the heteroglycans was increased. Most of the additional glucosyl residues were found in the outer chains of SHG that are released by an endo- alpha-arabinanase (EC 3.2.1.99). Additional starch-related mutants were characterized for further analysis of the increased glucosyl content. Based on these data, the cytosolic metabolism of starch-derived carbohydrates is discussed}, language = {en} } @article{KappBeissenhirtzGeyeretal.2006, author = {Kapp, Andreas and Beissenhirtz, Moritz Karl and Geyer, F. and Scheller, Frieder W. and Viezzoli, Maria Silvia and Lisdat, Fred}, title = {Electrochemical and sensorial behaviour of SOD mutants immobilized on gold electrodes in aqueous / organic solvent mixtures}, issn = {1040-0397}, doi = {10.1002/elan.200603620}, year = {2006}, language = {en} } @article{Knoesche2006, author = {Kn{\"o}sche, R{\"u}diger}, title = {Organic sediment nutrient concentrations and their relationship with the hydrological connectivity of floodplain waters (River Havel, NE Germany)}, year = {2006}, abstract = {Investigations on large canalised rivers, for example the Danube, have shown that transported particulate matter, which is typically inorganic, is predominantly deposited in waters near the river's main channel. This investigation deals with the lower section of the River Havel (NE Germany), a canalised lowland river with a very flat floodplain. This river is highly polluted by nutrients from urban areas (Berlin) and a long chain of river lakes produces high concentrations of phytoplankton. Due to the high proportion of planktogenic detritus, it was hypothesised that greater quantities of nutrient-rich fine particulate organic matter (FPOM) would be deposited in floodplain waters located further from the main channel than has been reported for large rivers.The total nutrient, P-binding metal (Fe, Al, and Mn), organic and inorganic carbon (TOC, TIC) contents of the upper organic sediment layer (0 - 4 cm) were analysed in samples collected from 48 floodplain water and river sites. The sediment bulk density, calculated on the basis of dry mass content and loss on ignition, was used to characterize the waters according to the impact of the river current. The results showed that the variability of total phosphorus (TP) was best explained by the variability of total iron (TFe, R2 = 0.52). The floodplain water sediments could clearly be separated into two groups on the basis of the sediment particle size composition, and of the element ratios TOC:TP, TN:TP, primarily TFe:TP. The sediments from impounded river sections and from mouth sections of backwaters (approx. 100 - 200 m) were characterized by a high proportion particles from the 0.1 - 0.5 mm size fraction and by homogeneous, low TFe:TP, TOC:TP and TN:TP ratios. Sediments from distal sections of backwaters and of oxbow lakes tended to exhibit high element ratios with much higher variability. These results were interpreted as a spatially limited impact of the river on the floodplain water sediments. Contrary to expectation, the phosphorus bound in river seston was predominantly and very homogeneously deposited in the impounded river and mouth sections of backwaters. This implies that the inundation of the floodplain waters during spring floods seems to have no important material impact on the sediments in waters of low hydrologically connectivity with the River Havel.}, language = {en} } @article{Micheel2006, author = {Micheel, Burkhard}, title = {Monoclonal Antibodies}, isbn = {978-3-540-44244-8}, year = {2006}, language = {en} } @article{SchefflerRessler2007, author = {Scheffler, Ingo and Ressler, Rene}, title = {Untersuchungen zur Ektoparasitenfauna (Siphonaptera: Ischnopsyllidae; Diptera: Nycteribiidae; Heteroptera: Cimicidae) an Flederm{\"a}usen in Brandenburg : Teil 2}, year = {2007}, abstract = {Investigation of the ectoparasitic fauna (Siphonaptera: Ischnopsyllidae; Diptera: Nycteribiidae; Heteroptera: Cimicidae) on bats in Brandenburg, Germany (part 2). The current investigation of bats in summer and winter quarters took place in addition to the study of Scheffler and Ressler (2005) and supplied new data for spreading and host spectrum of fleas and bat flies. With Penicillidia monoceros Speiser, 1900 on Myotis daubentoni a species of bat fly was found, which was not known in brandenburg (Germany) before. The proof of the flea species Nycteridopsylla longiceps Rothschild, 1908 at Pipistrellus pipistrellus is only the third detection in Brandenburg after 1911 and 1964. With Barbastella barbastellus the spectrum of examinated bats was extended. This species was parasitized by two flea species. On four species of bats also bugs (Heteroptera: Cimicidae)could be caught in summer quarters, which belong to the species Cimex dissimilis (Horvat, 1910). The causes of varying parasitizing rates with different species of fleas and bat flies are discussed.}, language = {de} } @article{DoyleVohlandRocketal.2007, author = {Doyle, U and Vohland, K and Rock, J and Schuemann, K and Ristow, Michael}, title = {Nachwachsende Rohstoffe : eine Einsch{\"a}tzung aus Sicht des Naturschutzes}, year = {2007}, language = {de} } @article{Spijkerman2007, author = {Spijkerman, Elly}, title = {Is there really insufficient support for Tilman's R* concept? A comment on Miller et al}, year = {2007}, language = {en} } @article{Gaedke2007, author = {Gaedke, Ursula}, title = {Spectral analysis unmasks synchronous and compensatory dynamics in plankton communities}, year = {2007}, language = {en} } @article{BellParkPearceetal.2007, author = {Bell, Elanor M. and Park, Tae-Gyu and Pearce, Imojen and Rublee, Parke A. and Bolch, Christopher J. S. and Hallegraeff, Gustaff M.