TY - JOUR A1 - Lefoulon, Cecile A1 - Karnik, Rucha A1 - Honsbein, Annegret A1 - Gutla, Paul Vijay A1 - Grefen, Christopher A1 - Riedelsberger, Janin A1 - Poblete, Tomas A1 - Dreyer, Ingo A1 - Gonzalez, Wendy A1 - Blatt, Michael R. T1 - Voltage-sensor transitions of the inward-rectifying K+ channel KAT1 indicate a latching mechanism biased by hydration within the voltage sensor JF - Plant physiology : an international journal devoted to physiology, biochemistry, cellular and molecular biology, biophysics and environmental biology of plants N2 - The Kv-like (potassium voltage-dependent) K+ channels at the plasma membrane, including the inward-rectifying KAT1 K+ channel of Arabidopsis (Arabidopsis thaliana), are important targets for manipulating K+ homeostasis in plants. Gating modification, especially, has been identified as a promising means by which to engineer plants with improved characteristics in mineral and water use. Understanding plant K+ channel gating poses several challenges, despite many similarities to that of mammalian Kv and Shaker channel models. We have used site-directed mutagenesis to explore residues that are thought to form two electrostatic countercharge centers on either side of a conserved phenylalanine (Phe) residue within the S2 and S3 alpha-helices of the voltage sensor domain (VSD) of Kv channels. Consistent with molecular dynamic simulations of KAT1, we show that the voltage dependence of the channel gate is highly sensitive to manipulations affecting these residues. Mutations of the central Phe residue favored the closed KAT1 channel, whereas mutations affecting the countercharge centers favored the open channel. Modeling of the macroscopic current kinetics also highlighted a substantial difference between the two sets of mutations. We interpret these findings in the context of the effects on hydration of amino acid residues within the VSD and with an inherent bias of the VSD, when hydrated around a central Phe residue, to the closed state of the channel. Y1 - 2014 U6 - https://doi.org/10.1104/pp.114.244319 SN - 0032-0889 SN - 1532-2548 VL - 166 IS - 2 SP - 960 EP - U776 PB - American Society of Plant Physiologists CY - Rockville ER - TY - JOUR A1 - Tenenboim, Hezi A1 - Smirnova, Julia A1 - Willmitzer, Lothar A1 - Steup, Martin A1 - Brotman, Yariv T1 - VMP1-deficient Chlamydomonas exhibits severely aberrant cell morphology and disrupted cytokinesies JF - BMC plant biology N2 - Background: The versatile Vacuole Membrane Protein 1 (VMP1) has been previously investigated in six species. It has been shown to be essential in macroautophagy, where it takes part in autophagy initiation. In addition, VMP1 has been implicated in organellar biogenesis; endo-, exo- and phagocytosis, and protein secretion; apoptosis; and cell adhesion. These roles underly its proven involvement in pancreatitis, diabetes and cancer in humans. Results: In this study we analyzed a VMP1 homologue from the green alga Chlamydomonas reinhardtii. CrVMP1 knockdown lines showed severe phenotypes, mainly affecting cell division as well as the morphology of cells and organelles. We also provide several pieces of evidence for its involvement in macroautophagy. KW - VMP1 KW - Autophagy KW - Cytokinesis Y1 - 2014 U6 - https://doi.org/10.1186/1471-2229-14-121 SN - 1471-2229 VL - 14 PB - BioMed Central CY - London ER - TY - JOUR A1 - Reinecke, Jennifer A1 - Klemm, Gunther A1 - Heinken, Thilo T1 - Vegetation change and homogenization of species composition in temperate nutrient deficient scots pine forests after 45 yr JF - Journal of vegetation science N2 - QuestionDoes eutrophication drive vegetation change in pine forests on nutrient deficient sites and thus lead to the homogenization of understorey species composition? LocationForest area (1600ha) in the Lower Spreewald, Brandenburg, Germany. MethodsResurvey of 77 semi-permanent plots after 45yr, including vascular plants, bryophytes and ground lichens. We applied multidimensional ordination of species composition, dissimilarity indices, mean Ellenberg indicator values and the concept of winner/loser species to identify vegetation change between years. Differential responses along a gradient