@article{BrechunArndtWoolley2018, author = {Brechun, Katherine Emily and Arndt, Katja Maren and Woolley, G. Andrew}, title = {Selection of protein-protein interactions of desired affinities with a bandpass circuit}, series = {Journal of molecular biology : JMB}, volume = {431}, journal = {Journal of molecular biology : JMB}, number = {2}, publisher = {Elsevier}, address = {London}, issn = {0022-2836}, doi = {10.1016/j.jmb.2018.11.011}, pages = {391 -- 400}, year = {2018}, abstract = {We have developed a genetic circuit in Escherichia coli that can be used to select for protein-protein interactions of different strengths by changing antibiotic concentrations in the media. The genetic circuit links protein-protein interaction strength to beta-lactamase activity while simultaneously imposing tuneable positive and negative selection pressure for beta-lactamase activity. Cells only survive if they express interacting proteins with affinities that fall within set high- and low-pass thresholds; i.e. the circuit therefore acts as a bandpass filter for protein-protein interactions. We show that the circuit can be used to recover protein-protein interactions of desired affinity from a mixed population with a range of affinities. The circuit can also be used to select for inhibitors of protein-protein interactions of defined strength. (C) 2018 Elsevier Ltd. All rights reserved.}, language = {en} } @article{KellerKunzeBommeretal.2018, author = {Keller, Sebastian and Kunze, Cindy and Bommer, Martin and Paetz, Christian and Menezes, Riya C. and Svatos, Ales and Dobbek, Holger and Schubert, Torsten}, title = {Selective Utilization of Benzimidazolyl-Norcobamides as Cofactors by the Tetrachloroethene Reductive Dehalogenase of Sulfurospirillum multivorans}, series = {Journal of bacteriology}, volume = {200}, journal = {Journal of bacteriology}, number = {8}, publisher = {American Society for Microbiology}, address = {Washington}, issn = {0021-9193}, doi = {10.1128/JB.00584-17}, pages = {14}, year = {2018}, abstract = {The organohalide-respiring bacterium Sulfurospirillum multivorans produces a unique cobamide, namely, norpseudo-B-12, which serves as cofactor of the tetrachloroethene (PCE) reductive dehalogenase (PceA). As previously reported, a replacement of the adeninyl moiety, the lower base of the cofactor, by exogenously applied 5,6-dimethylbenzimidazole led to inactive PceA. To explore the general effect of benzimidazoles on the PCE metabolism, the susceptibility of the organism for guided biosynthesis of various singly substituted benzimidazolyl-norcobamides was investigated, and their use as cofactor by PceA was analyzed. Exogenously applied 5-methylbenzimidazole (5-MeBza), 5-hydroxybenzimidazole (5-OHBza), and 5-methoxybenzimidazole (5-OMeBza) were found to be efficiently incorporated as lower bases into norcobamides (NCbas). Structural analysis of the NCbas by nuclear magnetic resonance spectroscopy uncovered a regioselectivity in the utilization of these precursors for NCba biosynthesis. When 5-MeBza was added, a mixture of 5-MeBza-norcobamide and 6-MeBza-norcobamide was formed, and the PceA enzyme activity was affected. In the presence of 5-OHBza, almost exclusively 6-OHBza-norcobamide was produced, while in the presence of 5-OMeBza, predominantly 5-OMeBza-norcobamide was detected. Both NCbas were incorporated into PceA, and no negative effect on the PceA activity was observed. In crystal structures of PceA, both NCbas were bound in the base-off mode with the 6-OHBza and 5-OMeBza lower bases accommodated by the same solvent-exposed hydrophilic pocket that harbors the adenine as the lower base of authentic norpseudo-B-12. In this study, a selective production of different norcobamide isomers containing singly substituted benzimidazoles as lower bases is shown, and unique structural insights into their utilization as co-factors by a cobamide-containing enzyme are provided. IMPORTANCE Guided biosynthesis of norcobamides containing singly substituted benzimidazoles as lower bases by the organohalide-respiring epsilonproteobacterium Sulfurospirillum multivorans is reported. An unprecedented specificity in the formation of norcobamide isomers containing hydroxylated or methoxylated benzimidazoles was observed that implicated a strict regioselectivity of the norcobamide biosynthesis in the organism. In contrast to 5,6-dimethylbenzimidazolyl-norcobamide, the incorporation of singly substituted benzimidazolyl-norcobamides as a cofactor into the tetrachloroethene reductive dehalogenase was not impaired. The enzyme was found to be functional with different isomers and not limited to the use of adeninyl-norcobamide. Structural analysis of the enzyme equipped with either adeninyl-or benzimidazolyl-norcobamide cofactors visualized for the first time structurally different cobamides bound in base-off conformation to the cofactor-binding site of a cobamide-containing enzyme.}, language = {en} } @article{SolovyevPrakashBhatiaetal.2018, author = {Solovyev, Nikolay and Prakash, N. Tejo and Bhatia, Poonam and Prakash, Ranjana and Drobyshev, Evgenii J. and Michalke, Bernhard}, title = {Selenium-rich mushrooms cultivation on a wheat straw substrate from seleniferous area in Punjab, India}, series = {Journal of trace elements in medicine and biology}, volume = {50}, journal = {Journal of trace elements in medicine and biology}, publisher = {Elsevier}, address = {Jena}, issn = {0946-672X}, doi = {10.1016/j.jtemb.2018.07.027}, pages = {362 -- 366}, year = {2018}, abstract = {Intensive rice-wheat cultivation cycle in Northern belt of India in general and in the State of Punjab in particular results in large volumes of straw and other post-harvest residue annually. The agricultural area, bordering the districts of Nawanshahr and Hoshiarpur, is popularly known as the seleniferous belt of India. The agri-residues, generated in seleniferous region of this state, are observed to contain significantly high concentration of selenium (Se). The present study was aimed to evaluate the Se uptake by different mushroom species: Pleurotus sajorcaju, Pleurotus ostreatus, Pleurotus citrinopileatus, Agaricus bisporus, and Volvariella volvacea, cultivated on Se-rich wheat and paddy straw from the seleniferous region. Wheat (Pleurotus species and A. bisporus) and paddy straw (V. volvacea) was inoculated with the mycelium spawn and left for 7-20 days, depending on the species, to grow. Control mushrooms were grown analogously using the agricultural residues from non-seleniferous area of the State of Punjab. All fruiting bodies were collected and analyzed in triplicate. Se was quantified using inductively coupled plasma sector field mass spectrometry. The Se accumulation was high in all species under study, being the highest in A. bisporus (1396 mu g/g vs. 46.8 mu g/g in controls - dry weight) and V. volvacea (231 mu g/g vs. 3.77 mu g/g - dry weight). The observed biological efficiency and total yield for all mushroom species showed good and unaltered productivity in Se-rich conditions, if compared to the controls. The Se-rich mushrooms can be prospective Se-supplements sourcing and biofortified foods, providing readily bioavailable and accessible Se for the diets deficient of this biologically essential element.}, language = {en} } @article{PilusoVukicevieNoecheletal.2018, author = {Piluso, Susanna and Vukicevie, Radovan and N{\"o}chel, Ulrich and Braune, Steffen and Lendlein, Andreas and Neffe, Axel T.}, title = {Sequential alkyne-azide cycloadditions for functionalized gelatin hydrogel formation}, series = {European polymer journal}, volume = {100}, journal = {European polymer journal}, publisher = {Elsevier}, address = {Oxford}, issn = {0014-3057}, doi = {10.1016/j.eurpolymj.2018.01.017}, pages = {77 -- 85}, year = {2018}, abstract = {While click chemistry reactions for biopolymer network formation are attractive as the defined reactions may allow good control of the network formation and enable subsequent functionalization, tailoring of gelatin network properties over a wide range of mechanical properties has yet to be shown. Here, it is demonstrated that copper-catalyzed alkyne-azide cycloaddition of alkyne functionalized gelatin with diazides gave hydrogel networks with properties tailorable by the ratio of diazide to gelatin and diazide rigidity. 4,4′-diazido-2,2′-stilbenedisulfonic acid, which has been used as rigid crosslinker, yielded hydrogels with Young's moduli E of 50-390 kPa and swelling degrees Q of 150-250 vol.\%, while the more flexible 1,8-diazidooctane resulted in hydrogels with E = 125-280 kPa and Q = 225-470 vol.\%. Storage moduli could be varied by two orders of magnitude (G′ = 100-20,000 Pa). An indirect cytotoxicity test did not show cytotoxic properties. Even when employing 1:1 ratios of alkyne and azide moieties, the hydrogels were shown to contain both, unreacted alkyne groups on the gelatin backbone as well as dangling chains carrying azide groups as shown by reaction with functionalized fluorescein. The free groups, which can be tailored by the employed ratio of the reactants, are accessible for covalent attachment of drugs, as was demonstrated by functionalization with dexamethasone. The sequential network formation and functionalization with click chemistry allows access to multifunctional materials relevant for medical applications.}, language = {en} } @article{MartinCreuzburgMassierWacker2018, author = {Martin-Creuzburg, Dominik and Massier, Tamara and Wacker, Alexander}, title = {Sex-Specific differences in essential lipid requirements of Daphnia magna}, series = {Frontiers in Ecology and Evolution}, volume = {6}, journal = {Frontiers in Ecology and Evolution}, publisher = {Frontiers Research Foundation}, address = {Lausanne}, issn = {2296-701X}, doi = {10.3389/fevo.2018.00089}, pages = {14}, year = {2018}, abstract = {Sex-specific differences in nutritional requirements may crucially influence the performances of the sexes, which may have implications for sexual reproduction and thus is of great ecological and evolutionary interest. In the freshwater model species Daphnia magna, essential lipid requirements have been extensively studied. Dietary deficiencies in sterols and polyunsaturated fatty acids (PUFA) have been shown to constrain somatic growth and parthenogenetic reproduction of female Daphnia. In contrast, nutrient requirements of male Daphnia have not been studied yet. Supplementation experiments were conducted to investigate differences in sterol (cholesterol) and PUFA (eicosapentaenoic acid, EPA) requirements between female and male D. magna. Thresholds for sterol-limited juvenile growth were higher in females than in males, suggesting that females are more susceptible to dietary sterol deficiencies than males. Sex-specific differences in maximum somatic growth rates were evident primarily in the presence of dietary EPA; females could not exploit their generally higher growth potential in the absence of dietary PUFA. However, the thresholds for EPA-limited growth did not differ between sexes, suggesting that both sexes have similar dietary EPA requirements during juvenile growth. During a life history experiment, the gain in body dry mass was higher in females than in males, irrespective of food treatment. In both sexes, the gain in body dry mass increased significantly upon EPA supplementation, indicating that both sexes benefited from dietary EPA supply also later in life. However, the positive effects of EPA supplementation were most pronounced for female reproduction-related traits (i.e., clutch sizes, egg dry masses, and total dry mass investment in reproduction). The high maternal investment in reproduction resulted in a depletion of nutrients in female somata. In contrast, the comparatively low paternal investment in reproduction allowed for the accumulation of nutrients in male somata. We conclude that males are generally less susceptible to dietary nutrient deficiencies than females, because they can rely more on internal body stores. Our data suggest that the performances of the sexes are differentially influenced by lipid-mediated food quality, which may have consequences for sexual reproduction and thus the production of resting eggs and the maintenance of Daphnia populations.}, language = {en} } @article{PoradaVanStanKleidon2018, author = {Porada, Philipp and Van Stan, John T. and Kleidon, Axel}, title = {Significant contribution of non-vascular vegetation to global rainfall interception}, series = {Nature geoscience}, volume = {11}, journal = {Nature geoscience}, number = {8}, publisher = {Nature Publ. Group}, address = {New York}, issn = {1752-0894}, doi = {10.1038/s41561-018-0176-7}, pages = {563 -- +}, year = {2018}, abstract = {Non-vascular vegetation has been shown to capture considerable quantities of rainfall, which may affect the hydrological cycle and climate at continental scales. However, direct measurements of rainfall interception by non-vascular vegetation are confined to the local scale, which makes extrapolation to the global effects difficult. Here we use a process-based numerical simulation model to show that non-vascular vegetation contributes substantially to global rainfall interception. Inferred average global water storage capacity including non-vascular vegetation was 2.7 mm, which is consistent with field observations and markedly exceeds the values used in land surface models, which average around 0.4 mm. Consequently, we find that the total evaporation of free water from the forest canopy and soil surface increases by 61\% when non-vascular vegetation is included, resulting in a global rainfall interception flux that is 22\% of the terrestrial evaporative flux (compared with only 12\% for simulations where interception excludes non-vascular vegetation). We thus conclude that non-vascular vegetation is likely to significantly influence global rainfall interception and evaporation with consequences for regional-to continental-scale hydrologic cycling and climate.}, language = {en} } @article{ReegHeineMihanetal.2018, author = {Reeg, Jette and Heine, Simon and Mihan, Christine and McGee, Sean and Preuss, Thomas G. and Jeltsch, Florian}, title = {Simulation of herbicide impacts on a plant community}, series = {Environmental Sciences Europe}, volume = {30}, journal = {Environmental Sciences Europe}, number = {44}, publisher = {Springer}, address = {Berlin und Heidelberg}, issn = {2190-4715}, doi = {10.1186/s12302-018-0174-9}, pages = {16}, year = {2018}, abstract = {Background Semi-natural plant communities such as field boundaries play an important ecological role in agricultural landscapes, e.g., provision of refuge for plant and other species, food web support or habitat connectivity. To prevent undesired effects of herbicide applications on these communities and their structure, the registration and application are regulated by risk assessment schemes in many industrialized countries. Standardized individual-level greenhouse experiments are conducted on a selection of crop and wild plant species to characterize the effects of herbicide loads potentially reaching off-field areas on non-target plants. Uncertainties regarding the protectiveness of such approaches to risk assessment might be addressed by assessment factors that are often under discussion. As an alternative approach, plant community models can be used to predict potential effects on plant communities of interest based on extrapolation of the individual-level effects measured in the standardized greenhouse experiments. In this study, we analyzed the reliability and adequacy of the plant community model IBC-grass (individual-based plant community model for grasslands) by comparing model predictions with empirically measured effects at the plant community level. Results We showed that the effects predicted by the model IBC-grass were in accordance with the empirical data. Based on the species-specific dose responses (calculated from empirical effects in monocultures measured 4 weeks after application), the model was able to realistically predict short-term herbicide impacts on communities when compared to empirical data. Conclusion The results presented in this study demonstrate an approach how the current standard greenhouse experiments—measuring herbicide impacts on individual-level—can be coupled with the model IBC-grass to estimate effects on plant community level. In this way, it can be used as a tool in ecological risk assessment.