}, title = {Detection of a novel ecotype of Pfiesteria piscicida (Dinophyceae) in an Antarctic saline lake by real-time PCR}, year = {2007}, language = {en} } @article{HigginsFloresSchurr2008, author = {Higgins, Steven I. and Flores, Olivier and Schurr, Frank Martin}, title = {Costs of persistence and the spread of competing seeders and sprouters}, issn = {0022-0477}, doi = {10.1111/j.1365-2745.2008.01391.x}, year = {2008}, language = {en} } @article{Clegg2007, author = {Clegg, Mark R.}, title = {Behavioral response as a predictor of seasonal depth distribution and vertical niche separation in freshwater phytoplanktonic flagellates}, year = {2007}, language = {en} } @article{DreyerGajdanowicz2009, author = {Dreyer, Ingo and Gajdanowicz, Pawel}, title = {Regulation of the gating mode of the Arabidopsis K+ channel AKT2 is important for adaptation to abiotic stress}, issn = {1095-6433}, doi = {10.1016/j.cbpa.2009.04.426}, year = {2009}, language = {en} } @article{Spijkerman2007, author = {Spijkerman, Elly}, title = {Phosphorus acquisition by Chlamydomonas acidophila under autotrophic and osmo-mixotrophic growth conditions}, year = {2007}, language = {en} } @article{Kummer2007, author = {Kummer, Volker}, title = {Bemerkenswerte Pflanzenarten des Spreewaldes : 2. Moorflanzen ; Teil 1}, year = {2007}, language = {de} } @article{ScherberEisenhauerWeisseretal.2010, author = {Scherber, Christoph and Eisenhauer, Nico and Weisser, Wolfgang W. and Schmid, Bernhard and Voigt, Winfried and Fischer, Markus and Schukze, Ernst-Detlef and Roscher, Christiane and Weigelt, Alexandra and Allan, Eric and Beßler, Holger and Bonkowski, Michael and Buchmann, Nina and Buscot, Fran{\c{c}}ois and Clement, Lars W. and Ebeling, Anne and Engels, Christof and Halle, Stefan and Kertscher, Ilona and Klein, Alexandra-Maria and Koller, Robert and K{\"o}nig, Stephan and Kowalski, Esther and Kummer, Volker and Kuu, Annely and Lange, Markus and Lauterbach, Dirk}, title = {Bottom-up effects of plant diversity on multitrophic interactions in a biodiversity experiment}, issn = {0028-0836}, year = {2010}, language = {en} } @article{SchiffersSchurrTielboergeretal.2008, author = {Schiffers, Katja and Schurr, Frank Martin and Tielb{\"o}rger, Katja and Urbach, Carsten and Moloney, Kirk A. and Jeltsch, Florian}, title = {Dealing with virtual aggregation : a new index for analysing heterogeneous point patterns}, issn = {0906-7590}, doi = {10.1111/j.0906-7590.2008.05374.x}, year = {2008}, language = {en} } @article{LoksteinHoextermannLeupoldetal.2009, author = {Lokstein, Heiko and Hoextermann, Ekkehard and Leupold, Dieter and Garab, Gyoezoe and Renger, Gernot}, title = {A tribute : Professor Dr. Paul Hoffmann (March 28, 1931-July 10, 2008), a scientist with a great collaborative spirit}, issn = {0166-8595}, doi = {10.1007/s11120-009-9414-6}, year = {2009}, language = {en} } @article{SellrieSchenkBehrsingetal.2007, author = {Sellrie, Frank and Schenk, J{\"o}rg A. and Behrsing, Olaf and Drechsel, Oliver and Micheel, Burkhard}, title = {Cloning and characterization of a single chain antibody to glucose oxidase from a murine hybridoma}, year = {2007}, abstract = {Glucose oxidase (GOD) is an oxidoreductase catalyzing the reaction of glucose and oxygen to peroxide and gluconolacton (EC 1.1.3.4.). GOD is a widely used enzyme in biotechnology. Therefore the production of monoclonal antibodies and antibody fragments to GOD are of interest in bioanalytics and even tumor therapy. We describe here the generation of a panel of monoclonal antibodies to native and heat inactivated GOD. One of the hybridomas, E13BC8, was used for cloning of a single chain antibody (scFv). This scFv was expressed in Escherichia coli XL1-blue with the help of the vector system pOPE101. The scFv was isolated from the periplasmic fraction and detected by western blotting. It reacts specifically with soluble active GOD but does not recognize denatured GOD adsorbed to the solid phase. The same binding properties were also found for the monoclonal antibody E13BC8.}, language = {en} } @article{SchenkSellrieBoettgeretal.2007, author = {Schenk, J{\"o}rg A. and Sellrie, Frank and B{\"o}ttger, Volker and Micheel, Burkhard and St{\"o}cklein, Walter F. M.}, title = {Generation and application of a fluorescein-specific single chain antibody}, year = {2007}, abstract = {A recombinant single chain antibody fragment (designated scDE1) of the murine monoclonal anti-fluorescein antibody B13-DE1 was generated using the original hybridoma cells as source for the variable antibody heavy and light chain (VH and VL) genes. After cloning the variable genes into a phage vector a functional antibody fragment was selected by phage display panning. Recombinant antibody could be expressed as phage antibody and as soluble single chain antibody in Escherichia coli. High yield of scDE1 could also be detected in bacterial culture supernatant. The scDE1 showed the same binding specificity as the parental monoclonal antibody, i.e. it bound fluorescein, fluorescein derivatives and a fluorescein peptide mimotope. Surface plasmon resonance revealed a K(D) of 19 nM for the scDE1 compared to 0.7 nM for the monoclonal antibody. The isolated soluble scDE1 could easily be conjugated to horseradish peroxidase which allowed the use of the conjugate as universal indicator for the detection of fluorescein-labelled proteins in different immunoassays. Detection of hCG in urine was performed as a model system using scDE1. In addition to E. coli the scFv genes could also be transferred and expressed in eukaryotic cells. Finally, we generated HEK293 cells expressing the scDE1 at the cell surface.