TY - JOUR A1 - Raffeiner, Margot A1 - Üstün, Suayib A1 - Guerra, Tiziana A1 - Spinti, Daniela A1 - Fitzner, Maria A1 - Sonnewald, Sophia A1 - Baldermann, Susanne A1 - Börnke, Frederik T1 - The Xanthomonas type-III effector XopS stabilizes CaWRKY40a to regulate defense responses and stomatal immunity in pepper (Capsicum annuum) JF - The plant cell N2 - As a critical part of plant immunity, cells that are attacked by pathogens undergo rapid transcriptional reprogramming to minimize virulence. Many bacterial phytopathogens use type III effector (T3E) proteins to interfere with plant defense responses, including this transcriptional reprogramming. Here, we show that Xanthomonas outer protein S (XopS), a T3E of Xanthomonas campestris pv. vesicatoria (Xcv), interacts with and inhibits proteasomal degradation of WRKY40, a transcriptional regulator of defense gene expression. Virus-induced gene silencing of WRKY40 in pepper (Capsicum annuum) enhanced plant tolerance to Xcv infection, indicating that WRKY40 represses immunity. Stabilization of WRKY40 by XopS reduces the expression of its targets, which include salicylic acid-responsive genes and the jasmonic acid signaling repressor JAZ8. Xcv bacteria lacking XopS display significantly reduced virulence when surface inoculated onto susceptible pepper leaves. XopS delivery by Xcv, as well as ectopic expression of XopS in Arabidopsis thaliana or Nicotiana benthamiana, prevented stomatal closure in response to bacteria and biotic elicitors. Silencing WRKY40 in pepper or N. benthamiana abolished XopS's ability to prevent stomatal closure. This suggests that XopS interferes with both preinvasion and apoplastic defense by manipulating WRKY40 stability and downstream gene expression, eventually altering phytohormone crosstalk to promote pathogen proliferation. Y1 - 2022 U6 - https://doi.org/10.1093/plcell/koac032 SN - 1040-4651 SN - 1532-298X VL - 34 IS - 5 SP - 1684 EP - 1708 PB - Oxford Univ. Press CY - Cary ER - TY - JOUR A1 - Stuenzi, Simone Maria A1 - Kruse, Stefan A1 - Boike, Julia A1 - Herzschuh, Ulrike A1 - Oehme, Alexander A1 - Pestryakova, Luidmila A. A1 - Westermann, Sebastian A1 - Langer, Moritz T1 - Thermohydrological impact of forest disturbances on ecosystem-protected permafrost JF - Journal of geophysical research : Biogeosciences N2 - Boreal forests cover over half of the global permafrost area and protect underlying permafrost. Boreal forest development, therefore, has an impact on permafrost evolution, especially under a warming climate. Forest disturbances and changing climate conditions cause vegetation shifts and potentially destabilize the carbon stored within the vegetation and permafrost. Disturbed permafrost-forest ecosystems can develop into a dry or swampy bush- or grasslands, shift toward broadleaf- or evergreen needleleaf-dominated forests, or recover to the pre-disturbance state. An increase in the number and intensity of fires, as well as intensified logging activities, could lead to a partial or complete ecosystem and permafrost degradation. We study the impact of forest disturbances (logging, surface, and canopy fires) on the thermal and hydrological permafrost conditions and ecosystem resilience. We use a dynamic multilayer canopy-permafrost model to simulate different scenarios at a study site in eastern Siberia. We implement expected mortality, defoliation, and ground surface changes and analyze the interplay between forest recovery and permafrost. We find that forest loss induces soil drying of up to 44%, leading to lower active layer thicknesses and abrupt or steady decline of a larch forest, depending on disturbance intensity. Only after surface fires, the most common disturbances, inducing low mortality rates, forests can recover and overpass pre-disturbance leaf area index values. We find that the trajectory of larch forests after surface fires is dependent on the precipitation conditions in the years after the disturbance. Dryer years can drastically change the direction of the larch forest development within the studied period. KW - permafrost KW - boreal forest KW - periglacial process KW - Siberia KW - larch forest KW - disturbance Y1 - 2022 U6 - https://doi.org/10.1029/2021JG006630 SN - 2169-8953 SN - 2169-8961 VL - 127 IS - 5 PB - American Geophysical Union CY - Washington ER - TY - JOUR A1 - Engel, Robert A1 - Micheel, Burkhard A1 - Hanack, Katja T1 - Three-dimensional cell culture approach for in vitro immunization and the production of monoclonal antibodies JF - Biomedical materials : materials for tissue engineering and regenerative medicine N2 - The generation of monoclonal antibodies using an in vitro immunization approach is a promising alternative to conventional hybridoma technology. As recently published, the in vitro approach enables an antigen-specific activation of B lymphocytes within 10-12 d followed by immortalization and subsequent