}, language = {en} } @article{vanGrunsvenJaehnichenGrubisicetal.2018, author = {van Grunsven, Roy Hendrikus Antonius and Jaehnichen, David and Grubisic, Maja and H{\"o}lker, Franz}, title = {Slugs (Arionidae) benefit from nocturnal artificial illumination}, series = {Journal of Experimental Zoology Part A: Ecological and Integrative Physiology}, volume = {329}, journal = {Journal of Experimental Zoology Part A: Ecological and Integrative Physiology}, number = {8-9}, publisher = {Wiley}, address = {Hoboken}, issn = {2471-5646}, doi = {10.1002/jez.2170}, pages = {429 -- 433}, year = {2018}, abstract = {Artificial illumination increases around the globe and this has been found to affect many groups of organisms and ecosystems. By manipulating nocturnal illumination using one large experimental field site with 24 streetlights and one dark control, we assessed the impact of artificial illumination on slugs over a period of 4 years. The number of slugs, primarily Arionidae, increased strongly in the illuminated site but not on the dark site. There are several nonexclusive explanations for this effect, including reduced predation and increased food quality in the form of carcasses of insects attracted by the light. As slugs play an important role in ecosystems and are also important pest species, the increase of slugs under artificial illumination cannot only affect ecosystem functioning but also have important economic consequences.}, language = {en} } @article{MantzoukiBekliogluBrookesetal.2018, author = {Mantzouki, Evanthia and Beklioglu, Meryem and Brookes, Justin D. and Domis, Lisette Nicole de Senerpont and Dugan, Hilary A. and Doubek, Jonathan P. and Grossart, Hans-Peter and Nejstgaard, Jens C. and Pollard, Amina I. and Ptacnik, Robert and Rose, Kevin C. and Sadro, Steven and Seelen, Laura and Skaff, Nicholas K. and Teubner, Katrin and Weyhenmeyer, Gesa A. and Ibelings, Bastiaan W.}, title = {Snapshot surveys for lake monitoring, more than a shot in the dark}, series = {Frontiers in Ecology and Evolution}, volume = {6}, journal = {Frontiers in Ecology and Evolution}, publisher = {Frontiers Research Foundation}, address = {Lausanne}, issn = {2296-701X}, doi = {10.3389/fevo.2018.00201}, pages = {5}, year = {2018}, language = {en} } @article{KunstmannGohlkeBroekeretal.2018, author = {Kunstmann, Ruth Sonja and Gohlke, Ulrich and Br{\"o}ker, Nina Kristin and Roske, Yvette and Heinemann, Udo and Santer, Mark and Barbirz, Stefanie}, title = {Solvent networks tune thermodynamics of oligosaccharide complex formation in an extended protein binding site}, series = {Journal of the American Chemical Society}, volume = {140}, journal = {Journal of the American Chemical Society}, number = {33}, publisher = {American Chemical Society}, address = {Washington}, issn = {0002-7863}, doi = {10.1021/jacs.8b03719}, pages = {10447 -- 10455}, year = {2018}, abstract = {The principles of protein-glycan binding are still not well understood on a molecular level. Attempts to link affinity and specificity of glycan recognition to structure suffer from the general lack of model systems for experimental studies and the difficulty to describe the influence of solvent. We have experimentally and computationally addressed energetic contributions of solvent in protein-glycan complex formation in the tailspike protein (TSP) of E. coli bacteriophage HK620. HK620TSP is a 230 kDa native trimer of right-handed, parallel beta-helices that provide extended, rigid binding sites for bacterial cell surface O-antigen polysaccharides. A set of high affinity mutants bound hexa- or pentasaccharide O-antigen fragments with very similar affinities even though hexasaccharides introduce an additional glucose branch into an occluded protein surface cavity. Remarkably different thermodynamic binding signatures were found for different mutants; however, crystal structure analyses indicated that no major oligosaccharide or protein topology changes had occurred upon complex formation. This pointed to a solvent effect. Molecular dynamics simulations using a mobility-based approach revealed an extended network of solvent positions distributed over the entire oligosaccharide binding site. However, free energy calculations showed that a small water network inside the glucose-binding cavity had the most notable influence on the thermodynamic signature. The energy needed to displace water from the glucose binding pocket depended on the amino acid at the entrance, in agreement with the different amounts of enthalpy-entropy compensation found for introducing glucose into the pocket in the different mutants. Studies with small molecule drugs have shown before that a few active water molecules can control protein complex formation. HK620TSP oligosaccharide binding shows that similar fundamental principles also apply for glycans, where a small number of water molecules can dominate the thermodynamic signature in an extended binding site.}, language = {en} } @article{UllmannFischerPirhoferWalzletal.2018, author = {Ullmann, Wiebke and Fischer, Christina and Pirhofer-Walzl, Karin and Kramer-Schadt, Stephanie and Blaum, Niels}, title = {Spatiotemporal variability in resources affects herbivore home range formation in structurally contrasting and unpredictable agricultural landscapes}, series = {Landscape ecology}, volume = {33}, journal = {Landscape ecology}, number = {9}, publisher = {Springer}, address = {Dordrecht}, issn = {0921-2973}, doi = {10.1007/s10980-018-0676-2}, pages = {1505 -- 1517}, year = {2018}, abstract = {We investigated whether a given landscape structure affects the level of home range size adaptation in response to resource variability. We tested whether increasing resource variability forces herbivorous mammals to increase their home ranges. In 2014 and 2015 we collared 40 European brown hares (Lepus europaeus) with GPS-tags to record hare movements in two regions in Germany with differing landscape structures. We examined hare home range sizes in relation to resource availability and variability by using the normalized difference vegetation index as a proxy. Hares in simple landscapes showed increasing home range sizes with increasing resource variability, whereas hares in complex landscapes did not enlarge their home range. Animals in complex landscapes have the possibility to include various landscape elements within their home ranges and are more resilient against resource variability. But animals in simple landscapes with few elements experience shortcomings when resource variability becomes high. The increase in home range size, the movement related increase in energy expenditure, and a decrease in hare abundances can have severe implications for conservation of mammals in anthropogenic landscapes. Hence, conservation management could benefit from a better knowledge about fine-scaled effects of resource variability on movement behaviour.}, language = {en} } @article{SenczukHavensteinMilanaetal.2018, author = {Senczuk, Gabriele and Havenstein, Katja and Milana, Valentina and Ripa, Chiara and De Simone, Emanuela and Tiedemann, Ralph and Castiglia, Riccardo}, title = {Spotlight on islands}, series = {Scientific reports}, volume = {8}, journal = {Scientific reports}, publisher = {Nature Publ. Group}, address = {London}, issn = {2045-2322}, doi = {10.1038/s41598-018-33326-w}, pages = {12}, year = {2018}, abstract = {Groups of proximate continental islands may conceal more tangled phylogeographic patterns than oceanic archipelagos as a consequence of repeated sea level changes, which allow populations to experience gene flow during periods of low sea level stands and isolation by vicariant mechanisms during periods of high sea level stands. Here, we describe for the first time an ancient and diverging lineage of the Italian wall lizard Podarcis siculus from the western Pontine Islands. We used nuclear and mitochondrial DNA sequences of 156 individuals with the aim of unraveling their phylogenetic position, while microsatellite loci were used to test several a priori insular biogeographic models of migration with empirical data. Our results suggest that the western Pontine populations colonized the islands early during their Pliocene volcanic formation, while populations from the eastern Pontine Islands seem to have been introduced recently. The inter-island genetic makeup indicates an important role of historical migration, probably due to glacial land bridges connecting islands followed by a recent vicariant mechanism of isolation. Moreover, the most supported migration model predicted higher gene flow among islands which are geographically arranged in parallel. Considering the threatened status of small insular endemic populations, we suggest this new evolutionarily independent unit be given priority in conservation efforts.}, language = {en} } @article{HackenbergHakanpaeaeCaietal.2018, author = {Hackenberg, Claudia and Hakanpaeae, Johanna and Cai, Fei and Antonyuk, Svetlana and Eigner, Caroline and Meissner, Sven and Laitaoja, Mikko and Janis, Janne and Kerfeld, Cheryl A. and Dittmann, Elke and Lamzin, Victor S.}, title = {Structural and functional insights into the unique CBS-CP12 fusion protein family in cyanobacteria}, series = {Proceedings of the National Academy of Sciences of the United States of America}, volume = {115}, journal = {Proceedings of the National Academy of Sciences of the United States of America}, number = {27}, publisher = {National Acad. of Sciences}, address = {Washington}, issn = {0027-8424}, doi = {10.1073/pnas.1806668115}, pages = {7141 -- 7146}, year = {2018}, abstract = {Cyanobacteria are important photosynthetic organisms inhabiting a range of dynamic environments. This phylum is distinctive among photosynthetic organisms in containing genes encoding uncharacterized cystathionine beta-synthase (CBS)-chloroplast protein (CP12) fusion proteins. These consist of two domains, each recognized as stand-alone photosynthetic regulators with different functions described in cyanobacteria (CP12) and plants (CP12 and CBSX). Here we show that CBS-CP12 fusion proteins are encoded in distinct gene neighborhoods, several unrelated to photosynthesis. Most frequently, CBS-CP12 genes are in a gene cluster with thioredoxin A (TrxA), which is prevalent in bloom-forming, marine symbiotic, and benthic mat cyanobacteria. Focusing on a CBS-CP12 from Microcystis aeruginosa PCC 7806 encoded in a gene cluster with TrxA, we reveal that the domain fusion led to the formation of a hexameric protein. We show that the CP12 domain is essential for hexamerization and contains an ordered, previously structurally uncharacterized N-terminal region. We provide evidence that CBS-CP12, while combining properties of both regulatory domains, behaves different from CP12 and plant CBSX. It does not form a ternary complex with phosphoribulokinase (PRK) and glyceraldehyde-3-phosphate dehydrogenase. Instead, CBS-CP12 decreases the activity of PRK in an AMP-dependent manner. We propose that the novel domain architecture and oligomeric state of CBS-CP12 expand its regulatory function beyond those of CP12 in cyanobacteria.}, language = {en} } @article{BiterovaEsmaeeliMoghaddamTabalvandaniAlanenetal.2018, author = {Biterova, Ekaterina and Esmaeeli Moghaddam Tabalvandani, Mariam and Alanen, Heli I. and Saaranen, Mirva and Ruddock, Lloyd W.}, title = {Structures of Angptl3 and Angptl4, modulators of triglyceride levels and coronary artery disease}, series = {Scientific reports}, volume = {8}, journal = {Scientific reports}, publisher = {Nature Publ. Group}, address = {London}, issn = {2045-2322}, doi = {10.1038/s41598-018-25237-7}, pages = {12}, year = {2018}, abstract = {Coronary artery disease is the most common cause of death globally and is linked to a number of risk factors including serum low density lipoprotein, high density lipoprotein, triglycerides and lipoprotein(a). Recently two proteins, angiopoietin-like protein 3 and 4, have emerged from genetic studies as being factors that significantly modulate plasma triglyceride levels and coronary artery disease. The exact function and mechanism of action of both proteins remains to be elucidated, however, mutations in these proteins results in up to 34\% reduction in coronary artery disease and inhibition of function results in reduced plasma triglyceride levels. Here we report the crystal structures of the fibrinogen-like domains of both proteins. These structures offer new insights into the reported loss of function mutations, the mechanisms of action of the proteins and open up the possibility for the rational design of low molecular weight inhibitors for intervention in coronary artery disease.}, language = {en} } @article{BragaGomezAparicioHegeretal.2018, author = {Braga, Raul Renno and Gomez-Aparicio, Lorena and Heger, Tina and Simoes Vitule, Jean Ricardo and Jeschke, Jonathan M.}, title = {Structuring evidence for invasional meltdown}, series = {Biological invasions : unique international journal uniting scientists in the broad field of biological invasions}, volume = {20}, journal = {Biological invasions : unique international journal uniting scientists in the broad field of biological invasions}, number = {4}, publisher = {Springer}, address = {Dordrecht}, issn = {1387-3547}, doi = {10.1007/s10530-017-1582-2}, pages = {923 -- 936}, year = {2018}, abstract = {Negative interactions have been suggested as a major barrier for species arriving in a new habitat. More recently, positive interactions drew attention from community assembly theory and invasion science. The invasional meltdown hypothesis (IMH) introduced the idea that positive interactions among non-native species could facilitate one another's invasion, even increasing their impact upon the native community. Many studies have addressed IMH, but with contrasting results, reflecting various types of evidence on a multitude of scales. Here we use the hierarchy-of-hypotheses (HoH) approach to differentiate key aspects of IMH, organizing and linking empirical studies to sub-hypotheses of IMH. We also assess the level of empirical support for each sub-hypothesis based on the evidence reported in the studies. We identified 150 studies addressing IMH. The majority of studies support IMH, but the evidence comes from studies with different aims and questions. Supporting studies at the community or ecosystem level are currently rare. Evidence is scarce for marine habitats and vertebrates. Few sub-hypotheses are questioned by more than 50\% of the evaluated studies, indicating that non-native species do not affect each other's survival, growth, reproduction, abundance, density or biomass in reciprocal A ↔ B interactions. With the HoH for IMH presented here, we can monitor progress in empirical tests and evidences of IMH. For instance, more tests at the community and ecosystem level are needed, as these are necessary to address the core of this hypothesis.