}, language = {en} } @article{LawatscheckAleksaiteSchenketal.2007, author = {Lawatscheck, Robert and Aleksaite, Egle and Schenk, J{\"o}rg A. and Micheel, Burkhard and Jandrig, Burkhard and Holland, Gudrun and Sasnauskas, Kestutius and Gedvilaite, Alma and Ulrich, Rainer G{\"u}nter}, title = {Chimeric polyomavirus-derived virus-like particles : the immunogenicity of an inserted peptide applied without adjuvant to mice depends on its insertion site and its flanking linker sequence}, issn = {0882-8245}, doi = {10.1089/vim.2007.0023}, year = {2007}, abstract = {We inserted the sequence of the carcinoembryonic antigen-derived T cell epitope CAP-1-6D (CEA) into different positions of the hamster polyomavirus major capsid protein VP1. Independently from additional flanking linkers, yeast- expressed VP1 proteins harboring the CEA insertion between VP1 amino acid residues 80 and 89 (site 1) or 288 and 295 (site 4) or simultaneously at both positions assembled to chimeric virus-like particles (VLPs). BALB/c mice immunized with adjuvant-free VLPs developed VP1- and epitope-specific antibodies. The level of the CEA-specific antibody response was determined by the insertion site, the number of inserts, and the flanking linker. The strongest CEA-specific antibody response was observed in mice immunized with VP1 proteins harboring the CEA insert at site 1. Moreover, the CEA- specific antibodies in these mice were still detectable 6 mo after the final booster immunization. Our results indicate that hamster polyomavirus-derived VLPs represent a highly immunogenic carrier for foreign insertions that might be useful for clinical and therapeutic applications.}, language = {en} } @article{PagelFritzschBiedermannetal.2008, author = {Pagel, J{\"o}rn and Fritzsch, Katrin and Biedermann, Robert and Schr{\"o}der-Esselbach, Boris}, title = {Annual plants under cyclic disturbance regime : better understanding through model aggregation}, issn = {1051-0761}, year = {2008}, abstract = {In their application for conservation ecology, 'classical' analytical models and individual-based simulation models (IBMs) both entail their specific strengths and weaknesses, either in providing a detailed and realistic representation of processes or in regard to a comprehensive model analysis. This well-known dilemma may be resolved by the combination of both approaches when tackling certain problems of conservation ecology. Following this idea, we present the complementary use of both an IBM and a matrix population model in a case study on grassland conservation management. First, we develop a spatially explicit IBM to simulate the long-term response of the annual plant Thlaspi perfoliatum (Brassicaceae), claspleaf pennycress, to different management schemes (annual mowing vs. infrequent rototilling) based on field experiments. In order to complement the simulation results by further analyses, we aggregate the IBM to a spatially nonexplicit deterministic matrix population model. Within the periodic environment created by management regimes, population dynamics are described by periodic products of annual transition matrices. Such periodic matrix products provide a very conclusive framework to study the responses of species to different management return intervals. Thus, using tools of matrix model analysis (e.g., loop analysis), we can both identify dormancy within the age-structured seed bank as the pivotal strategy for persistence under cyclic disturbance regimes and reveal crucial thresholds in some less certain parameters. Results of matrix model analyses are therefore successfully tested by comparing their results to the respective IBM simulations. Their implications for an enhanced scientific basis for management decisions are discussed as well as some general benefits and limitations of the use of aggregating modeling approaches in conservation.}, language = {en} } @article{KoechyTielboerger2007, author = {K{\"o}chy, Martin and Tielb{\"o}rger, Katja}, title = {Hydrothermal time model of germination : parameters for 36 Mediterranean annual species based on a simplified approach}, issn = {1439-1791}, doi = {10.1016/j.baae.2006.04.002}, year = {2007}, abstract = {Germination rates and germination fractions of seeds can be predicted well by the hydrothermal time (HTT) model. Its four parameters hydrothermal time, minimum soil temperature, minimum soil moisture, and variation of minimum soil moisture, however, must be determined by lengthy germination experiments at combinations of several levels of soil temperature and moisture. For some applications of the HTT model it is more important to have approximate estimates for many species rather than exact values for only a few species. We suggest that minimum temperature and variation of minimum moisture can be estimated from literature data and expert knowledge. This allows to derive hydrothermal time and minimum moisture from existing data from germination experiments with one level of temperature and moisture. We applied our approach to a germination experiment comparing germination fractions of wild annual species along an aridity gradient in Israel. Using this simplified approach we estimated hydrothermal time and minimum moisture of 36 species. Comparison with exact data for three species shows that our method is a simple but effective