of nutrient availability were analysed on the basis of initial vegetation type, reflecting topsoil N availability of plots. ResultsSpecies composition changed strongly and overall shifted towards higher N and slightly lower light availability. Differences in vegetation change were related to initial vegetation type, with strongest compositional changes in the oligotrophic forest type, but strongest increase of nitrophilous species in the mesotrophic forest type. Despite an overall increase in species number, species composition was homogenized between study years due to the loss of species (mainly ground lichens) on the most oligotrophic sites. ConclusionsThe response to N enrichment is confounded by canopy closure on the N-richest sites and probably by water limitation on N-poorest sites. The relative importance of atmospheric N deposition in the eutrophication effect is difficult to disentangle from natural humus accumulation after historical litter raking. However, the profound differences in species composition between study years across all forest types suggest that atmospheric N deposition contributes to the eutrophication, which drives understorey vegetation change and biotic homogenization in Central European Scots pine forests on nutrient deficient sites. KW - Eutrophication KW - Litter raking KW - Canopy closure KW - Cryptogams KW - Species diversity Y1 - 2014 U6 - https://doi.org/10.1111/jvs.12069 SN - 1100-9233 SN - 1654-1103 VL - 25 IS - 1 SP - 113 EP - 121 PB - Wiley-Blackwell CY - Hoboken ER - TY - JOUR A1 - Köhler, Yvonne A1 - Luther, Eva Maria A1 - Meyer, Sören A1 - Schwerdtle, Tanja A1 - Dringen, Ralf T1 - Uptake and toxicity of arsenite and arsenate in cultured brain astrocytes JF - Journal of trace elements in medicine and biology N2 - Inorganic arsenicals are environmental toxins that have been connected with neuropathies and impaired cognitive functions. To investigate whether such substances accumulate in brain astrocytes and affect their viability and glutathione metabolism, we have exposed cultured primary astrocytes to arsenite or arsenate. Both arsenicals compromised the cell viability of astrocytes in a time- and concentration-dependent manner. However, the early onset of cell toxicity in arsenite-treated astrocytes revealed the higher toxic potential of arsenite compared with arsenate. The concentrations of arsenite and arsenate that caused within 24 h half-maximal release of the cytosolic enzyme lactate dehydrogenase were around 0.3 mM and 10 mM, respectively. The cellular arsenic contents of astrocytes increased rapidly upon exposure to arsenite or arsenate and reached after 4 h of incubation almost constant steady state levels. These levels were about 3-times higher in astrocytes that had been exposed to a given concentration of arsenite compared with the respective arsenate condition. Analysis of the intracellular arsenic species revealed that almost exclusively arsenite was present in viable astrocytes that had been exposed to either arsenate or arsenite. The emerging toxicity of arsenite 4 h after exposure was accompanied by a loss in cellular total glutathione and by an increase in the cellular glutathione disulfide content. These data suggest that the high arsenite content of astrocytes that had been exposed to inorganic arsenicals causes an increase in the ratio of glutathione disulfide to glutathione which contributes to the toxic potential of these substances. KW - Arsenic KW - Astrocytes KW - GSH KW - Metabolism KW - Toxicity Y1 - 2014 U6 - https://doi.org/10.1016/j.jtemb.2014.04.007 SN - 0946-672X VL - 28 IS - 3 SP - 328 EP - 337 PB - Elsevier CY - Jena ER - TY - JOUR A1 - Rajasundaram, Dhivyaa A1 - Runavot, Jean-Luc A1 - Guo, Xiaoyuan A1 - Willats, William G. T. A1 - Meulewaeter, Frank A1 - Selbig, Joachim T1 - Understanding the relationship between cotton fiber properties and non-cellulosic cell wall polysaccharides JF - PLoS one N2 - A detailed knowledge of cell wall heterogeneity and complexity is crucial for understanding plant growth and development. One key challenge is to establish links between polysaccharide-rich cell walls and their phenotypic characteristics. It is of