}, language = {en} } @article{GeigerKocyan2018, author = {Geiger, Daniel L. and Kocyan, Alexander}, title = {Studies on Oberonia 3. Aberrant flowers and other floral modifications in the orchid genus Oberonia}, series = {Nordic Journal of botany}, volume = {36}, journal = {Nordic Journal of botany}, number = {1-2}, publisher = {Wiley}, address = {Hoboken}, issn = {0107-055X}, doi = {10.1111/njb.01699}, pages = {8}, year = {2018}, abstract = {Orchid flowers are amongst the most conspicuous attractions that plants have generated over evolutionary epochs. However, organ homology in particular of androecium and gynoecium of orchid flowers have been, and are still, the subject of long-term discussion. Studies of aberrant - teratologic - flowers have traditionally helped to clarify organ identity in orchids. We here present for the first time teratological flowers within the florally smallest and inconspicuous orchid genus Oberonia and illustrate them by light and scanning electron microscopy. Pseudopeloria with half of a lateral petal transformed into a lip was found in O. costeriana J.J.Sm. and O. mucronata (D.Don) Ormerod \& Seidenf. A supernumerary lip is known from O. mucronata. Oberonia rufilabris Lindl. is documented with multiple aberrations: triple gynostemium and a total of 10 tepals, twin flowers, and duplicate lips. We interpret these aberrations in light of known floral developmental and organ identity information.}, language = {en} } @phdthesis{Scheffler2018, author = {Scheffler, Christiane}, title = {Studies on plasticity within the universal pattern of growth and developmet of children and adolescents}, school = {Universit{\"a}t Potsdam}, pages = {207}, year = {2018}, abstract = {The anatomically modern human Homo sapiens sapiens is distinguished by a high adaptability in physiology, physique and behaviour in short term changing environmental conditions. Since our environmental factors are constantly changing because of anthropogenic influences, the question arises as to how far we have an impact on the human phenotype in the very sensitive growth phase in children and adolescents. Growth and development of all children and adolescents follow a universal and typical pattern. This pattern has evolved as the result of trade-offs in the 6-7 million years of human evolution. This typically human growth pattern differs from that of other long-living social primate species. It can be divided into different biological age stages, with specific biological, cognitive and socio-cultural signs. Phenotypic plasticity is the ability of an organism to react to an internal or external environmental input with a change in the form, state, and movement rate of activity (West-Eberhard 2003). The plasticity becomes visible and measurable particularly when, in addition to the normal variability of the phenotypic characteristics within a population, the manifestation of this plasticity changes within a relatively short time. The focus of the present work is the comparison of age-specific dimensional changes. The basic of the presented studies are more than 75,000 anthropometric data-sets of children and adolescence from 1980 up today and historical data of height available in scientific literature. Due to reduced daily physical activity, today's 6-18 year-olds have lower values of pelvic and elbow breadths. The observed increase in body height can be explained by hierarchies in social networks of human societies, contrary to earlier explanations (influence of nutrition, good living conditions and genetics). A shift towards a more feminine fat distribution pattern in boys and girls is parallel to the increase in chemicals in our environment that can affect the hormone system. Changing environmental conditions can have selective effects over generations so that that genotype becomes increasingly prevalent whose individuals have a higher progeny rate than other individuals in this population. Those then form the phenotype which allows optimum adaptation to the changes of the environmental conditions. Due to the slow patterns of succession and the low progeny rate (Hawkes et al. 1998), fast visible in the phenotype due to changes in the genotype of a population are unlikely to occur in the case of Homo sapiens sapiens within short time. In the data sets on which the presented investigations are based, such changes appear virtually impossible. The study periods cover 5-30 to max.100 years (based on data from the body height from historical data sets).}, language = {en} } @misc{HermanussenBoginScheffler2018, author = {Hermanussen, Michael and Bogin, Barry and Scheffler, Christiane}, title = {Stunting, starvation and refeeding}, series = {Acta paediatrica : nurturing the child}, volume = {107}, journal = {Acta paediatrica : nurturing the child}, number = {7}, publisher = {Wiley}, address = {Hoboken}, issn = {0803-5253}, doi = {10.1111/apa.14311}, pages = {1166 -- 1176}, year = {2018}, abstract = {Aim: To scrutinize to what extent modern ideas about nutrition effects on growth are supported by historic observations in European populations. Method: We reviewed 19th and early 20th century paediatric journals in the Staatsbibliothek zu Berlin, the third largest European library with an almost complete collection of the German medical literature. During a three-day visit, we inspected 15 bookshelf meters of literature not available in electronic format. Results: Late 19th and early 20th century breastfed European infants and children, independent of social strata, grew far below World Health Organisation (WHO) standards and 15-30\% of adequately-fed children would be classified as stunted by the WHO standards. Historic sources indicate that growth in height is largely independent of the extent and nature of the diet. Height catch-up after starvation was greater than catch-up reported in modern nutrition intervention studies, and allowed for unimpaired adult height. Conclusion: Historical studies are indispensable to understand why stunting does not equate with undernutrition and why modern diet interventions frequently fail to prevent stunting. Appropriateness and effect size of modern nutrition interventions on growth need revision.}, language = {en} } @article{StreubelFritzTeltowetal.2018, author = {Streubel, Susanna and Fritz, Michael Andre and Teltow, Melanie and Kappel, Christian and Sicard, Adrien}, title = {Successive duplication-divergence mechanisms at the RCO locus contributed to leaf shape diversity in the Brassicaceae}, series = {Development : Company of Biologists}, volume = {145}, journal = {Development : Company of Biologists}, number = {8}, publisher = {Company of Biologists}, address = {Cambridge}, issn = {0950-1991}, doi = {10.1242/dev.164301}, pages = {10}, year = {2018}, abstract = {Gene duplication is a major driver for the increase of biological complexity. The divergence of newly duplicated paralogs may allow novel functions to evolve, while maintaining the ancestral one. Alternatively, partitioning the ancestral function among paralogs may allow parts of that role to follow independent evolutionary trajectories. We studied the REDUCED COMPLEXITY (RCO) locus, which contains three paralogs that have evolved through two independent events of gene duplication, and which underlies repeated events of leaf shape evolution within the Brassicaceae. In particular, we took advantage of the presence of three potentially functional paralogs in Capsella to investigate the extent of functional divergence among them. We demonstrate that the RCO copies control growth in different areas of the leaf. Consequently, the copies that are retained active in the different Brassicaceae lineages contribute to define the leaf dissection pattern. Our results further illustrate how successive gene duplication events and subsequent functional divergence can increase trait evolvability by providing independent evolutionary trajectories to specialized functions that have an additive effect on a given trait.}, language = {en} } @article{SchnitzlerReckendorfPinzoneetal.2018, author = {Schnitzler, Joseph G. and Reckendorf, Anja and Pinzone, Marianna and Autenrieth, Marijke and Tiedemann, Ralph and Covaci, Adrian and Malarvannan, Govindan and Ruser, Andreas and Das, Krishna and Siebert, Ursula}, title = {Supporting evidence for PCB pollution threatening global killer whale population}, series = {Aquatic Toxicology}, volume = {206}, journal = {Aquatic Toxicology}, publisher = {Elsevier}, address = {Amsterdam}, issn = {0166-445X}, doi = {10.1016/j.aquatox.2018.11.008}, pages = {102 -- 104}, year = {2018}, abstract = {A recent Science report predicted the global killer whale population to collapse due to PCB pollution. Here we present empirical evidence, which supports and extends the reports' statement. In 2016, a neonate male killer whale stranded on the German island of Sylt. Neonatal attributes indicated an age of at least 3 days. The stomach contained ∼20 mL milk residue and no pathologies explaining the cause of death could be detected. Blubber samples presenting low lipid concentrations were analysed for persistent organic pollutants. Skin samples were collected for genotyping of the mitochondrial control region. The blubber PCB concentrations were very high [SPCBs, 225 mg/kg lipid weight (lw)], largely exceeding the PCB toxicity thresholds reported for the onset of immunosuppression [9 mg/kg lw ∑PCB] and for severe reproductive impairment [41 mg/kg lw ∑PCB] reported for marine mammals. Additionally, this individual showed equally high concentrations in p,p'-DDE [226 mg/kg lw], PBDEs [5 mg/kg lw] and liver mercury levels [1.1 μg/g dry weight dw]. These results suggest a high placental transfer of pollutants from mother to foetus. Consequently, blubber and plasma PCB concentrations and calf mortality rates are both high in primiparous females. With such high pollutant levels, this neonate had poor prerequisites for survival. The neonate belonged to Ecotype I (generalist feeder) and carried the mitochondrial haplotype 35 present in about 16\% of the North Atlantic killer whale from or close to the North Sea. The relevance of this data becomes apparent in the UK West Coast Community, the UK's only residentorca population, which is currently composed of only eight individuals (each four males and females) and no calves have been reported over the last 19 years.Despite worldwide regulations, PCBs persist in the environment and remain a severe concern for killer whale populations, placing calves at high risk due to the mother-offspring PCB-transfer resulting in a high toxicological burden of the neonates.}, language = {en} } @article{WischkeBaehrRachevaetal.2018, author = {Wischke, Christian and Baehr, Elen and Racheva, Miroslava and Heuchel, Matthias and Weigel, Thomas and Lendlein, Andreas}, title = {Surface immobilization strategies for tyrosinase as biocatalyst applicable to polymer network synthesis}, series = {MRS Advances}, volume = {3}, journal = {MRS Advances}, number = {63}, publisher = {Cambridge Univ. Press}, address = {New York}, issn = {2059-8521}, doi = {10.1557/adv.2018.630}, pages = {3875 -- 3881}, year = {2018}, abstract = {Enzymes have recently attracted increasing attention in material research based on their capacity to catalyze the conversion of polymer-bound moieties for synthesizing polymer networks, particularly bulk hydrogels. hi this study. the surface immobilization of a relevant enzyme. mushroom tyrosinase, should be explored using glass as model surface. In a first step. the glass support was functionalized with silanes to introduce either amine or carboxyl groups, as confirmed e.g. by X-ray photoelectron spectroscopy. By applying glutaraldehyde and EDC/NHS chemistry, respectively, surfaces have been activated for subsequent successful coupling of tyrosinase. Via protein hydrolysis and amino acid characterization by HPLC, the quantity of bound tyrosinase was shown to correspond to a full surface coverage. Based on the visualized enzymatic conversion of a test substrate at the glass support. the functionalized surfaces may be explored for surface-associated material synthesis in the future.}, language = {en} } @article{OberteggerCieplinskiRaatzetal.2018, author = {Obertegger, Ulrike and Cieplinski, Adam and Raatz, Michael and Colangeli, Pierluigi}, title = {Switching between swimming states in rotifers - case study Keratella cochlearis}, series = {Marine and Freshwater Behaviour and Physiology}, volume = {51}, journal = {Marine and Freshwater Behaviour and Physiology}, number = {3}, publisher = {Routledge, Taylor \& Francis Group}, address = {Abingdon}, issn = {1023-6244}, doi = {10.1080/10236244.2018.1503541}, pages = {159 -- 173}, year = {2018}, abstract = {Swimming is of vital importance for aquatic organisms because it determines several aspects of fitness, such as encounter rates with food, predators, and mates. Generally, rotifer swimming speed is measured by manual tracking of the swimming paths filmed in videos. Recently, an open-source package has been developed that integrates different open-source software and allows direct processing and analysis of the swimming paths of moving organisms. Here, we filmed groups of females and males of Keratella cochlearis separately and in a mixed experimental setup. We extracted movement trajectories and swimming speeds and applied the classification method random forest to assign sex to individuals of the mixed setup. Finally, we used advanced statistical methods of movement ecology, namely a hidden Markov model, to investigate swimming states of females and males. When not discriminating swimming states, females swam faster than males, while when discriminating states males swam faster. Specifically, females and males showed two main states of movement with many individuals switching between states resulting in four modes of swimming. We suggest that switching between states is related to predator avoidance. Males of K. cochlearis especially exhibited switching between turning in a restricted area and swimming over longer distances. No mating or other male-female interactions were observed. Our study elucidates the steps necessary for automatic analysis of rotifer trajectories with open-source software. Application of sophisticated software and analytical models will broaden our understanding of zooplankton ecology from the individual to the population level.