method for obtaining parameters for the HTT model. Hydrothermal time and minimum moisture supposedly indicate climate related germination strategies. We tested whether these two parameters varied with the climate at the site where the seeds had been collected. We found no consistent variation with climate across species, suggesting that variation is more strongly controlled by site-specific factors.Abstract auch auf deutsch vorhanden:Keimungsgeschwindigkeit und Anteil gekeimter Samen lassen sich gut mit dem Hydrothermalzeit-Modell bestimmen. Dessen vier Parameter Hydrothermalzeit, Mindesttemperatur, Mindestbodenfeuchte und Streuung der Mindestbodenfeuchte m{\"u}ssen jedoch durch aufwendige Keimungsversuche bei Kombinationen von mehreren Temperatur- und Feuchtigkeitsstufen bestimmt werden. F{\"u}r manche Anwendungen des Hydrothermalzeit-Modells sind aber ungef{\"a}hre Werte f{\"u}r viele Arten wichtiger als genaue Werte f{\"u}r wenige Arten. Wenn die Mindesttemperatur und die Streuung der Mindestfeuchte aus Ver{\"o}ffentlichungen und Expertenwissen gesch{\"a}tzt w{\"u}rde, k{\"o}nnen die Hydrothermalzeit und Mindestbodenfeuchte aus vorhandenen Daten von Keimungsversuchen mit nur einer Temperatur- und Feuchtigkeitsstufe berechnet werden. Wir haben unseren Ansatz auf einen Keimungsversuch zum Vergleich der Keimungsquote wilder einj{\"a}hriger Arten entlang eines Trockenheitsgradienten in Israel angewendet. Mit diesem Ansatz bestimmten wir die Hydrothermalzeit und Mindestfeuchtigkeit von 36 Arten. Der Vergleich mit genauen Werten f{\"u}r drei Arten zeigt, dass mit unserem Ansatz Hydrothermalzeit-Parameter einfach und effektiv bestimmt werden k{\"o}nnen. Hydrothermalzeit und Mindestfeuchtigkeit sollten auch bestimmte klimabedingte Keimungsstrategien anzeigen. Deshalb testeten wir, ob diese zwei Parameter mit dem Klima am Ursprungsort der Samen zusammenh{\"a}ngen. Wir fanden jedoch keinen f{\"u}r alle Arten {\"u}bereinstimmenden Zusammenhang, so dass die Unterschiede vermutlich st{\"a}rker durch stand{\"o}rtliche als durch klimatische Ursachen hervorgerufen werden.}, language = {en} } @article{SchefflerKetelhutMohasseb2007, author = {Scheffler, Christiane and Ketelhut, Kerstin and Mohasseb, Iman}, title = {Does physical education modify the body composition? - Results of a longitudinal study of pre-school children}, year = {2007}, abstract = {The aim of the study is the analysis of body composition, motor development and cardiovascular parameters of preschool-children. In 2001/2002 a longitudinal study started in 17 nursery schools in Berlin. A total of 160 children out of the 264 children participated in a regular exercise programme. After 24 months of training significant differences of body composition, motor skills and cardiovascular parameters between 5 complete year old children of the intervention and the control group were observed. The results show that such an exercise programme is successful as a preventive measure to decrease the risk of obesity.}, language = {en} } @article{ThieleJeltschBlaum2008, author = {Thiele, T. and Jeltsch, Florian and Blaum, Niels}, title = {Importance of woody vegetation for foraging site selection in the Southern Pied Babbler (Turdoides bicolor) under two different land use regimes}, issn = {0140-1963}, year = {2008}, language = {en} } @article{Koechy2008, author = {K{\"o}chy, Martin}, title = {Effects of simulated daily precipitation patterns on annual plant populations depend on life stage and climatic region}, year = {2008}, abstract = {Background To improve the understanding of consequences of climate change for annual plant communities, I used a detailed, grid-based model that simulates the effect of daily rainfall variability on individual plants in five climatic regions on a gradient from 100 to 800 mm mean annual precipitation (MAP). The model explicitly considers moisture storage in the soil. I manipulated daily rainfall variability by changing the daily mean rain (DMR, rain volume on rainy days averaged across years for each day of the year) by ± 20\%. At the same time I adjusted intervals appropriately between rainy days for keeping the mean annual volume constant. In factorial combination with changing DMR I also changed MAP by ± 20\%. Results Increasing MAP generally increased water availability, establishment, and peak shoot biomass. Increasing DMR increased the time that water was continuously available to plants in the upper 15 to 30 cm of the soil (longest wet period, LWP). The effect of DMR diminished with increasing humidity of the climate. An interaction between water availability and density-dependent germination increased the establishment of seedlings in the arid region, but in the more humid regions the establishment of seedlings decreased with increasing DMR. As plants matured, competition among individuals and their productivity increased, but the size of these effects decreased with the humidity of the regions. Therefore, peak shoot biomass generally increased with increasing DMR but the effect size diminished from the semiarid to the mesic Mediterranean region. Increasing DMR reduced via LWP the annual variability of biomass in the semiarid and dry Mediterranean regions. Conclusion More rainstorms (greater DMR) increased the recharge of soil water reservoirs in more arid sites with consequences for germination, establishment, productivity, and population persistence. The order of magnitudes of DMR and MAP overlapped partially so that their combined effect is important for projections of climate change effects on annual vegetation.