particular interest for some plant material, like cotton fibers, which are of both biological and industrial importance. To this end, we attempted to study cotton fiber characteristics together with glycan arrays using regression based approaches. Taking advantage of the comprehensive microarray polymer profiling technique (CoMPP), 32 cotton lines from different cotton species were studied. The glycan array was generated by sequential extraction of cell wall polysaccharides from mature cotton fibers and screening samples against eleven extensively characterized cell wall probes. Also, phenotypic characteristics of cotton fibers such as length, strength, elongation and micronaire were measured. The relationship between the two datasets was established in an integrative manner using linear regression methods. In the conducted analysis, we demonstrated the usefulness of regression based approaches in establishing a relationship between glycan measurements and phenotypic traits. In addition, the analysis also identified specific polysaccharides which may play a major role during fiber development for the final fiber characteristics. Three different regression methods identified a negative correlation between micronaire and the xyloglucan and homogalacturonan probes. Moreover, homogalacturonan and callose were shown to be significant predictors for fiber length. The role of these polysaccharides was already pointed out in previous cell wall elongation studies. Additional relationships were predicted for fiber strength and elongation which will need further experimental validation. Y1 - 2014 U6 - https://doi.org/10.1371/journal.pone.0112168 SN - 1932-6203 VL - 9 IS - 11 PB - PLoS CY - San Fransisco ER - TY - JOUR A1 - Meli, Mattia A1 - Palmqvist, Annemette A1 - Forbes, Valery E. A1 - Groeneveld, Jürgen A1 - Grimm, Volker T1 - Two pairs of eyes are better than one: Combining individual-based and matrix models for ecological risk assessment of chemicals JF - Ecological modelling : international journal on ecological modelling and engineering and systems ecolog N2 - Current chemical risk assessment procedures may result in imprecise estimates of risk due to sometimes arbitrary simplifying assumptions. As a way to incorporate ecological complexity and improve risk estimates, mechanistic effect models have been recommended. However, effect modeling has not yet been extensively used for regulatory purposes, one of the main reasons being uncertainty about which model type to use to answer specific regulatory questions. We took an individual-based model (IBM), which was developed for risk assessment of soil invertebrates and includes avoidance of highly contaminated areas, and contrasted it with a simpler, more standardized model, based on the generic metapopulation matrix model RAMAS. In the latter the individuals within a sub-population are not treated as separate entities anymore and the spatial resolution is lower. We explored consequences of model aggregation in terms of assessing population-level effects for different spatial distributions of a toxic chemical. For homogeneous contamination of the soil, we found good agreement between the two models, whereas for heterogeneous contamination, at different concentrations and percentages of contaminated area, RAMAS results were alternatively similar to IBM results with and without avoidance, and different food levels. This inconsistency is explained on the basis of behavioral responses that are included in the IBM but not in RAMAS. Overall, RAMAS was less sensitive than the IBM in detecting population-level effects of different spatial patterns of exposure. We conclude that choosing the right model type for risk assessment of chemicals depends on whether or not population-level effects of small-scale heterogeneity in exposure need to be detected. We recommend that if in doubt, both model types should be used and compared. Describing both models following the same standard format, the ODD protocol, makes them equally transparent and understandable. The simpler model helps to build up trust for the more complex model and can be used for more homogeneous exposure patterns. The more complex