}, language = {en} } @article{ZabihiGraffSchumacheretal.2018, author = {Zabihi, Fatemeh and Graff, Patrick and Schumacher, Fabian and Kleuser, Burkhard and Hedtrich, Sarah and Haag, Rainer}, title = {Synthesis of poly(lactide-co-glycerol) as a biodegradable and biocompatible polymer with high loading capacity for dermal drug delivery}, series = {Nanoscale}, volume = {10}, journal = {Nanoscale}, number = {35}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {2040-3364}, doi = {10.1039/c8nr05536j}, pages = {16848 -- 16856}, year = {2018}, abstract = {Due to the low cutaneous bioavailability of tacrolimus (TAC), penetration enhancers are used to improve its penetration into the skin. However, poor loading capacity, non-biodegradability, toxicity, and in some cases inefficient skin penetration are challenging issues that hamper their applications for the dermal TAC delivery. Here we present poly(lactide-co-glycerol) (PLG) as a water soluble, biodegradable, and biocompatible TAC-carrier with high loading capacity (14.5\% w/w for TAC) and high drug delivery efficiencies into the skin. PLG was synthesized by cationic ring-opening copolymerization of a mixture of glycidol and lactide and showed 35 nm and 300 nm average sizes in aqueous solutions before and after loading of TAC, respectively. Delivery experiments on human skin, quantified by fluorescence microscopy and LC-MS/MS, showed a high ability for PLG to deposit Nile red and TAC into the stratum corneum and viable epidermis of skin in comparison with Protopic (R) (0.03\% w/w, TAC ointment). The cutaneous distribution profile of delivered TAC proved that 80\%, 16\%, and 4\% of the cutaneous drug level was deposited in the stratum corneum, viable epidermis, and upper dermis, respectively. TAC delivered by PLG was able to efficiently decrease the IL-2 and TSLP expressions in human skin models. Taking advantage of the excellent physicochemical and biological properties of PLG, it can be used for efficient dermal TAC delivery and potential treatment of inflammatory skin diseases.}, language = {en} } @article{ReinhardtLierschAbdeladhimetal.2018, author = {Reinhardt, Julia and Liersch, Stefan and Abdeladhim, Mohamed Arbi and Diallo, Mori and Dickens, Chris and Fournet, Samuel and Hattermann, Fred and Kabaseke, Clovis and Muhumuza, Moses and Mul, Marloes L. and Pilz, Tobias and Otto, Ilona M. and Walz, Ariane}, title = {Systematic evaluation of scenario assessments supporting sustainable integrated natural resources management}, series = {Ecology and society : a journal of integrative science for resilience and sustainability}, volume = {23}, journal = {Ecology and society : a journal of integrative science for resilience and sustainability}, number = {1}, publisher = {Resilience Alliance}, address = {Wolfville}, issn = {1708-3087}, doi = {10.5751/ES-09728-230105}, pages = {34}, year = {2018}, abstract = {Scenarios have become a key tool for supporting sustainability research on regional and global change. In this study we evaluate four regional scenario assessments: first, to explore a number of research challenges related to sustainability science and, second, to contribute to sustainability research in the specific case studies. The four case studies used commonly applied scenario approaches that are (i) a story and simulation approach with stakeholder participation in the Oum Zessar watershed, Tunisia, (ii) a participatory scenario exploration in the Rwenzori region, Uganda, (iii) a model-based prepolicy study in the Inner Niger Delta, Mali, and (iv) a model coupling-based scenario analysis in upper Thukela basin, South Africa. The scenario assessments are evaluated against a set of known challenges in sustainability science, with each challenge represented by two indicators, complemented by a survey carried out on the perception of the scenario assessments within the case study regions. The results show that all types of scenario assessments address many sustainability challenges, but that the more complex ones based on story and simulation and model coupling are the most comprehensive. The study highlights the need to investigate abrupt system changes as well as governmental and political factors as important sources of uncertainty. For an in-depth analysis of these issues, the use of qualitative approaches and an active engagement of local stakeholders are suggested. Studying ecological thresholds for the regional scale is recommended to support research on regional sustainability. The evaluation of the scenario processes and outcomes by local researchers indicates the most transparent scenario assessments as the most useful. Focused, straightforward, yet iterative scenario assessments can be very relevant by contributing information to selected sustainability problems.}, language = {en} } @article{OttenKnoxBouldayetal.2018, author = {Otten, Cecile and Knox, Jessica and Boulday, Gwenola and Eymery, Mathias and Haniszewski, Marta and Neuenschwander, Martin and Radetzki, Silke and Vogt, Ingo and Haehn, Kristina and De Luca, Coralie and Cardoso, Cecile and Hamad, Sabri and Igual Gil, Carla and Roy, Peter and Albiges-Rizo, Corinne and Faurobert, Eva and von Kries, Jens P. and Campillos, Monica and Tournier-Lasserve, Elisabeth and Derry, William Brent and Abdelilah-Seyfried, Salim}, title = {Systematic pharmacological screens uncover novel pathways involved in cerebral cavernous malformations}, series = {EMBO molecular medicine}, volume = {10}, journal = {EMBO molecular medicine}, number = {10}, publisher = {Wiley}, address = {Hoboken}, issn = {1757-4676}, doi = {10.15252/emmm.201809155}, pages = {17}, year = {2018}, abstract = {Cerebral cavernous malformations (CCMs) are vascular lesions in the central nervous system causing strokes and seizures which currently can only be treated through neurosurgery. The disease arises through changes in the regulatory networks of endothelial cells that must be comprehensively understood to develop alternative, non-invasive pharmacological therapies. Here, we present the results of several unbiased small-molecule suppression screens in which we applied a total of 5,268 unique substances to CCM mutant worm, zebrafish, mouse, or human endothelial cells. We used a systems biology-based target prediction tool to integrate the results with the whole-transcriptome profile of zebrafish CCM2 mutants, revealing signaling pathways relevant to the disease and potential targets for small-molecule-based therapies. We found indirubin-3-monoxime to alleviate the lesion burden in murine preclinical models of CCM2 and CCM3 and suppress the loss-of-CCM phenotypes in human endothelial cells. Our multi-organism-based approach reveals new components of the CCM regulatory network and foreshadows novel small-molecule-based therapeutic applications for suppressing this devastating disease in patients.}, language = {en} } @article{FoersterBullLenzetal.2018, author = {F{\"o}rster, Daniel W. and Bull, James K. and Lenz, Dorina and Autenrieth, Marijke and Paijmans, Johanna L. A. and Kraus, Robert H. S. and Nowak, Carsten and Bayerl, Helmut and K{\"u}hn, Ralph and Saveljev, Alexander P. and Sindicic, Magda and Hofreiter, Michael and Schmidt, Krzysztof and Fickel, J{\"o}rns}, title = {Targeted resequencing of coding DNA sequences for SNP discovery in nonmodel species}, series = {Molecular ecology resources}, volume = {18}, journal = {Molecular ecology resources}, number = {6}, publisher = {Wiley}, address = {Hoboken}, issn = {1755-098X}, doi = {10.1111/1755-0998.12924}, pages = {1356 -- 1373}, year = {2018}, abstract = {Targeted capture coupled with high-throughput sequencing can be used to gain information about nuclear sequence variation at hundreds to thousands of loci. Divergent reference capture makes use of molecular data of one species to enrich target loci in other (related) species. This is particularly valuable for nonmodel organisms, for which often no a priori knowledge exists regarding these loci. Here, we have used targeted capture to obtain data for 809 nuclear coding DNA sequences (CDS) in a nonmodel organism, the Eurasian lynx Lynx lynx, using baits designed with the help of the published genome of a related model organism (the domestic cat Felis catus). Using this approach, we were able to survey intraspecific variation at hundreds of nuclear loci in L. lynx across the species' European range. A large set of biallelic candidate SNPs was then evaluated using a high-throughput SNP genotyping platform (Fluidigm), which we then reduced to a final 96 SNP-panel based on assay performance and reliability; validation was carried out with 100 additional Eurasian lynx samples not included in the SNP discovery phase. The 96 SNP-panel developed from CDS performed very successfully in the identification of individuals and in population genetic structure inference (including the assignment of individuals to their source population). In keeping with recent studies, our results show that genic SNPs can be valuable for genetic monitoring of wildlife species.}, language = {en} } @article{TaronLellBarlowetal.2018, author = {Taron, Ulrike H. and Lell, Moritz and Barlow, Axel and Paijmans, Johanna L. A.}, title = {Testing of Alignment Parameters for Ancient Samples}, series = {Genes}, volume = {9}, journal = {Genes}, number = {3}, publisher = {Molecular Diversity Preservation International}, address = {Basel}, issn = {2073-4425}, doi = {10.3390/genes9030157}, pages = {1 -- 12}, year = {2018}, abstract = {High-throughput sequence data retrieved from ancient or other degraded samples has led to unprecedented insights into the evolutionary history of many species, but the analysis of such sequences also poses specific computational challenges. The most commonly used approach involves mapping sequence reads to a reference genome. However, this process becomes increasingly challenging with an elevated genetic distance between target and reference or with the presence of contaminant sequences with high sequence similarity to the target species. The evaluation and testing of mapping efficiency and stringency are thus paramount for the reliable identification and analysis of ancient sequences. In this paper, we present 'TAPAS', (Testing of Alignment Parameters for Ancient Samples), a computational tool that enables the systematic testing of mapping tools for ancient data by simulating sequence data reflecting the properties of an ancient dataset and performing test runs using the mapping software and parameter settings of interest. We showcase TAPAS by using it to assess and improve mapping strategy for a degraded sample from a banded linsang (Prionodon linsang), for which no closely related reference is currently available. This enables a 1.8-fold increase of the number of mapped reads without sacrificing mapping specificity. The increase of mapped reads effectively reduces the need for additional sequencing, thus making more economical use of time, resources, and sample material.}, language = {en} } @article{TaronLellBarlowetal.2018, author = {Taron, Ulrike H. and Lell, Moritz and Barlow, Axel and Paijmans, Johanna L. A.}, title = {Testing of Alignment Parameters for Ancient Samples}, series = {Genese}, volume = {9}, journal = {Genese}, number = {3}, publisher = {MDPI}, address = {Basel}, issn = {2073-4425}, doi = {10.3390/genes9030157}, pages = {12}, year = {2018}, abstract = {High-throughput sequence data retrieved from ancient or other degraded samples has led to unprecedented insights into the evolutionary history of many species, but the analysis of such sequences also poses specific computational challenges. The most commonly used approach involves mapping sequence reads to a reference genome. However, this process becomes increasingly challenging with an elevated genetic distance between target and reference or with the presence of contaminant sequences with high sequence similarity to the target species. The evaluation and testing of mapping efficiency and stringency are thus paramount for the reliable identification and analysis of ancient sequences. In this paper, we present 'TAPAS', (Testing of Alignment Parameters for Ancient Samples), a computational tool that enables the systematic testing of mapping tools for ancient data by simulating sequence data reflecting the properties of an ancient dataset and performing test runs using the mapping software and parameter settings of interest. We showcase TAPAS by using it to assess and improve mapping strategy for a degraded sample from a banded linsang (Prionodon linsang), for which no closely related reference is currently available. This enables a 1.8-fold increase of the number of mapped reads without sacrificing mapping specificity. The increase of mapped reads effectively reduces the need for additional sequencing, thus making more economical use of time, resources, and sample material.}, language = {en} } @article{DarwallBremerichDeWeveretal.2018, author = {Darwall, William and Bremerich, Vanessa and De Wever, Aaike and Dell, Anthony I. and Freyhof, Joerg and Gessner, Mark O. and Grossart, Hans-Peter and Harrison, Ian and Irvine, Ken and J{\"a}hnig, Sonja C. and Jeschke, Jonathan M. and Lee, Jessica J. and Lu, Cai and Lewandowska, Aleksandra M. and Monaghan, Michael T. and Nejstgaard, Jens C. and Patricio, Harmony and Schmidt-Kloiber, Astrid and Stuart, Simon N. and Thieme, Michele and Tockner, Klement and Turak, Eren and Weyl, Olaf}, title = {The alliance for freshwater life}, series = {Aquatic Conservation: Marine and Freshwater Ecosystems}, volume = {28}, journal = {Aquatic Conservation: Marine and Freshwater Ecosystems}, number = {4}, publisher = {Wiley}, address = {Hoboken}, issn = {1052-7613}, doi = {10.1002/aqc.2958}, pages = {1015 -- 1022}, year = {2018}, abstract = {1. Global pressures on freshwater ecosystems are high and rising. Viewed primarily as a resource for humans, current practices of water use have led to catastrophic declines in freshwater species and the degradation of freshwater ecosystems, including their genetic and functional diversity. Approximately three-quarters of the world's inland wetlands have been lost, one-third of the 28 000 freshwater species assessed for the International Union for Conservation of Nature (IUCN) Red List are threatened with extinction, and freshwater vertebrate populations are undergoing declines that are more rapid than those of terrestrial and marine species. This global loss continues unchecked, despite the importance of freshwater ecosystems as a source of clean water, food, livelihoods, recreation, and inspiration. 2. The causes of these declines include hydrological alterations, habitat degradation and loss, overexploitation, invasive species, pollution, and the multiple impacts of climate change. Although there are policy initiatives that aim to protect freshwater life, these are rarely implemented with sufficient conviction and enforcement. Policies that focus on the development and management of fresh waters as a resource for people almost universally neglect the biodiversity that they contain. 3. Here we introduce the Alliance for Freshwater Life, a global initiative, uniting specialists in research, data synthesis, conservation, education and outreach, and policymaking. This expert network aims to provide the critical mass required for the effective representation of freshwater biodiversity at policy meetings, to develop solutions balancing the needs of development and conservation, and to better convey the important role freshwater ecosystems play in human well-being. Through this united effort we hope to reverse this tide of loss and decline in freshwater biodiversity. We introduce several short- and medium-term actions as examples for making positive change, and invite individuals, organizations, authorities, and governments to join the Alliance for Freshwater Life.