}, language = {en} } @article{Scheffler2008, author = {Scheffler, Ingo}, title = {Zur F{\"a}higkeit von Ektoparasiten der Flederm{\"a}use ihre Wirte aktiv aufzusuchen}, year = {2008}, abstract = {Active host-searching in bat ectoparasites. As a pilot study, this paper discribes the mobility of ectoparasites after removing from their hosts. Spinturnix acuminatus (Koch, 1836)(Acari, Spinturnicidae) a permanent stationary bat mite normally survives the removing only a few hours. This species moves easily on the patagium or on human skin. In contrast, on other surfaces the movements of this species seems to be less orientated and it is unlikely that the mite can reach a host in some distance. Nycteribia kolenatii Theodor \& Moscona, 1954 (Diptera: Nycteribiidae) a bat fly, shows excellent movements in the fur of its host. The specimens survive the removing from the host several days. The ability to clamber up a wall was tested with a rough clay brick. The bat fly achieves only 9,6 cm on average. This result does not support good abilities for host searching in this species. Bat fleas (Siphonaptera: Ischnopsyllidae): Ischnopsyllus elongatus (Curtis, 1832), I. hexactenus (Kolenati, 1856), I. simplex (Rothschild, 1906)and other species survive the removing from their hosts several days. In case of a vertical barrier they showed a stereotype upside climbing, followed by a horizontal appetitive behavior. The fleas were climbing a distance in the upside of 6,45 m on average(1,2-21,68 m). As excellent climbers bat fleas are able to overcome edges and slopes and to crawl on the ceiling. Therefore, it seems to be no problem for a flea to parasite any bat in a resting room. Additionally, some bugs (Cimex lectularius Linnaeus, 1758) were examinated. They run with a speed of 63 cm per minute and were able to climb easily on the brick. On average their stretch of way achieved 2,85 m in ten minutes.}, language = {de} } @article{BehrsingMicheel2008, author = {Behrsing, Olaf and Micheel, Burkhard}, title = {Monoklonale Antik{\"o}rper : Grundlagen und ihre Bedeutung in Diagnostik und Therapie}, isbn = {978-3-540-69412-0}, year = {2008}, language = {de} } @article{KoechyMathajJeltschetal.2008, author = {K{\"o}chy, Martin and Mathaj, Martin and Jeltsch, Florian and Malkinson, Dan}, title = {Resilience of stocking capacity to changing climate in arid to Mediterranean landscapes}, doi = {10.1007/s10113-008-0048-6}, year = {2008}, abstract = {Small livestock is an important resource for rural human populations in dry climates. How strongly will climate change affect the capacity of the rangeland? We used hierarchical modelling to scale quantitatively the growth of shrubs and annual plants, the main food of sheep and goats, to the landscape extent in the eastern Mediterranean region. Without grazing, productivity increased in a sigmoid way with mean annual precipitation. Grazing reduced productivity more strongly the drier the landscape. At a point just under the stocking capacity of the vegetation, productivity declined precipitously with more intense grazing due to a lack of seed production of annuals. We repeated simulations with precipitation patterns projected by two contrasting IPCC scenarios. Compared to results based on historic patterns, productivity and stocking capacity did not differ in most cases. Thus, grazing intensity remains the stronger impact on landscape productivity in this dry region even in the future.}, language = {en} } @article{BergBilzRistowetal.2008, author = {Berg, Christian and Bilz, Melanie and Ristow, Michael and Raab, Bernd}, title = {Important Plant Areas (IPA) : ein internationales Konzept zum Schutz der Wildpflanzen der Erde}, year = {2008}, language = {de} } @article{KoechyBrakenhielm2008, author = {Koechy, Martin and Brakenhielm, Sven}, title = {Separation of effects of moderate N deposition from natural change in ground vegetation of forests and bogs}, doi = {10.1016/j.foreco.2007.11.039}, year = {2008}, abstract = {The effect of moderate rates of nitrogen deposition on ground floor vegetation is poorly predicted by uncontrolled surveys or fertilization experiments using high rates of nitrogen (N) addition. We compared the temporal trends of ground floor vegetation in permanent plots with moderate (7-13 kg/ha/yr) and lower bulk N deposition (4-6 kg/ha/yr) in southern Sweden during 1982-1998. We examined whether trends differed between growth forms (vascular plants and bryophytes) and vegetation types (three types of coniferous forest, deciduous forest, and bog). Trends of site-standardized cover and richness varied among growth forms, vegetation types, and deposition regions. Cover in spruce forests decreased at the same rate with both moderate and low deposition. In pine forests cover decreased faster with moderate deposition and in bogs cover decreased faster with low deposition. Cover of bryophytes in spruce forests increased at the same rate with both moderate and low deposition. In pine forests cover decreased faster with moderate deposition and in bogs and deciduous forests there was a strong non-linear increase with moderate deposition. The trend of number of vascular plants was constant with moderate and decreased with low deposition. We found no trend in the number of bryophyte species. We propose that the decrease of cover and number with low deposition was related to normal ecosystem development (increased shading), suggesting that N deposition maintained or increased the competitiveness of some species in the moderate-deposition region. Deposition had no consistent negative effect on vegetation suggesting that it is less important than normal successional processes.