model helps detecting and understanding the limitations of the simpler model and is needed to ensure ecological realism for more complex exposure scenarios. (C) 2013 Elsevier B.V. All rights reserved. KW - Ecotoxicology KW - Folsomia candida KW - Mechanistic effect models KW - Soil invertebrates Y1 - 2014 U6 - https://doi.org/10.1016/j.ecolmodel.2013.07.027 SN - 0304-3800 SN - 1872-7026 VL - 280 SP - 40 EP - 52 PB - Elsevier CY - Amsterdam ER - TY - JOUR A1 - Schatz, J. A1 - Ohlendorf, B. A1 - Busse, P. A1 - Pelz, G. A1 - Dolch, D. A1 - Teubner, J. A1 - Encarnacao, Jorge A. A1 - Muehle, Ralf -Udo A1 - Fischer, M. A1 - Hoffmann, B. A1 - Kwasnitschka, L. A1 - Balkema-Buschmann, Anne A1 - Mettenleiter, Thomas Christoph A1 - Mueller, T. A1 - Freuling, C. M. T1 - Twenty years of active bat rabies surveillance in Germany BT - a detailed analysis and future perspectives JF - Epidemiology and infection N2 - In Germany, active bat rabies surveillance was conducted between 1993 and 2012. A total of 4546 oropharyngeal swab samples from 18 bat species were screened for the presence of EBLV-1- , EBLV-2- and BBLV-specific RNA. Overall, 0 center dot 15% of oropharyngeal swab samples tested EBLV-1 positive, with the majority originating from Eptesicus serotinus. Interestingly, out of seven RT-PCR-positive oropharyngeal swabs subjected to virus isolation, viable virus was isolated from a single serotine bat (E. serotinus). Additionally, about 1226 blood samples were tested serologically, and varying virus neutralizing antibody titres were found in at least eight different bat species. The detection of viral RNA and seroconversion in repeatedly sampled serotine bats indicates long-term circulation of the virus in a particular bat colony. The limitations of random-based active bat rabies surveillance over passive bat rabies surveillance and its possible application of targeted approaches for future research activities on bat lyssavirus dynamics and maintenance are discussed. KW - surveillance KW - epidemiology KW - Bat rabies KW - lyssavirus Y1 - 2014 U6 - https://doi.org/10.1017/S0950268813002185 SN - 0950-2688 SN - 1469-4409 VL - 142 IS - 6 SP - 1155 EP - 1166 PB - Cambridge Univ. Press CY - New York ER - TY - JOUR A1 - Gracceva, Giulia A1 - Herde, Antje A1 - Groothuis, Ton G. G. A1 - Koolhaas, Jaap M. A1 - Palme, Rupert A1 - Eccard, Jana T1 - Turning shy on a winter's day: Effects of season on personality and stress response in Microtus arvalis JF - Ethology N2 - Animal personalities are by definition stable over time, but to what extent they may change during development and in adulthood to adjust to environmental change is unclear. Animals of temperate environments have evolved physiological and behavioural adaptations to cope with the cyclic seasonal changes. This may also result in changes in personality: suites of behavioural and physiological traits that vary consistently among individuals. Winter, typically the adverse season challenging survival, may require individuals to have shy/cautious personality, whereas during summer, energetically favourable to reproduction, individuals may benefit from a bold/risk-taking personality. To test the effects of seasonal changes in early life and in adulthood on behaviours (activity, exploration and anxiety), body mass and stress response, we manipulated the photoperiod and quality of food in two experiments to simulate the conditions of winter and summer. We used the common voles (Microtus arvalis) as they have been shown to display personality based on behavioural consistency over time and contexts. Summer-born voles allocated to winter conditions at weaning had lower body mass, a higher corticosterone increase after stress and a less active, more cautious behavioural phenotype in adulthood compared to voles born in and allocated to summer conditions. In contrast, adult females only showed plasticity in stress-induced corticosterone levels, which were higher in the animals that were transferred to the winter conditions than to those staying in summer conditions. These results suggest a sensitive period for season-related behavioural plasticity in which juveniles shift over the bold-shy axis. KW - animal personality KW - seasonal environment KW - photoperiod KW - juvenile plasticity KW - corticosterone Y1 - 2014 U6 - https://doi.org/10.1111/eth.12246 SN - 0179-1613 SN - 1439-0310 VL - 120 IS - 8 SP - 753 EP - 767 PB - Wiley-Blackwell CY - Hoboken ER - TY - JOUR A1 - Lu, Dandan A1 - Wang, Ting A1 - Persson, Staffan A1 - Müller-Röber, Bernd A1 - Schippers, Jos H. M. T1 - Transcriptional control of ROS homeostasis by KUODA1 regulates cell expansion during leaf development JF - Nature Communications N2 - The final size of an organism, or of single organs within an organism, depends on an intricate coordination of cell proliferation and cell expansion. Although organism size is of fundamental importance, the molecular and genetic mechanisms that control it remain far from understood. Here we identify a transcription factor, KUODA1 (KUA1), which specifically controls cell expansion during leaf development in Arabidopsis thaliana. We show that KUA1 expression is circadian regulated and depends on an intact clock. Furthermore, KUA1 directly represses the expression of a set of genes encoding for peroxidases that control reactive oxygen species (ROS) homeostasis in the apoplast. Disruption of KUA1 results in increased peroxidase activity and smaller leaf cells. Chemical or genetic interference with the ROS balance or peroxidase activity affects cell size in a manner consistent with the identified KUA1 function. Thus, KUA1 modulates leaf cell expansion and final organ size by controlling ROS homeostasis. Y1 - 2014 U6 - https://doi.org/10.1038/ncomms4767 SN - 2041-1723 VL - 5 PB - Nature Publ. Group CY - London ER - TY - JOUR A1 - Grimm, Volker A1 - Augusiak, Jacqueline A1 - Focks, Andreas A1 - Frank, Beatrice M. A1 - Gabsi, Faten A1 - Johnston, Alice S. A. A1 - Liu, Chun A1 - Martin, Benjamin T. A1 - Meli, Mattia A1 - Radchuk, Viktoriia A1 - Thorbek, Pernille A1 - Railsback, Steven Floyd T1 - Towards better modelling and decision support: Documenting model development, testing, and analysis using TRACE JF - Ecological modelling : international journal on ecological modelling and engineering and systems ecolog N2 - The potential of ecological models for supporting environmental decision making is increasingly acknowledged. However, it often remains unclear whether a model is realistic and reliable enough. Good practice for developing and testing ecological models has not yet been established. Therefore, TRACE, a general framework for documenting a model's rationale, design, and testing was recently suggested. Originally TRACE was aimed at documenting good modelling practice. However, the word 'documentation' does not convey TRACE's urgency. Therefore, we re-define TRACE as a tool for planning, performing, and documenting good modelling practice. TRACE documents should provide convincing evidence that a model was thoughtfully designed, correctly implemented, thoroughly tested, well understood, and appropriately used for its intended purpose. TRACE documents link the science underlying a model to its application, thereby also linking modellers and model users, for example stakeholders, decision makers, and developers of policies. We report on first experiences in producing TRACE documents. We found that the original idea underlying TRACE was valid, but to make its use more coherent and efficient, an update of its structure and more specific guidance for its use are needed. The updated TRACE format follows the recently developed framework of model 'evaludation': the entire process of establishing model quality and credibility throughout all stages of model development, analysis, and application. TRACE thus becomes a tool for planning, documenting, and assessing model evaludation, which includes understanding the rationale behind a model and its envisaged use. We introduce the new structure and revised terminology of TRACE and provide examples. (C) 2014 Elsevier B.V. All rights reserved. KW - Standardization KW - Good modelling practice KW - Risk assessment KW - Decision support Y1 - 2014 U6 - https://doi.org/10.1016/j.ecolmodel.2014.01.018 SN - 0304-3800 SN - 1872-7026 VL - 280 SP - 129 EP - 139 PB - Elsevier CY - Amsterdam ER -