}, language = {en} } @article{LisowskaRoedelManetetal.2018, author = {Lisowska, Justyna and R{\"o}del, Claudia Jasmin and Manet, Sandra and Miroshnikova, Yekaterina A. and Boyault, Cyril and Planus, Emmanuelle and De Mets, Richard and Lee, Hsiao-Hui and Destaing, Olivier and Mertani, Hichem and Boulday, Gwenola and Tournier-Lasserve, Elisabeth and Balland, Martial and Abdelilah-Seyfried, Salim and Albiges-Rizo, Corinne and Faurobert, Eva}, title = {The CCM1-CCM2 complex controls complementary functions of ROCK1 and ROCK2 that are required for endothelial integrity}, series = {Journal of cell science}, volume = {131}, journal = {Journal of cell science}, number = {15}, publisher = {Company biologists LTD}, address = {Cambridge}, issn = {0021-9533}, doi = {10.1242/jcs.216093}, pages = {15}, year = {2018}, abstract = {Endothelial integrity relies on a mechanical crosstalk between intercellular and cell-matrix interactions. This crosstalk is compromised in hemorrhagic vascular lesions of patients carrying loss-of-function mutations in cerebral cavernous malformation (CCM) genes. RhoA/ROCK-dependent cytoskeletal remodeling is central to the disease, as it causes unbalanced cell adhesion towards increased cell-extracellular matrix adhesions and destabilized cell-cell junctions. This study reveals that CCM proteins directly orchestrate ROCK1 and ROCK2 complementary roles on the mechanics of the endothelium. CCM proteins act as a scaffold, promoting ROCK2 interactions with VE-cadherin and limiting ROCK1 kinase activity. Loss of CCM1 (also known as KRIT1) produces excessive ROCK1-dependent actin stress fibers and destabilizes intercellular junctions. Silencing of ROCK1 but not ROCK2 restores the adhesive and mechanical homeostasis of CCM1 and CCM2-depleted endothelial monolayers, and rescues the cardiovascular defects of ccm1 mutant zebrafish embryos. Conversely, knocking down Rock2 but not Rock1 in wild-type zebrafish embryos generates defects reminiscent of the ccm1 mutant phenotypes. Our study uncovers the role of the CCM1-CCM2 complex in controlling ROCK1 and ROCK2 to preserve endothelial integrity and drive heart morphogenesis. Moreover, it solely identifies the ROCK1 isoform as a potential therapeutic target for the CCM disease.}, language = {en} } @article{vanKleunenEsslPergletal.2018, author = {van Kleunen, Mark and Essl, Franz and Pergl, Jan and Brundu, Giuseppe and Carboni, Marta and Dullinger, Stefan and Early, Regan and Gonzalez-Moreno, Pablo and Groom, Quentin J. M. and Hulme, Philip E. and Kueffer, Christoph and K{\"u}hn, Ingolf and Maguas, Cristina and Maurel, Noelie and Novoa, Ana and Parepa, Madalin and Pysek, Petr and Seebens, Hanno and Tanner, Rob and Touza, Julia and Verbrugge, Laura and Weber, Ewald and Dawson, Wayne and Kreft, Holger and Weigelt, Patrick and Winter, Marten and Klonner, Guenther and Talluto, Matthew V. and Dehnen-Schmutz, Katharina}, title = {The changing role of ornamental horticulture in alien plant invasions}, series = {Biological reviews}, volume = {93}, journal = {Biological reviews}, number = {3}, publisher = {Wiley}, address = {Hoboken}, issn = {1464-7931}, doi = {10.1111/brv.12402}, pages = {1421 -- 1437}, year = {2018}, abstract = {The number of alien plants escaping from cultivation into native ecosystems is increasing steadily. We provide an overview of the historical, contemporary and potential future roles of ornamental horticulture in plant invasions. We show that currently at least 75\% and 93\% of the global naturalised alien flora is grown in domestic and botanical gardens, respectively. Species grown in gardens also have a larger naturalised range than those that are not. After the Middle Ages, particularly in the 18th and 19th centuries, a global trade network in plants emerged. Since then, cultivated alien species also started to appear in the wild more frequently than non-cultivated aliens globally, particularly during the 19th century. Horticulture still plays a prominent role in current plant introduction, and the monetary value of live-plant imports in different parts of the world is steadily increasing. Historically, botanical gardens - an important component of horticulture - played a major role in displaying, cultivating and distributing new plant discoveries. While the role of botanical gardens in the horticultural supply chain has declined, they are still a significant link, with one-third of institutions involved in retail-plant sales and horticultural research. However, botanical gardens have also become more dependent on commercial nurseries as plant sources, particularly in North America. Plants selected for ornamental purposes are not a random selection of the global flora, and some of the plant characteristics promoted through horticulture, such as fast growth, also promote invasion. Efforts to breed non-invasive plant cultivars are still rare. Socio-economical, technological, and environmental changes will lead to novel patterns of plant introductions and invasion opportunities for the species that are already cultivated. We describe the role that horticulture could play in mediating these changes. We identify current research challenges, and call for more research efforts on the past and current role of horticulture in plant invasions. This is required to develop science-based regulatory frameworks to prevent further plant invasions.}, language = {en} } @article{FolkertsmaWestburyEccardetal.2018, author = {Folkertsma, Remco and Westbury, Michael V. and Eccard, Jana and Hofreiter, Michael}, title = {The complete mitochondrial genome of the common vole, Microtus arvalis (Rodentia: Arvicolinae)}, series = {Mitochondrial DNA Part B}, volume = {3}, journal = {Mitochondrial DNA Part B}, number = {1}, issn = {2380-2359}, doi = {10.1080/23802359.2018.1457994}, pages = {446 -- 447}, year = {2018}, abstract = {The common vole, Microtus arvalis belongs to the genus Microtus in the subfamily Arvicolinae. In this study, the complete mitochondrial genome of M. arvalis was recovered using shotgun sequencing and an iterative mapping approach using three related species. Phylogenetic analyses using the sequence of 21 arvicoline species place the common vole as a sister species to the East European vole (Microtus levis), but as opposed to previous results we find no support for the recognition of the genus Neodon within the subfamily Arvicolinae, as this is, as well as the genus Lasiopodomys, found within the Microtus genus.}, language = {en} } @misc{Kleuser2018, author = {Kleuser, Burkhard}, title = {The enigma of sphingolipids in health and disease}, series = {International journal of molecular sciences}, volume = {19}, journal = {International journal of molecular sciences}, number = {10}, publisher = {MDPI}, address = {Basel}, issn = {1422-0067}, doi = {10.3390/ijms19103126}, pages = {3}, year = {2018}, language = {en} } @article{MazzaEccardZaccaronietal.2018, author = {Mazza, Valeria and Eccard, Jana and Zaccaroni, Marco and Jacob, Jens and Dammhahn, Melanie}, title = {The fast and the flexible}, series = {Animal behaviour}, volume = {137}, journal = {Animal behaviour}, publisher = {Elsevier}, address = {London}, issn = {0003-3472}, doi = {10.1016/j.anbehav.2018.01.011}, pages = {119 -- 132}, year = {2018}, language = {en} } @article{SchedinaGrothSchluppetal.2018, author = {Schedina, Ina Maria and Groth, Detlef and Schlupp, Ingo and Tiedemann, Ralph}, title = {The gonadal transcriptome of the unisexual Amazon molly Poecilia formosa in comparison to its sexual ancestors, Poecilia mexicana and Poecilia latipinna}, series = {BMC Genomics}, volume = {19}, journal = {BMC Genomics}, number = {12}, publisher = {BioMed Central}, address = {London}, issn = {1471-2164}, doi = {10.1186/s12864-017-4382-2}, pages = {1 -- 18}, year = {2018}, abstract = {Background The unisexual Amazon molly (Poecilia formosa) originated from a hybridization between two sexual species, the sailfin molly (Poecilia latipinna) and the Atlantic molly (Poecilia mexicana). The Amazon molly reproduces clonally via sperm-dependent parthenogenesis (gynogenesis), in which the sperm of closely related species triggers embryogenesis of the apomictic oocytes, but typically does not contribute genetic material to the next generation. We compare for the first time the gonadal transcriptome of the Amazon molly to those of both ancestral species, P. mexicana and P. latipinna. Results We sequenced the gonadal transcriptomes of the P. formosa and its parental species P. mexicana and P. latipinna using Illumina RNA-sequencing techniques (paired-end, 100 bp). De novo assembly of about 50 million raw read pairs for each species was performed using Trinity, yielding 106,922 transcripts for P. formosa, 115,175 for P. latipinna, and 133,025 for P. mexicana after eliminating contaminations. On the basis of sequence similarity comparisons to other teleost species and the UniProt databases, functional annotation, and differential expression analysis, we demonstrate the similarity of the transcriptomes among the three species. More than 40\% of the transcripts for each species were functionally annotated and about 70\% were assigned to orthologous genes of a closely related species. Differential expression analysis between the sexual and unisexual species uncovered 2035 up-regulated and 564 down-regulated genes in P. formosa. This was exemplary validated for six genes by qRT-PCR. Conclusions We identified more than 130 genes related to meiosis and reproduction within the apomictically reproducing P. formosa. Overall expression of these genes seems to be down-regulated in the P. formosa transcriptome compared to both ancestral species (i.e., 106 genes down-regulated, 29 up-regulated). A further 35 meiosis and reproduction related genes were not found in the P. formosa transcriptome, but were only expressed in the sexual species. Our data support the hypothesis of general down-regulation of meiosis-related genes in the apomictic Amazon molly. Furthermore, the obtained dataset and identified gene catalog will serve as a resource for future research on the molecular mechanisms behind the reproductive mode of this unisexual species.}, language = {en} } @article{SynodinosTietjenLohmannetal.2018, author = {Synodinos, Alexis D. and Tietjen, Britta and Lohmann, Dirk and Jeltsch, Florian}, title = {The impact of inter-annual rainfall variability on African savannas changes with mean rainfall}, series = {Journal of theoretical biology}, volume = {437}, journal = {Journal of theoretical biology}, publisher = {Elsevier Ltd.}, address = {London}, issn = {0022-5193}, doi = {10.1016/j.jtbi.2017.10.019}, pages = {92 -- 100}, year = {2018}, abstract = {Savannas are mixed tree-grass ecosystems whose dynamics are predominantly regulated by resource competition and the temporal variability in climatic and environmental factors such as rainfall and fire. Hence, increasing inter-annual rainfall variability due to climate change could have a significant impact on savannas. To investigate this, we used an ecohydrological model of stochastic differential equations and simulated African savanna dynamics along a gradient of mean annual rainfall (520-780 mm/year) for a range of inter-annual rainfall variabilities. Our simulations produced alternative states of grassland and savanna across the mean rainfall gradient. Increasing inter-annual variability had a negative effect on the savanna state under dry conditions (520 mm/year), and a positive effect under moister conditions (580-780 mm/year). The former resulted from the net negative effect of dry and wet extremes on trees. In semi-arid conditions (520 mm/year), dry extremes caused a loss of tree cover, which could not be recovered during wet extremes because of strong resource competition and the increased frequency of fires. At high mean rainfall (780 mm/year), increased variability enhanced savanna resilience. Here, resources were no longer limiting and the slow tree dynamics buffered against variability by maintaining a stable population during 'dry' extremes, providing the basis for growth during wet extremes. Simultaneously, high rainfall years had a weak marginal benefit on grass cover due to density-regulation and grazing. Our results suggest that the effects of the slow tree and fast grass dynamics on tree-grass interactions will become a major determinant of the savanna vegetation composition with increasing rainfall variability.}, language = {en} } @article{MachatschekSchulzLendlein2018, author = {Machatschek, Rainhard Gabriel and Schulz, Burkhard and Lendlein, Andreas}, title = {The influence of pH on the molecular degradation mechanism of PLGA}, series = {MRS Advances}, volume = {3}, journal = {MRS Advances}, number = {63}, publisher = {Cambridge Univ. Press}, address = {New York}, issn = {2059-8521}, doi = {10.1557/adv.2018.602}, pages = {3883 -- 3889}, year = {2018}, abstract = {Poly[(rac-lactide)-co-glycolide] (PLGA) is used in medicine to provide mechanical support for healing tissue or as matrix for controlled drug release. The properties of this copolymer depend on the evolution of the molecular weight of the material during degradation. which is determined by the kinetics of the cleavage of hydrolysable bonds. The generally accepted description of the degradation of PLGA is a random fragmentation that is autocatalyzed by the accumulation of acidic fragments inside the bulk material. Since mechanistic studies with lactide oligomers have concluded a chain-end scission mechanism and monolayer degradation experiments with polylactide found no accelerated degradation at lower pH, we hypothesize that the impact of acidic fragments on the molecular degradation kinetics of PLGA is overestimated By means of the Langmuir monolayer degradation technique. the molecular degradation kinetics of PLGA at different pH could be determined. Protons did not catalyze the degradation of PLGA. The molecular mechanism at neutral pH and low pH is a combination of random and chainend-cut events, while the degradation under strongly alkaline conditions is determined by rapid chainend cuts. We suggest that the degradation of bulk PLGA is not catalyzed by the acidic degradation products. Instead. increased concentration of small fragments leads to accelerated mass loss via fast chain-end cut events. In the future, we aim to substantiate the proposed molecular degradation mechanism of PLGA with interfacial rheology.}, language = {en} } @misc{PaoliniAbdelilahSeyfried2018, author = {Paolini, Alessio and Abdelilah-Seyfried, Salim}, title = {The mechanobiology of zebrafish cardiac valve leaflet formation}, series = {Current opinion in cell biology : review articles, recommended reading, bibliography of the world literature}, volume = {55}, journal = {Current opinion in cell biology : review articles, recommended reading, bibliography of the world literature}, publisher = {Elsevier}, address = {London}, issn = {0955-0674}, doi = {10.1016/j.ceb.2018.05.007}, pages = {52 -- 58}, year = {2018}, abstract = {Over a lifetime, rhythmic contractions of the heart provide a continuous flow of blood throughout the body. An essential morphogenetic process during cardiac development which ensures unidirectional blood flow is the formation of cardiac valves. These structures are largely composed of extracellular matrix and of endocardial cells, a specialized population of endothelial cells that line the interior of the heart and that are subjected to changing hemodynamic forces. Recent studies have significantly expanded our understanding of this morphogenetic process. They highlight the importance of the mechanobiology of cardiac valve formation and show how biophysical forces due to blood flow drive biochemical and electrical signaling required for the differentiation of cells to produce cardiac valves.