}, language = {en} } @article{SellrieWarsinkeMicheel2008, author = {Sellrie, Frank and Warsinke, Axel and Micheel, Burkhard}, title = {Homogeneous indirect fluorescence quenching immunoassay for the determination of low molecular weight substances}, series = {Analytical \& bioanalytical chemistry}, volume = {386}, journal = {Analytical \& bioanalytical chemistry}, number = {2}, pages = {206 -- 210}, year = {2008}, abstract = {This paper describes the principle of a homogeneous indirect fluorescence quenching immunoassay that uses monoclonal antibodies. It is a carrier-free assay system that is performed completely in solution. The assay system was established for the determination of a low molecular weight substance (hapten), the herbicide diuron, used as a model analyte. A fluorescein-monuron conjugate together with a fluorescence-quenching monoclonal anti-fluorescein antibody and an anti-analyte antibody (here an anti-diuron/monuron monoclonal antibody) were used as central components of the assay. The fluorescein-monuron conjugate can be bound either by the anti-fluorescein monoclonal antibody or by the anti-diuron/ monuron monoclonal antibody. Due to steric hindrance, binding of both antibodies to the conjugate was not possible at the same time. By selecting the antibody concentrations appropriately, a dynamic equilibrium can be established that permits the preferential binding of the anti-diuron/monuron antibody to the conjugate, which allows the fluorescein in the conjugate to fluoresce. This equilibrium can be easily altered by adding free analyte (diuron), which competes with the conjugate to bind to the anti-diuron/monuron antibody. A reduction of anti-diuron/monuron antibody binding to the conjugate results in an increase in the binding of the anti-fluorescein antibody, which leads to a decrease in the fluorescence of the conjugate. The fluorescence is therefore a direct indicator of the state of equilibrium of the system and thus also the presence of free unconjugated analyte. The determination of an analyte based on this test principle does not require any washing steps. After the test components are mixed, the dynamic equilibrium is rapidly reached and the results can be obtained in less than 5 min by measuring the fluorescence of the fluorescein. We used this test principle for the determination of diuron, which was demonstrated for concentrations of approximately 5 nM.}, language = {en} } @article{SchlagOsterzielOezceliketal.2008, author = {Schlag, Peter M. and Osterziel, Karl Joseph and {\"O}zcelik, Cemil and Scherneck, Siegfried and Wenzel, Katrin and Daskalow, Katjana and Herse, Florian and Seitz, Susanne and Zacharias, Ute and Schenk, J{\"o}rg A. and Schulz, Herbert and H{\"u}bner, Norbert and Micheel, Burkhard}, title = {The protein phosphatase 1 inhibitor KEPI is down regulated in breast cancer cell lines and tissues and involved in the regulation of the tumour suppressor EGR1 via the MEK-ERK pathway}, year = {2008}, abstract = {KEPI is a protein kinase C-potentiated inhibitory protein for type 1 Ser/Thr protein phosphatases. We found no or reduced expression of KEPI in breast cancer cell lines, breast tumors and metastases in comparison to normal breast cell lines and tissues, respectively. KEPI protein expression and ubiquitous localization was detected with a newly generated antibody. Ectopic KEPI expression in MCF7 breast cancer cells induced differential expression of 95 genes, including the up-regulation of the tumor suppressors EGR1 (early growth response 1) and PTEN (phosphatase and tensin homolog), which is regulated by EGR1. We further show that the up-regulation of EGR1 in MCF7/KEPI cells is mediated by MEK-ERK signaling. The inhibition of this pathway by the MEK inhibitor UO126 led to a strong decrease in EGR1 expression in MCF7/KEPI cells. These results reveal a novel role for KEPI in the regulation of the tumor suppressor gene EGR1 via activation of the MEK-ERK MAPK pathway.}, language = {en} } @article{SchefflerVoigt2008, author = {Scheffler, Christiane and Voigt, Andrea}, title = {Vergleich statischer und dynamischer K{\"o}rpermaße von J{\"u}ngeren (20 - 29 Jahre) und {\"A}lteren (50 - 85 Jahre)}, isbn = {978-3-88383-734-2}, year = {2008}, language = {de} } @article{SchmidtRabschBroekeretal.2016, author = {Schmidt, Andreas and Rabsch, Wolfgang and Broeker, Nina K. and Barbirz, Stefanie}, title = {Bacteriophage tailspike protein based assay to monitor phase variable glucosylations in Salmonella O-antigens}, series = {BMC microbiology}, volume = {16}, journal = {BMC microbiology}, publisher = {BioMed Central}, address = {London}, issn = {1471-2180}, doi = {10.1186/s12866-016-0826-0}, pages = {11}, year = {2016}, abstract = {Background Non-typhoid Salmonella Typhimurium (S. Typhimurium) accounts for a high number of registered salmonellosis cases, and O-serotyping is one important tool for monitoring epidemiology and spread of the disease. Moreover, variations in glucosylated O-antigens are related to immunogenicity and spread in the host. However, classical autoagglutination tests combined with the analysis of specific genetic markers cannot always reliably register phase variable glucose modifications expressed on Salmonella O-antigens and additional tools to monitor O-antigen glucosylation phenotypes of S. Typhimurium would be desirable. Results We developed a test for the phase variable