}, language = {en} } @phdthesis{Pham2018, author = {Pham, Phuong Anh}, title = {The metabolic significance of the NAD+ salvage pathway and the alternative pathway of respiration in Arabidopsis thaliana}, school = {Universit{\"a}t Potsdam}, pages = {186}, year = {2018}, language = {en} } @article{MontiglioDammhahnMessieretal.2018, author = {Montiglio, Pierre-Olivier and Dammhahn, Melanie and Messier, Gabrielle Dubuc and Reale, Denis}, title = {The pace-of-life syndrome revisited}, series = {Behavioral ecology and sociobiology}, volume = {72}, journal = {Behavioral ecology and sociobiology}, number = {7}, publisher = {Springer}, address = {New York}, issn = {0340-5443}, doi = {10.1007/s00265-018-2526-2}, pages = {9}, year = {2018}, abstract = {The pace-of-life syndrome (i.e., POLS) hypothesis posits that behavioral and physiological traits mediate the trade-off between current and future reproduction. This hypothesis predicts that life history, behavioral, and physiological traits will covary under clearly defined conditions. Empirical tests are equivocal and suggest that the conditions necessary for the POLS to emerge are not always met. We nuance and expand the POLS hypothesis to consider alternative relationships among behavior, physiology, and life history. These relationships will vary with the nature of predation risk, the challenges posed by resource acquisition, and the energy management strategies of organisms. We also discuss how the plastic response of behavior, physiology, and life history to changes in ecological conditions and variation in resource acquisition among individuals determine our ability to detect a fast-slow pace of life in the first place or associations among these traits. Future empirical studies will provide most insights on the coevolution among behavior, physiology, and life history by investigating these traits both at the genetic and phenotypic levels in varying types of predation regimes and levels of resource abundance.}, language = {en} } @phdthesis{deVera2018, author = {de Vera, Jean-Pierre Paul}, title = {The relevance of ecophysiology in astrobiology and planetary research}, school = {Universit{\"a}t Potsdam}, pages = {219}, year = {2018}, abstract = {Eco-physiological processes are expressing the interaction of organisms within an environmental context of their habitat and their degree of adaptation, level of resistance as well as the limits of life in a changing environment. The present study focuses on observations achieved by methods used in this scientific discipline of "Ecophysiology" and to enlarge the scientific context in a broader range of understanding with universal character. The present eco-physiological work is building the basis for classifying and exploring the degree of habitability of another planet like Mars by a bio-driven experimentally approach. It offers also new ways of identifying key-molecules which are playing a specific role in physiological processes of tested organisms to serve as well as potential biosignatures in future space exploration missions with the goal to search for life. This has important implications for the new emerging scientific field of Astrobiology. Astrobiology addresses the study of the origin, evolution, distribution and future of life in the universe. The three fundamental questions which are hidden behind this definition are: how does life begin and evolve? Is there life beyond Earth and, if so, how can we detect it? What is the future of life on Earth and in the universe? It means that this multidisciplinary field encompasses the search for habitable environments in our Solar System and habitable planets outside our Solar System. It comprises the search for the evidence of prebiotic chemistry and life on Mars and other bodies in our Solar System like the icy moons of the Jovian and Saturnian system, laboratory and field research into the origins and early evolution of life on Earth, and studies of the potential for life to adapt to challenges on Earth and in space. For this purpose an integrated research strategy was applied, which connects field research, laboratory research allowing planetary simulation experiments with investigation enterprises performed in space (particularly performed in the low Earth Orbit.}, language = {en} } @article{GuoWeiseFiedleretal.2018, author = {Guo, Tong and Weise, Hanna and Fiedler, Sebastian and Lohmann, Dirk and Tietjen, Britta}, title = {The role of landscape heterogeneity in regulating plant functional diversity under different precipitation and grazing regimes in semi-arid savannas}, series = {Ecological modelling : international journal on ecological modelling and engineering and systems ecolog}, volume = {379}, journal = {Ecological modelling : international journal on ecological modelling and engineering and systems ecolog}, publisher = {Elsevier}, address = {Amsterdam}, issn = {0304-3800}, doi = {10.1016/j.ecolmodel.2018.04.009}, pages = {1 -- 9}, year = {2018}, abstract = {1. Savanna systems exhibit a high plant functional diversity. While aridity and livestock grazing intensity have been widely discussed as drivers of savanna vegetation composition, physical soil properties have received less attention. Since savannas can show local differences in soil properties, these might act as environmental filters and affect plant diversity and ecosystem functioning at the patch scale. However, research on the link between savanna vegetation diversity and ecosystem function is widely missing. 2. In this study, we aim at understanding the impact of local heterogeneity in soil conditions on plant diversity and on ecosystem functions. For this, we used the ecohydrological savanna model EcoHyD. The model simulates the fate of multiple plant functional types and their interactions with local biotic and abiotic conditions. We applied the model to a set of different landscapes under a wide range of livestock grazing and precipitation scenarios to assess the impact of local heterogeneity in soil conditions on the composition and diversity of plant functional types and on ecosystem functions. 3. Comparisons between homogeneous and heterogeneous landscapes revealed that landscape soil heterogeneity allowed for a higher functional diversity of vegetation under conditions of high competition, i.e. scenarios of low grazing stress. However, landscape heterogeneity did not have this effect under low grazing stress in combination with high mean annual precipitation. Further, landscape heterogeneity led to a higher community biomass, especially for lower rainfall conditions, but also dependent on grazing stress. Total transpiration of the plant community decreased in heterogeneous landscapes under arid conditions. 4. This study highlights that local soil conditions interact with precipitation and grazing in driving savanna vegetation. It clearly shows that vegetation diversity and resulting ecosystem functioning can be driven by landscape heterogeneity. We therefore suggest that future research on ecosystem functioning of savanna systems should focus on the links between local environmental conditions via plant functional diversity to ecosystem functioning.}, language = {en} } @phdthesis{Radloff2018, author = {Radloff, Katrin}, title = {The role of the fatty acid profile and its modulation by cytokines in the systemic inflammation in cancer cachexia}, school = {Universit{\"a}t Potsdam}, pages = {156}, year = {2018}, language = {en} } @article{BentsGrothSatake2018, author = {Bents, Dominik and Groth, Detlef and Satake, Takashi}, title = {The secular trend and network effects on height of male Japanese students from 1955 to 2015}, series = {Journal of biological and clinical anthropology}, volume = {74}, journal = {Journal of biological and clinical anthropology}, number = {5}, publisher = {Schweizerbart}, address = {Stuttgart}, issn = {0003-5548}, doi = {10.1127/anthranz/2018/0838}, pages = {423 -- 429}, year = {2018}, abstract = {Introduction: Body height is influenced by biological factors such as genetics, nutrition and health, but also by the social network, and environmental and economical factors. During centuries, the Japanese society has developed on islands. This setting provides ideal natural conditions for studying the influence of social networks on human height. Material and methods: We investigated body height of male Japanese students aged 17.5 years obtained in 47 prefectures, from the Japanese school health survey of the years 1955, 1975, 1995, and 2015. Results: Japanese students increased in height from 163.23 cm in 1955 to 170.84 cm in 1995, with no further increase thereafter (170.63 cm in 2015). Students living in neighboring prefectures were similar in height. The correlation of height between neighboring prefectures ranged between r = 0.79 and r = 0.49 among first degree neighbors, between r = 0.49 and r = 0.21 among second degree neighbors and dropped to insignificance among third degree neighbors indicating psychosocial effects of the community on body height. Tall stature and short stature prefectures did not remain tall or short throughout history. Autocorrelations of height within the same prefectures decreased from the 20 years periods of 1955-1975, 1975-1995 and 1995-2015 (r = 0.52, r = 0.61, r = 0.63, respectively) to the 40 years periods of 1955-1995 and 1975-2015 (r = 0.49, r = 0.52), down to the 60 years period of 1955-2015 (r = 0.27), indicating significant volatility of height. Conclusion: Body height of 17.5 years old Japanese students increased since 1955. Body height depended on height of the neighboring prefecture, but was volatile with decreasing autocorrelation during a period of 60 years.}, language = {en} } @article{BoernkeRocksch2018, author = {B{\"o}rnke, Frederik and Rocksch, Thorsten}, title = {Thigmomorphogenesis}, series = {Scientia horticulturae : an international journal sponsored by the International Society for Horticultural Science}, volume = {234}, journal = {Scientia horticulturae : an international journal sponsored by the International Society for Horticultural Science}, publisher = {Elsevier}, address = {Amsterdam}, issn = {0304-4238}, doi = {10.1016/j.scienta.2018.02.059}, pages = {344 -- 353}, year = {2018}, abstract = {Controlled regulation of plant growth is a general prerequisite for the production of marketable ornamental plants. Consumers as well as retailers prefer stronger, more compact plants with greener leaves as these not only better meet a certain desired visual quality but also allow for a maximization of production per unit area as well as facilitation of packaging and transport. The same applies for the production of young vegetable plants. Special attention is paid to solid, compact and resilient plants that survive transport and planting without any problems. During the last decades plant growth control has mainly been achieved through the application of chemical plant growth regulators that generally interfere with the function of growth regulating hormones. However, there is an increasing demand to replace chemical treatments by other means such as the modulation of growth conditions, including temperature, light and fertilization. Alternatively, the application of mechanical stimulation has been shown to induce plant responses that yield some of the commercially relevant phenotypes including increased compactness, higher girth, darker leaves and a delay in flowering. The ability of plants to sense and respond to mechanical stimuli is an adaptive trait associated with increased fitness in many environmental settings. Mechanical stimulation in nature occurs e.g. through wind, rain, neighboring plants or predatory animals and induces a range of morphogenic responses that have been summarized under the term thigmomorphogenesis. We are only just about to begin to understand the molecular mechanisms underlying mechanosensing and the associated morphogenic changes in plants. However, a number of examples suggest that mechanical stimulation applied in a greenhouse setting can be used to alter plant growth in order to produce marketable plants. In this review will briefly summarize the current knowledge concerning the biological principles of thigmomorphogenesis and discuss the potential of mechanical growth regulation in commercial plant production especially with respect to organic horticulture.}, language = {en} } @article{FarhanRudolphKratzetal.2018, author = {Farhan, Muhammad and Rudolph, Tobias and Kratz, Karl and Lendlein, Andreas}, title = {Torsional Fiber Actuators from Shape-memory Polymer}, series = {MRS Advances}, volume = {3}, journal = {MRS Advances}, number = {63}, publisher = {Cambridge Univ. Press}, address = {New York}, issn = {2059-8521}, doi = {10.1557/adv.2018.621}, pages = {3861 -- 3868}, year = {2018}, abstract = {Humanoid robots, prosthetic limbs and exoskeletons require soft actuators to perform their primary function, which is controlled movement. In this wont we explored whether crosslinked poly[ethylene-co-(vinyl acetate)] (cPEVA) fibers, with different vinyl acetate (VA) content can serve as torsional fiber actuators. exhibiting temperature controlled reversible rotational changes. Broad melting transitions ranging from 50 to 90 degrees C for cPEVA18-165 or from 40 to 80 degrees C for cPEVA28-165 fibers in combination with complete crystallization at temperatures around 10 degrees C make them suitable actuating materials with adjustable actuation temperature ranges between 10 and 70 degrees C during repetitive cooling and heating. The obtained fibers exhibited a circular cross section with diameters around 0.4 +/- 0.1 mm, while a length of 4 cm was employed for the investigation of reversible rotational actuation after programming by twist insertion using 30 complete rotations at a temperature above melting transition. Repetitive heating and cooling between 10 to 60 degrees C or 70 degrees C of one-end-tethered programmed fibers revealed reversible rotations and torsional force. During cooling 3 +/- 1 complete rotations (Delta theta(r) = + 1080 +/- 360 degrees) in twisting direction were observed, while 4 +/- 1 turns in the opposite direction (Delta theta(r) = - 1440 +/- 1360 degrees) were found during heating. Such torsional fiber actuators, which are capable of approximately one rotation per cm fiber length, can serve as miniaturized rotary motors to provide rotational actuation in futuristic humanoid robots.}, language = {en} } @article{HilongaOtienoGhorbanietal.2018, author = {Hilonga, S. and Otieno, Joseph N. and Ghorbani, Abdolbaset and Pereus, D. and Kocyan, Alexander and de Boer, H.}, title = {Trade of wild-harvested medicinal plant species in local markets of Tanzania and its implications for conservation}, series = {South African journal of botany : an international interdisciplinary journal for botanical sciences}, volume = {122}, journal = {South African journal of botany : an international interdisciplinary journal for botanical sciences}, publisher = {Elsevier}, address = {Amsterdam}, issn = {0254-6299}, doi = {10.1016/j.sajb.2018.08.012}, pages = {214 -- 224}, year = {2018}, abstract = {In Tanzania, about 10\% of the reported 12,000 species of higher plants are estimated to be used as medicine for treating different human health problems. Most of the medicinal plants are collected from wild populations, but their trade and quantities are not properly recorded. Monitoring of trade in wild-harvested medicinal plants is challenging asmostmaterials are traded in various processed forms and most vendors practice informal trade. Yet, monitoring is important for conservation and sustainability. This study aims to assess the trade of wild-harvested medicinal plant species in local markets of Tanzania and its implications for conservation. Semi-structured interviews were used to record frequency, volume of trade and uses of wild-harvested medicinal plants in Arusha, Dodoma, Mbeya, Morogoro and Mwanza regions. Relative frequency of citation and informant consensus factor were calculated for each species and mentioned use category. Forty vendors were interviewed, and 400 out of 522 collected market samples were identified to 162 species from herbarium-deposited collections. Plant parts with the largest volume of trade were roots (3818 kg), bark (1163 kg) and leaves (492 kg). The most frequently traded species were Zanthoxylum chalybaeum Engl., Albizia anthelmintica Brongn., Zanha africana (Radlk.) Exell, Warburgia stuhlmannii and Vachellia nilotica (L.) P.J.H. Hurter \& Mabb. The most popular medicinal plants in the markets are connected to local health problems including malaria, libido disorders or infertility. The high diversity of commercialized plants used for medicinal issues mainly relies on wild stock for local consumption and international trade, and this has significant implications for conservation concerns. (C) 2018 SAAB. Published by Elsevier B.V. All rights reserved.}, language = {en} } @article{KamranfarXueTohgeetal.2018, author = {Kamranfar, Iman and Xue, Gang-Ping and Tohge, Takayuki and Sedaghatmehr, Mastoureh and Fernie, Alisdair R. and Balazadeh, Salma and Mueller-Roeber, Bernd}, title = {Transcription factor RD26 is a key regulator of metabolic reprogramming during dark-induced senescence}, series = {New phytologist : international journal of plant science}, volume = {218}, journal = {New phytologist : international journal of plant science}, number = {4}, publisher = {Wiley}, address = {Hoboken}, issn = {0028-646X}, doi = {10.1111/nph.15127}, pages = {1543 -- 1557}, year = {2018}, abstract = {Leaf senescence is a key process in plants that culminates in the degradation of cellular constituents and massive reprogramming of metabolism for the recovery of nutrients from aged leaves for their reuse in newly developing sinks. We used molecular-biological and metabolomics approaches to identify NAC transcription factor (TF) RD26 as an important regulator of metabolic reprogramming in Arabidopsis thaliana. RD26 directly activates CHLOROPLAST VESICULATION (CV), encoding a protein crucial for chloroplast protein degradation, concomitant with an enhanced protein loss in RD26 over-expressors during senescence, but a reduced decline of protein in rd26 knockout mutants. RD26 also directly activates LKR/SDH involved in lysine catabolism, and PES1 important for phytol degradation. Metabolic profiling revealed reduced c-aminobutyric acid (GABA) in RD26 overexpressors, accompanied by the induction of respective catabolic genes. Degradation of lysine, phytol and GABA is instrumental for maintaining mitochondrial respiration in carbon-limiting conditions during senescence. RD26 also supports the degradation of starch and the accumulation of mono-and disaccharides during senescence by directly enhancing the expression of AMY1, SFP1 and SWEET15 involved in carbohydrate metabolism and transport. Collectively, during senescence RD26 acts by controlling the expression of genes across the entire spectrum of the cellular degradation hierarchy.}, language = {en} } @article{SchulzeMakuchWagnerKounavesetal.2018, author = {Schulze-Makuch, Dirk and Wagner, Dirk and Kounaves, Samuel P. and Mangelsdorf, Kai and Devine, Kevin G. and de Vera, Jean-Pierre and Schmitt-Kopplin, Philippe and Grossart, Hans-Peter and Parro, Victor and Kaupenjohann, Martin and Galy, Albert and Schneider, Beate and Airo, Alessandro and Froesler, Jan and Davila, Alfonso F. and Arens, Felix L. and Caceres, Luis and Cornejo, Francisco Solis and Carrizo, Daniel and Dartnell, Lewis and DiRuggiero, Jocelyne and Flury, Markus and Ganzert, Lars and Gessner, Mark O. and Grathwohl, Peter and Guan, Lisa and Heinz, Jacob and Hess, Matthias and Keppler, Frank and Maus, Deborah and McKay, Christopher P. and Meckenstock, Rainer U. and Montgomery, Wren and Oberlin, Elizabeth A. and Probst, Alexander J. and Saenz, Johan S. and Sattler, Tobias and Schirmack, Janosch and Sephton, Mark A. and Schloter, Michael and Uhl, Jenny and Valenzuela, Bernardita and Vestergaard, Gisle and Woermer, Lars and Zamorano, Pedro}, title = {Transitory microbial habitat in the hyperarid Atacama Desert}, series = {Proceedings of the National Academy of Sciences of the United States of America}, volume = {115}, journal = {Proceedings of the National Academy of Sciences of the United States of America}, number = {11}, publisher = {National Acad. of Sciences}, address = {Washington}, issn = {0027-8424}, doi = {10.1073/pnas.1714341115}, pages = {2670 -- 2675}, year = {2018}, language = {en} } @article{MitrovaTadjoungWaffoKaufmannetal.2018, author = {Mitrova, Biljana and Tadjoung Waffo, Armel Franklin and Kaufmann, Paul and Iobbi-Nivol, Chantal and Leimk{\"u}hler, Silke and Wollenberger, Ulla}, title = {Trimethylamine N-Oxide Electrochemical Biosensor with a Chimeric Enzyme}, series = {ChemElectroChem}, volume = {6}, journal = {ChemElectroChem}, number = {6}, publisher = {Wiley-VCH}, address = {Weinheim}, issn = {2196-0216}, doi = {10.1002/celc.201801422}, pages = {1732 -- 1737}, year = {2018}, abstract = {For the first time, an enzyme-based electrochemical biosensor system for determination of trimethylamine N-oxide (TMAO) is described. It employs an active chimeric variant of TorA in combination with an enzymatically deoxygenating system and a low-potential mediator for effective regeneration of the enzyme and cathodic current generation. TMAO reductase (TorA) is a molybdoenzyme found in marine and most enterobacteria that specifically catalyzes the reduction of TMAO to trimethylamine (TMA). The chimeric TorA, named TorA-FDH, corresponds to the apoform of TorA from Escherichia coli reconstituted with the molybdenum cofactor from formate dehydrogenase (FDH). Each enzyme, TorA and TorA-FDH, was immobilized on the surface of a carbon electrode and protected with a dialysis membrane. The biosensor operates at an applied potential of -0.8V [vs. Ag/AgCl (1M KCl)] under ambient air conditions thanks to an additional enzymatic O-2-scavenger system. A comparison between the two enzymatic sensors revealed a much higher sensitivity for the biosensor with immobilized TorA-FDH. This biosensor exhibits a sensitivity of 14.16nA/M TMAO in a useful measuring range of 2-110M with a detection limit of LOD=2.96nM (S/N=3), and was similar for TMAO in buffer and in spiked serum samples. With a response time of 16 +/- 2 s, the biosensor is stable over prolonged daily measurements (n=20). This electrochemical biosensor provides suitable applications in detecting TMAO levels in human serum.}, language = {en} } @article{FrancoObregonCambriaGreutertetal.2018, author = {Franco-Obregon, Alfredo and Cambria, Elena and Greutert, Helen and Wernas, Timon and Hitzl, Wolfgang and Egli, Marcel and Sekiguchi, Miho and Boos, Norbert and Hausmann, Oliver and Ferguson, Stephen J. and Kobayashi, Hiroshi and W{\"u}rtz-Kozak, Karin}, title = {TRPC6 in simulated microgravity of intervertebral disc cells}, series = {European Spine Journal}, volume = {27}, journal = {European Spine Journal}, number = {10}, publisher = {Springer}, address = {New York}, issn = {0940-6719}, doi = {10.1007/s00586-018-5688-8}, pages = {2621 -- 2630}, year = {2018}, abstract = {Purpose Prolonged bed rest and microgravity in space cause intervertebral disc (IVD) degeneration. However, the underlying molecular mechanisms are not completely understood. Transient receptor potential canonical (TRPC) channels are implicated in mechanosensing of several tissues, but are poorly explored in IVDs. Methods Primary human IVD cells from surgical biopsies composed of both annulus fibrosus and nucleus pulposus (passage 1-2) were exposed to simulated microgravity and to the TRPC channel inhibitor SKF-96365 (SKF) for up to 5days. Proliferative capacity, cell cycle distribution, senescence and TRPC channel expression were analyzed. Results Both simulated microgravity and TRPC channel antagonism reduced the proliferative capacity of IVD cells and induced senescence. While significant changes in cell cycle distributions (reduction in G1 and accumulation in G2/M) were observed upon SKF treatment, the effect was small upon 3days of simulated microgravity. Finally, downregulation of TRPC6 was shown under simulated microgravity. Conclusions Simulated microgravity and TRPC channel inhibition both led to reduced proliferation and increased senescence. Furthermore, simulated microgravity reduced TRPC6 expression. IVD cell senescence and mechanotransduction may hence potentially be regulated by TRPC6 expression. This study thus reveals promising targets for future studies.}, language = {en} } @article{LehmannEccardScheffleretal.2018, author = {Lehmann, Andreas and Eccard, Jana and Scheffler, Christiane and Kurvers, Ralf H. J. M. and Dammhahn, Melanie}, title = {Under pressure: human adolescents express a pace-of-life syndrome}, series = {Behavioral ecology and sociobiology}, volume = {72}, journal = {Behavioral ecology and sociobiology}, number = {3}, publisher = {Springer}, address = {New York}, issn = {0340-5443}, doi = {10.1007/s00265-018-2465-y}, pages = {15}, year = {2018}, abstract = {The pace-of-life syndrome (POLS) hypothesis posits that life-history characteristics, among individual differences in behavior, and physiological traits have coevolved in response to environmental conditions. This hypothesis has generated much research interest because it provides testable predictions concerning the association between the slow-fast life-history continuum and behavioral and physiological traits. Although humans are among the most well-studied species and similar concepts exist in the human literature, the POLS hypothesis has not yet been directly applied to humans. Therefore, we aimed to (i) test predicted relationships between life history, physiology, and behavior in a human population and (ii) better integrate the POLS hypothesis with other similar concepts. Using data of a representative sample of German adolescents, we extracted maturation status for girls (menarche, n = 791) and boys (voice break, n = 486), and a set of health-related risk-taking behaviors and cardiovascular parameters. Maturation status and health-related risk behavior as well as maturation status and cardiovascular physiology covaried in boys and girls. Fast maturing boys and girls had higher blood pressure and expressed more risk-taking behavior than same-aged slow maturing boys and girls, supporting general predictions of the POLS hypothesis. Only some physiological and behavioral traits were positively correlated, suggesting that behavioral and physiological traits might mediate life-history trade-offs differently. Moreover, some aspects of POLS were sex-specific. Overall, the POLS hypothesis shares many similarities with other conceptual frameworks from the human literature and these concepts should be united more thoroughly to stimulate the study of POLS in humans and other animals. Significance statement The pace-of-life syndrome (POLS) hypothesis suggests that life history, behavioral and physiological traits have coevolved in response to environmental conditions. Here, we tested this link in a representative sample of German adolescents, using data from a large health survey (the KIGGs study) containing information on individual age and state of maturity for girls and boys, and a set of health-related risk-taking behaviors and cardiovascular parameters. We found that fast maturing girls and boys had overall higher blood pressure and expressed more risk-taking behavior than same-aged slow maturing girls and boys. Only some behavioral and physiological traits were positively correlated, suggesting that behavioral and physiological traits might mediate life-history trade-offs differently and not necessarily form a syndrome. Our results demonstrate a general link between life history, physiological and behavioral traits in humans, while simultaneously highlighting a more complex and rich set of relationships, since not all relationships followed predictions by the POLS hypothesis.}, language = {en} } @phdthesis{Zhang2018, author = {Zhang, Yunming}, title = {Understanding the functional specialization of poly(A) polymerases in Arabidopsis thaliana}, school = {Universit{\"a}t Potsdam}, pages = {131}, year = {2018}, language = {de} } @article{KnebelNeebZahnetal.2018, author = {Knebel, Constanze and Neeb, Jannika and Zahn, Elisabeth and Schmidt, Flavia and Carazo, Alejandro and Holas, Ondej and Pavek, Petr and P{\"u}schel, Gerhard Paul and Zanger, Ulrich M. and S{\"u}ssmuth, Roderich and Lampen, Alfonso and Marx-Stoelting, Philip and Braeuning, Albert}, title = {Unexpected Effects of Propiconazole, Tebuconazole, and Their Mixture on the Receptors CAR and PXR in Human Liver Cells}, series = {Toxicological sciences}, volume = {163}, journal = {Toxicological sciences}, number = {1}, publisher = {Oxford Univ. Press}, address = {Oxford}, issn = {1096-6080}, doi = {10.1093/toxsci/kfy026}, pages = {170 -- 181}, year = {2018}, abstract = {Analyzing mixture toxicity requires an in-depth understanding of the mechanisms of action of its individual components. Substances with the same target organ, same toxic effect and same mode of action (MoA) are believed to cause additive effects, whereas substances with different MoAs are assumed to act independently. Here, we tested 2 triazole fungicides, propiconazole, and tebuconazole (Te), for individual and combined effects on liver toxicity-related endpoints. Both triazoles are proposed to belong to the same cumulative assessment group and are therefore thought to display similar and additive behavior. Our data show that Te is an antagonist of the constitutive androstane receptor (CAR) in rats and humans, while propiconazole is an agonist of this receptor. Both substances activate the pregnane X-receptor (PXR) and further induce mRNA expression of CYP3A4. CYP3A4 enzyme activity, however, is inhibited by propiconazole. For common targets of PXR and CAR, the activation of PXR by Te overrides CAR inhibition. In summary, propiconazole and Te affect different hepatotoxicity-relevant cellular targets and, depending on the individual endpoint analyzed, act via similar or dissimilar mechanisms. The use of molecular data based on research in human cell systems extends the picture to refine cumulative assessment group grouping and substantially contributes to the understanding of mixture effects of chemicals in biological systems.