O-antigen glucosylation state of S. Typhimurium using the tailspike proteins (TSP) of Salmonella phages 9NA and P22. We used this ELISA like tailspike adsorption (ELITA) assay to analyze a library of 44 Salmonella strains. ELITA was successful in discriminating strains that carried glucose 1-6 linked to the galactose of O-polysaccharide backbone (serotype O1) from non-glucosylated strains. This was shown by O-antigen compositional analyses of the respective strains with mass spectrometry and capillary electrophoresis. The ELITA test worked rapidly in a microtiter plate format and was highly O-antigen specific. Moreover, TSP as probes could also detect glucosylated strains in flow cytometry and distinguish multiphasic cultures differing in their glucosylation state. Conclusions Tailspike proteins contain large binding sites with precisely defined specificities and are therefore promising tools to be included in serotyping procedures as rapid serotyping agents in addition to antibodies. In this study, 9NA and P22TSP as probes could specifically distinguish glucosylation phenotypes of Salmonella on microtiter plate assays and in flow cytometry. This opens the possibility for flow sorting of cell populations for subsequent genetic analyses or for monitoring phase variations during large scale O-antigen preparations necessary for vaccine production.}, language = {en} } @article{LahTrenseBenkeetal.2016, author = {Lah, Ljerka and Trense, Daronja and Benke, Harald and Berggren, Per and Gunnlaugsson, Þorvaldur and Lockyer, Christina and {\"O}zt{\"u}rk, Ayaka and {\"O}zt{\"u}rk, Bayram and Pawliczka, Iwona and Roos, Anna and Siebert, Ursula and Sk{\´o}ra, Krzysztof and V{\´i}kingsson, G{\´i}sli and Tiedemann, Ralph}, title = {Spatially Explicit Analysis of Genome-Wide SNPs Detects Subtle Population Structure in a Mobile Marine Mammal, the Harbor Porpoise}, series = {PLoS one}, volume = {11}, journal = {PLoS one}, number = {10}, publisher = {PLoS}, address = {Lawrence, Kan.}, issn = {1932-6203}, doi = {10.1371/journal.pone.0162792}, pages = {23 Seiten}, year = {2016}, abstract = {The population structure of the highly mobile marine mammal, the harbor porpoise (Phocoena phocoena), in the Atlantic shelf waters follows a pattern of significant isolation-by-distance. The population structure of harbor porpoises from the Baltic Sea, which is connected with the North Sea through a series of basins separated by shallow underwater ridges, however, is more complex. Here, we investigated the population differentiation of harbor porpoises in European Seas with a special focus on the Baltic Sea and adjacent waters, using a population genomics approach. We used 2872 single nucleotide polymorphisms (SNPs), derived from double digest restriction-site associated DNA sequencing (ddRAD-seq), as well as 13 microsatellite loci and mitochondrial haplotypes for the same set of individuals. Spatial principal components analysis (sPCA), and Bayesian clustering on a subset of SNPs suggest three main groupings at the level of all studied regions: the Black Sea, the North Atlantic, and the Baltic Sea. Furthermore, we observed a distinct separation of the North Sea harbor porpoises from the Baltic Sea populations, and identified splits between porpoise populations within the Baltic Sea. We observed a notable distinction between the Belt Sea and the Inner Baltic Sea sub-regions. Improved delineation of harbor porpoise population assignments for the Baltic based on genomic evidence is important for conservation management of this endangered cetacean in threatened habitats, particularly in the Baltic Sea proper. In addition, we show that SNPs outperform microsatellite markers and demonstrate the utility of RAD-tags from a relatively small, opportunistically sampled cetacean sample set for population diversity and divergence analysis.}, language = {en} } @article{ZhuSchluppTiedemann2016, author = {Zhu, Fangjun and Schlupp, Ingo and Tiedemann, Ralph}, title = {Sequence Evolution and Expression of the Androgen Receptor and Other Pathway-Related Genes in a Unisexual Fish, the Amazon Molly, Poecilia formosa, and Its Bisexual Ancestors}, series = {PLoS one}, volume = {11}, journal = {PLoS one}, number = {6}, publisher = {PLoS}, address = {Lawrence, Kan.}, issn = {1932-6203}, doi = {10.1371/JOURNAL.PONE.0156209}, pages = {19}, year = {2016}, abstract = {The all-female Amazon molly (Poecilia formosa) originated from a single hybridization of two bisexual ancestors, Atlantic molly (Poecilia mexicana) and sailfin molly (Poecilia latipinna). As a gynogenetic species, the Amazon molly needs to copulate with a heterospecific male, but the genetic information of the sperm-donor does not contribute to the next generation, as the sperm only acts as the trigger for the diploid eggs' embryogenesis. Here, we study the sequence evolution and gene expression of the duplicated genes coding for androgen receptors (ars) and other pathway-related genes, i.e., the estrogen receptors (ers) and cytochrome P450, family19, subfamily A, aromatase genes (cyp19as), in the Amazon molly, in comparison to its bisexual ancestors. Mollies possess-as most other teleost fish—two copies of the ar, er, and cyp19a genes, i.e., arα/arβ, erα/erβ1, and cyp19a1 (also referred as cyp19a1a)/cyp19a2 (also referred to as cyp19a1b), respectively. Non-synonymous single nucleotide polymorphisms (SNPs) among the ancestral bisexual species were generally predicted not to alter protein function. Some derived substitutions in the P. mexicana and one in P. formosa