}, language = {en} } @article{PancraceIshidaBriandetal.2018, author = {Pancrace, Claire and Ishida, Keishi and Briand, Enora and Pichi, Douglas Gatte and Weiz, Annika R. and Guljarmow, Arthur and Scalvenzi, Thibault and Sassoon, Nathalie and Hertweck, Christian and Dittmann, Elke and Gugger, Muriel}, title = {Unique Biosynthetic Pathway in Bloom-Forming Cyanobacterial Genus Microcystis Jointly Assembles Cytotoxic Aeruginoguanidines and Microguanidines}, series = {ACS chemical biology}, volume = {14}, journal = {ACS chemical biology}, number = {1}, publisher = {American Chemical Society}, address = {Washington}, issn = {1554-8929}, doi = {10.1021/acschembio.8b00918}, pages = {67 -- 75}, year = {2018}, abstract = {The cyanobacterial genus Microcystis is known to produce an elaborate array of structurally unique and biologically active natural products, including hazardous cyanotoxins. Cytotoxic aeruginoguanidines represent a yet unexplored family of peptides featuring a trisubstituted benzene unit and farnesylated arginine derivatives. In this study, we aimed at assigning these compounds to a biosynthetic gene cluster by utilizing biosynthetic attributes deduced from public genomes of Microcystis and the sporadic distribution of the metabolite in axenic strains of the Pasteur Culture Collection of Cyanobacteria. By integrating genome mining with untargeted metabolomics using liquid chromatography with mass spectrometry, we linked aeruginoguanidine (AGD) to a nonribosomal peptide synthetase gene cluster and coassigned a significantly smaller product to this pathway, microguanidine (MGD), previously only reported from two Microcystis blooms. Further, a new intermediate class of compounds named microguanidine amides was uncovered, thereby further enlarging this compound family. The comparison of structurally divergent AGDs and MGDs reveals an outstanding versatility of this biosynthetic pathway and provides insights into the assembly of the two compound subfamilies. Strikingly, aeruginoguanidines and microguanidines were found to be as widespread as the hepatotoxic microcystins, but the occurrence of both toxin families appeared to be mutually exclusive.}, language = {en} } @article{deAbreueLimaLiWenetal.2018, author = {de Abreu e Lima, Francisco Anastacio and Li, Kun and Wen, Weiwei and Yan, Jianbing and Nikoloski, Zoran and Willmitzer, Lothar and Brotman, Yariv}, title = {Unraveling lipid metabolism in maize with time-resolved multi-omics data}, series = {The plant journal}, volume = {93}, journal = {The plant journal}, number = {6}, publisher = {Wiley}, address = {Hoboken}, issn = {0960-7412}, doi = {10.1111/tpj.13833}, pages = {1102 -- 1115}, year = {2018}, abstract = {Maize is the cereal crop with the highest production worldwide, and its oil is a key energy resource. Improving the quantity and quality of maize oil requires a better understanding of lipid metabolism. To predict the function of maize genes involved in lipid biosynthesis, we assembled transcriptomic and lipidomic data sets from leaves of B73 and the high-oil line By804 in two distinct time-series experiments. The integrative analysis based on high-dimensional regularized regression yielded lipid-transcript associations indirectly validated by Gene Ontology and promoter motif enrichment analyses. The co-localization of lipid-transcript associations using the genetic mapping of lipid traits in leaves and seedlings of a B73 x By804 recombinant inbred line population uncovered 323 genes involved in the metabolism of phospholipids, galactolipids, sulfolipids and glycerolipids. The resulting association network further supported the involvement of 50 gene candidates in modulating levels of representatives from multiple acyl-lipid classes. Therefore, the proposed approach provides high-confidence candidates for experimental testing in maize and model plant species.}, language = {en} } @article{LiuVainViottietal.2018, author = {Liu, Qinsong and Vain, Thomas and Viotti, Corrado and Doyle, Siamsa M. and Tarkowska, Danuse and Novak, Ondrej and Zipfel, Cyril and Sitbon, Folke and Robert, Stephanie and Hofius, Daniel}, title = {Vacuole integrity maintained by DUF300 proteins is required for brassinosteroid signaling regulation}, series = {Molecular plant}, volume = {11}, journal = {Molecular plant}, number = {4}, publisher = {Cell Press}, address = {Cambridge}, issn = {1674-2052}, doi = {10.1016/j.molp.2017.12.015}, pages = {553 -- 567}, year = {2018}, abstract = {Brassinosteroid (BR) hormone signaling controls multiple processes during plant growth and development and is initiated at the plasma membrane through the receptor kinase BRASSINOSTEROID INSENSITIVE1 (BRI1) together with co-receptors such as BRI1-ASSOCIATED RECEPTOR KINASE1 (BAK1). BRI1 abundance is regulated by endosomal recycling and vacuolar targeting, but the role of vacuole-related proteins in BR receptor dynamics and BR responses remains elusive. Here, we show that the absence of two DUF300 domain-containing tonoplast proteins, LAZARUS1 (LAZ1) and LAZ1 HOMOLOG1 (LAZ1H1), causes vacuole morphology defects, growth inhibition, and constitutive activation of BR signaling. Intriguingly, tonoplast accumulation of BAK1 was substantially increased and appeared causally linked to enhanced BRI1 trafficking and degradation in laz1 laz1h1 plants. Since unrelated vacuole mutants exhibited normal BR responses, our findings indicate that DUF300 proteins play distinct roles in the regulation of BR signaling by maintaining vacuole integrity required to balance subcellular BAK1 pools and BR receptor distribution.}, language = {en} } @phdthesis{Lehmann2018, author = {Lehmann, Andreas}, title = {Variability in human life history traits}, school = {Universit{\"a}t Potsdam}, pages = {110}, year = {2018}, language = {de} } @article{FujikuraJingHanadaetal.2018, author = {Fujikura, Ushio and Jing, Runchun and Hanada, Atsushi and Takebayashi, Yumiko and Sakakibara, Hitoshi and Yamaguchi, Shinjiro and Kappel, Christian and Lenhard, Michael}, title = {Variation in splicing efficiency underlies morphological evolution in capsella}, series = {Developmental cell}, volume = {44}, journal = {Developmental cell}, number = {2}, publisher = {Cell Press}, address = {Cambridge}, issn = {1534-5807}, doi = {10.1016/j.devcel.2017.11.022}, pages = {192 -- 203}, year = {2018}, abstract = {Understanding the molecular basis of morphological change remains a central challenge in evolutionary-developmental biology. The transition from outbreeding to selfing is often associated with a dramatic reduction in reproductive structures and functions, such as the loss of attractive pheromones in hermaphroditic Caenorhabditis elegans and a reduced flower size in plants. Here, we demonstrate that variation in the level of the brassinosteroid-biosynthesis enzyme CYP724A1 contributes to the reduced flower size of selfing Capsella rubella compared with its outbreeding ancestor Capsella grandiflora. The primary transcript of the C. rubella allele is spliced more efficiently than that of C. grandiflora, resulting in higher brassinosteroid levels. These restrict organ growth by limiting cell proliferation. More efficient splicing of the C. rubella allele results from two de novo mutations in the selfing lineage. Thus, our results highlight the potentially widespread importance of differential splicing efficiency and higher-than-optimal hormone levels in generating phenotypic variation.}, language = {en} } @article{HermanussenBilogubLindletal.2018, author = {Hermanussen, Michael and Bilogub, Maria and Lindl, A. C. and Harper, D. and Mansukoski, L. and Scheffler, Christiane}, title = {Weight and height growth of malnourished school-age children during re-feeding}, series = {European journal of clinical nutrition}, volume = {72}, journal = {European journal of clinical nutrition}, number = {12}, publisher = {Nature Publ. Group}, address = {London}, issn = {0954-3007}, doi = {10.1038/s41430-018-0274-z}, pages = {1603 -- 1619}, year = {2018}, abstract = {Background In view of the ongoing debate on "chronic malnutrition" and the concept of "stunting" as "a better measure than underweight of the cumulative effects of undernutrition and infection (WHO)", we translate, briefly comment and republish three seminal historic papers on catch-up growth following re-feeding after severe food restriction of German children during and after World War I. The observations were published in 1920 and 1922, and appear to be of particular interest to the modern nutritionist. Results The papers of Abderhalden (1920) and Bloch (1920) describe German children of all social strata who were born shortly before World War I, and raised in apparently "normal" families. After severe long-standing undernutrition, they participated in an international charity program. They experienced exceptional catch-up growth in height of 3-5 cm within 6-8 weeks. Goldstein (1922) observed 512 orphans and children from underprivileged families. Goldstein described very different growth patterns. These children were much shorter (mean height between -2.0 and -2.8 SDS, modern WHO reference). They mostly failed to catch-up in height, but tended to excessively increase in weight particularly during adolescence.}, language = {en} } @article{MrochenSchulzFischeretal.2018, author = {Mrochen, Daniel M. and Schulz, Daniel and Fischer, Stefan and Jeske, Kathrin and El Gohary, Heba and Reil, Daniela and Imholt, Christian and Truebe, Patricia and Suchomel, Josef and Tricaud, Emilie and Jacob, Jens and Heroldova, Marta and Br{\"o}ker, Barbara M. and Strommenger, Birgit and Walther, Birgit and Ulrich, Rainer G. and Holtfreter, Silva}, title = {Wild rodents and shrews are natural hosts of Staphylococcus aureus}, series = {International Journal of Medical Microbiology}, volume = {308}, journal = {International Journal of Medical Microbiology}, number = {6}, publisher = {Elsevier}, address = {Jena}, issn = {1438-4221}, doi = {10.1016/j.ijmm.2017.09.014}, pages = {590 -- 597}, year = {2018}, abstract = {Laboratory mice are the most commonly used animal model for Staphylococcus aureus infection studies. We have previously shown that laboratory mice from global vendors are frequently colonized with S. aureus. Laboratory mice originate from wild house mice. Hence, we investigated whether wild rodents, including house mice, as well as shrews are naturally colonized with S. aureus and whether S. aureus adapts to the wild animal host. 295 animals of ten different species were caught in different locations over four years (2012-2015) in Germany, France and the Czech Republic. 45 animals were positive for S. aureus (15.3\%). Three animals were co-colonized with two different isolates, resulting in 48 S. aureus isolates in total. Positive animals were found in Germany and the Czech Republic in each studied year. The S. aureus isolates belonged to ten different spa types, which grouped into six lineages (clonal complex (CC) 49, CC88, CC130, CC1956, sequence type (ST) 890, ST3033). CC49 isolates were most abundant (17/48, 35.4\%), followed by CC1956 (14/48, 29.2\%) and ST890 (9/48, 18.8\%). The wild animal isolates lacked certain properties that are common among human isolates, e.g., a phage-encoded immune evasion cluster, superantigen genes on mobile genetic elements and antibiotic resistance genes, which suggests long-term adaptation to the wild animal host. One CC130 isolate contained the mecC gene, implying wild rodents might be both reservoir and vector for methicillin-resistant. In conclusion, we demonstrated that wild rodents and shrews are naturally colonized with S. aureus, and that those S. aureus isolates show signs of host adaptation.}, language = {en} } @phdthesis{Meyer2018, author = {Meyer, Susann}, title = {Wirkung und Wirkungsweise von Ectoin auf DNA-Molek{\"u}le}, school = {Universit{\"a}t Potsdam}, pages = {103}, year = {2018}, language = {de} } @article{PratHajnyGrunewaldetal.2018, author = {Prat, Tomas and Hajny, Jakub and Grunewald, Wim and Vasileva, Mina and Molnar, Gergely and Tejos, Ricardo and Schmid, Markus and Sauer, Michael and Friml, Jiř{\´i}}, title = {WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity}, series = {PLoS Genetics : a peer-reviewed, open-access journal}, volume = {14}, journal = {PLoS Genetics : a peer-reviewed, open-access journal}, number = {1}, publisher = {PLoS}, address = {San Fransisco}, issn = {1553-7404}, doi = {10.1371/journal.pgen.1007177}, pages = {18}, year = {2018}, abstract = {Auxin is unique among plant hormones due to its directional transport that is mediated by the polarly distributed PIN auxin transporters at the plasma membrane. The canalization hypothesis proposes that the auxin feedback on its polar flow is a crucial, plant-specific mechanism mediating multiple self-organizing developmental processes. Here, we used the auxin effect on the PIN polar localization in Arabidopsis thaliana roots as a proxy for the auxin feedback on the PIN polarity during canalization. We performed microarray experiments to find regulators of this process that act downstream of auxin. We identified genes that were transcriptionally regulated by auxin in an AXR3/IAA17-and ARF7/ARF19-dependent manner. Besides the known components of the PIN polarity, such as PID and PIP5K kinases, a number of potential new regulators were detected, among which the WRKY23 transcription factor, which was characterized in more detail. Gain-and loss-of-function mutants confirmed a role for WRKY23 in mediating the auxin effect on the PIN polarity. Accordingly, processes requiring auxin-mediated PIN polarity rearrangements, such as vascular tissue development during leaf venation, showed a higher WRKY23 expression and required the WRKY23 activity. Our results provide initial insights into the auxin transcriptional network acting upstream of PIN polarization and, potentially, canalization-mediated plant development.}, language = {en} } @article{LohmannGuoTietjen2018, author = {Lohmann, Dirk and Guo, Tong and Tietjen, Britta}, title = {Zooming in on coarse plant functional types-simulated response of savanna vegetation composition in response to aridity and grazing}, series = {Theoretical ecology}, volume = {11}, journal = {Theoretical ecology}, number = {2}, publisher = {Springer}, address = {Heidelberg}, issn = {1874-1738}, doi = {10.1007/s12080-017-0356-x}, pages = {161 -- 173}, year = {2018}, abstract = {Precipitation and land use in terms of livestock grazing have been identified as two of the most important drivers structuring the vegetation composition of semi-arid and arid savannas. Savanna research on the impact of these drivers has widely applied the so-called plant functional type (PFT) approach, grouping the vegetation into two or three broad types (here called meta-PFTs): woody plants and grasses, which are sometimes divided into perennial and annual grasses. However, little is known about the response of functional traits within these coarse types towards water availability or livestock grazing. In this study, we extended an existing eco-hydrological savanna vegetation model to capture trait diversity within the three broad meta-PFTs to assess the effects of both grazing and mean annual precipitation (MAP) on trait composition along a gradient of both drivers. Our results show a complex pattern of trait responses to grazing and aridity. The response differs for the three meta-PFTs. From our findings, we derive that trait responses to grazing and aridity for perennial grasses are similar, as suggested by the convergence model for grazing and aridity. However, we also see that this only holds for simulations below a MAP of 500 mm. This combined with the finding that trait response differs between the three meta-PFTs leads to the conclusion that there is no single, universal trait or set of traits determining the response to grazing and aridity. We finally discuss how simulation models including trait variability within meta-PFTs are necessary to understand ecosystem responses to environmental drivers, both locally and globally and how this perspective will help to extend conceptual frameworks of other ecosystems to savanna research.}, language = {en} }