are predicted to impact protein function. We also describe the gene expression pattern of the ars and pathway-related genes in various tissues (i.e., brain, gill, and ovary) and provide SNP markers for allele specific expression research. As a general tendency, the levels of gene expression were lowest in gill and highest in ovarian tissues, while expression levels in the brain were intermediate in most cases. Expression levels in P. formosa were conserved where expression did not differ between the two bisexual ancestors. In those cases where gene expression levels significantly differed between the bisexual species, P. formosa expression was always comparable to the higher expression level among the two ancestors. Interestingly, erβ1 was expressed neither in brain nor in gill in the analyzed three molly species, which implies a more important role of erα in the estradiol synthesis pathway in these tissues. Furthermore, our data suggest that interactions of steroid-signaling pathway genes differ across tissues, in particular the interactions of ars and cyp19as.}, language = {en} } @article{BatsiosRenBaumannetal.2016, author = {Batsios, Petros and Ren, Xiang and Baumann, Otto and Larochelle, Denis A. and Gr{\"a}f, Ralph}, title = {Src1 is a Protein of the Inner Nuclear Membrane Interacting with the Dictyostelium Lamin NE81}, series = {Cells}, volume = {5}, journal = {Cells}, number = {1}, publisher = {MDPI}, address = {Basel}, issn = {2073-4409}, doi = {10.3390/cells5010013}, year = {2016}, abstract = {The nuclear envelope (NE) consists of the outer and inner nuclear membrane (INM), whereby the latter is bound to the nuclear lamina. Src1 is a Dictyostelium homologue of the helix-extension-helix family of proteins, which also includes the human lamin-binding protein MAN1. Both endogenous Src1 and GFP-Src1 are localized to the NE during the entire cell cycle. Immuno-electron microscopy and light microscopy after differential detergent treatment indicated that Src1 resides in the INM. FRAP experiments with GFP-Src1 cells suggested that at least a fraction of the protein could be stably engaged in forming the nuclear lamina together with the Dictyostelium lamin NE81. Both a BioID proximity assay and mis-localization of soluble, truncated mRFP-Src1 at cytosolic clusters consisting of an intentionally mis-localized mutant of GFP-NE81 confirmed an interaction of Src1 and NE81. Expression GFP-Src11-646, a fragment C-terminally truncated after the first transmembrane domain, disrupted interaction of nuclear membranes with the nuclear lamina, as cells formed protrusions of the NE that were dependent on cytoskeletal pulling forces. Protrusions were dependent on intact microtubules but not actin filaments. Our results indicate that Src1 is required for integrity of the NE and highlight Dictyostelium as a promising model for the evolution of nuclear architecture.}, language = {en} } @article{KappelTrostCzesnicketal.2015, author = {Kappel, Christian and Trost, Gerda and Czesnick, Hj{\"o}rdis and Ramming, Anna and Kolbe, Benjamin and Vi, Son Lang and Bispo, Cl{\´a}udia and Becker, J{\"o}rg D. and de Moor, Cornelia and Lenhard, Michael}, title = {Genome-Wide Analysis of PAPS1-Dependent Polyadenylation Identifies Novel Roles for Functionally Specialized Poly(A) Polymerases in Arabidopsis thaliana}, series = {PLoS Genetics : a peer-reviewed, open-access journal}, volume = {11}, journal = {PLoS Genetics : a peer-reviewed, open-access journal}, number = {8}, publisher = {Public Library of Science}, address = {San Francisco}, issn = {1553-7390}, doi = {10.1371/journal.pgen.1005474}, pages = {30}, year = {2015}, abstract = {The poly(A) tail at 3' ends of eukaryotic mRNAs promotes their nuclear export, stability and translational efficiency, and changes in its length can strongly impact gene expression. The Arabidopsis thaliana genome encodes three canonical nuclear poly(A) polymerases, PAPS1, PAPS2 and PAPS4. As shown by their different mutant phenotypes, these three isoforms are functionally specialized, with PAPS1 modifying organ growth and suppressing a constitutive immune response. However, the molecular basis of this specialization is largely unknown. Here, we have estimated poly(A)-tail lengths on a transcriptome-wide scale in wild-type and paps1 mutants. This identified categories of genes as particularly strongly affected in paps1 mutants, including genes encoding ribosomal proteins, cell-division factors and major carbohydrate-metabolic proteins. We experimentally verified two novel functions of PAPS1 in ribosome biogenesis and redox homoeostasis that were predicted based on the analysis of poly(A)-tail length changes in paps1 mutants. When overlaying the PAPS1-dependent effects observed here with coexpression analysis based on independent microarray data, the two clusters of transcripts that are most closely coexpressed with PAPS1 show the strongest change in poly(A)-tail length and transcript abundance in paps1 mutants in our analysis. This suggests that their coexpression reflects at least partly the preferential polyadenylation of these transcripts by PAPS1 versus the other two poly(A)-polymerase isoforms. Thus, transcriptome-wide analysis of poly(A)-tail lengths identifies novel biological functions and likely target transcripts for polyadenylation by PAPS1. Data integration with large-scale co-expression data suggests that changes in the relative activities of the isoforms are used as an endogenous mechanism to co-ordinately modulate plant gene expression.}, language = {en} }