selection of hybridomas. This in vitro process can be further improved by using a three-dimensional surrounding to stabilize the complex microenvironment required for a successful immune reaction. In this study, the suitability of Geltrex as a material for the generation of monoclonal antigen-specific antibodies by in vitro immunization was analyzed. We could show that dendritic cells, B cells, and T cells were able to travel through and interact inside of the matrix, leading to the antigen-specific activation of T and B cells. For cell recovery and subsequent hybridoma technique the suitability of dispase and Corning cell recovery solution (CRS) was compared. In our experiments, the use of dispase resulted in a severe alteration of cell surface receptor expression patterns and significantly higher cell death, while we could not detect an adverse effect of Corning CRS. Finally, an easy approach for high-density cell culture was established by printing an alginate ring inside a cell culture vessel. The ring was filled with Geltrex, cells, and medium to ensure a sufficient supply during cultivation. Using this approach, we were able to generate monoclonal hybridomas that produce antigen-specific antibodies against ovalbumin and the SARS-CoV-2 nucleocapsid protein. KW - monoclonal antibody KW - hybridoma technology KW - in vitro immunization KW - 3D KW - cell culture KW - Geltrex Y1 - 2022 U6 - https://doi.org/10.1088/1748-605X/ac7b00 SN - 1748-6041 SN - 1748-605X VL - 17 IS - 5 PB - Inst. of Physics CY - London ER - TY - JOUR A1 - Eccard, Jana A1 - Mendes Ferreira, Clara A1 - Peredo Arce, Andres A1 - Dammhahn, Melanie T1 - Top-down effects of foraging decisions on local, landscape and regional biodiversity of resources (DivGUD) JF - Ecology letters N2 - Foraging by consumers acts as a biotic filtering mechanism for biodiversity at the trophic level of resources. Variation in foraging behaviour has cascading effects on abundance, diversity, and functional trait composition of the community of resource species. Here we propose diversity at giving-up density (DivGUD), i.e. when foragers quit exploiting a patch, as a novel concept and simple measure quantifying cascading effects at multiple spatial scales. In experimental landscapes with an assemblage of plant seeds, patch residency of wild rodents decreased local alpha-DivGUD (via elevated mortality of species with large seeds) and regional gamma-DivGUD, while dissimilarity among patches in a landscape (beta-DivGUD) increased. By linking theories of adaptive foraging behaviour with community ecology, DivGUD allows to investigate cascading indirect predation effects, e.g. the ecology-of-fear framework, feedbacks between functional trait composition of resource species and consumer communities, and effects of inter-individual differences among foragers on the biodiversity of resource communities. KW - biodiversity KW - cascading effects KW - foraging behaviour KW - functional traits KW - giving-up density KW - landscape of fear KW - optimal foraging KW - patch use Y1 - 2022 U6 - https://doi.org/10.1111/ele.13901 SN - 1461-0248 VL - 25 IS - 1 SP - 3 EP - 16 PB - Wiley-Blackwell CY - Oxford [u.a.] ER - TY - JOUR A1 - Eckert, Silvia A1 - Herden, Jasmin A1 - Stift, Marc A1 - Durka, Walter A1 - Kleunen, Mark van A1 - Joshi, Jasmin Radha T1 - Traces of genetic but not epigenetic adaptation in the invasive goldenrod Solidago canadensis despite the absence of population structure JF - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Biological invasions may result from multiple introductions, which might compensate for reduced gene pools caused by bottleneck events, but could also dilute adaptive processes. A previous common-garden experiment showed heritable latitudinal clines in fitness-related traits in the invasive goldenrod Solidago canadensis in Central Europe. These latitudinal clines remained stable even in plants chemically treated with zebularine to reduce epigenetic variation. However, despite the heritability of traits investigated, genetic isolation-by-distance was non-significant. Utilizing the same specimens, we applied a molecular analysis of (epi)genetic differentiation with standard and methylation-sensitive (MSAP) AFLPs. We tested whether this variation was spatially structured among populations and whether zebularine had altered epigenetic variation. Additionally, we used genome scans to mine for putative outlier loci susceptible to selection processes in the invaded range. Despite the absence of isolation-by-distance, we found spatial genetic neighborhoods among populations and two AFLP clusters differentiating northern and southern Solidago populations. Genetic and epigenetic diversity were significantly correlated, but not linked to phenotypic variation. Hence, no spatial epigenetic patterns were detected along the latitudinal gradient sampled. Applying genome-scan approaches (BAYESCAN, BAYESCENV, RDA, and LFMM), we found 51 genetic and epigenetic loci putatively responding to selection. One of these genetic loci was significantly more frequent in populations at the northern range. Also, one epigenetic locus was more frequent in populations in the southern range, but this pattern was lost under zebularine treatment. Our results point to some genetic, but not epigenetic adaptation processes along a large-scale latitudinal gradient of S. canadensis in its invasive range. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1271 KW - AFLP KW - MSAP KW - cytosine methylation KW - spatial autocorrelation KW - genome scan Y1 - 2022 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-566758 SN - 1866-8372 SP - 1 EP - 17 PB - Universitätsverlag Potsdam CY - Potsdam ER - TY - JOUR A1 - Eckert, Silvia A1 - Herden, Jasmin A1 - Stift, Marc A1 - Durka, Walter A1 - Kleunen, Mark van A1 - Joshi, Jasmin T1 - Traces of genetic but not epigenetic adaptation in the invasive goldenrod Solidago canadensis despite the absence of population structure JF - Frontiers in Ecology and Evolution N2 - Biological invasions may result from multiple introductions, which might compensate for reduced gene pools caused by bottleneck events, but could also dilute adaptive processes. A previous common-garden experiment showed heritable latitudinal clines in fitness-related traits in the invasive goldenrod Solidago canadensis in Central Europe. These latitudinal clines remained stable even in plants chemically treated with zebularine to reduce epigenetic variation. However, despite the heritability of traits investigated, genetic isolation-by-distance was non-significant. Utilizing the same specimens, we applied a molecular analysis of (epi)genetic differentiation with standard and methylation-sensitive (MSAP) AFLPs. We tested whether this variation was spatially structured among populations and whether zebularine had altered epigenetic variation. Additionally, we used genome scans to mine for putative outlier loci susceptible to selection processes in the invaded range. Despite the absence of isolation-by-distance, we found spatial genetic neighborhoods among populations and two AFLP clusters differentiating northern and southern Solidago populations. Genetic and epigenetic diversity were significantly correlated, but not linked to phenotypic variation. Hence, no spatial epigenetic patterns were detected along the latitudinal gradient sampled. Applying genome-scan approaches (BAYESCAN, BAYESCENV, RDA, and LFMM), we found 51 genetic and epigenetic loci putatively responding to selection. One of these genetic loci was significantly more frequent in populations at the northern range. Also, one epigenetic locus was more frequent in populations in the southern range, but this pattern was lost under zebularine treatment. Our results point to some genetic, but not epigenetic adaptation processes along a large-scale latitudinal gradient of S. canadensis in its invasive range. KW - AFLP KW - MSAP KW - cytosine methylation KW - spatial autocorrelation KW - genome scan Y1 - 2022 U6 - https://doi.org/10.3389/fevo.2022.856453 SN - 2296-701X VL - 10 SP - 1 EP - 17 PB - Frontiers CY - Lausanne, Schweiz ER - TY - JOUR A1 - Wicaksono, Wisnu Adi A1 - Braun, Maria A1 - Bernhardt, Jörg A1 - Riedel, Katharina A1 - Cernava, Tomislav A1 - Berg, Gabriele T1 - Trade-off for survival BT - microbiome response to chemical exposure combines activation of intrinsic resistances and adapted metabolic activity JF - Environment international : a journal of science, technology, health, monitoring and policy N2 - The environmental micmbiota is increasingly exposed to chemical pollution. While the emergence of multi-resistant pathogens is recognized as a global challenge, our understanding of antimicrobial resistance (AMR) development from native microbiomes and the risks associated with chemical exposure is limited. By implementing a lichen as a bioindicator organism and model for a native microbiome, we systematically examined responses towards antimicrobials (colistin, tetracycline, glyphosate, and alkylpyrazine). Despite an unexpectedly high resilience, we identified potential evolutionary consequences of chemical exposure in terms of composition and functioning of native bacterial communities. Major shifts in bacterial composition were observed due to replacement of naturally abundant taxa; e.g. Chthoniobacterales by Pseudomonadales. A general response, which comprised activation of intrinsic resistance and parallel reduction of metabolic activity at RNA and protein levels was deciphered by a multi-omics approach. Targeted analyses of key taxa based on metagenome-assembled genomes reflected these responses but also revealed diversified strategies of their players. Chemical-specific responses were also observed, e.g., glyphosate enriched bacterial r-strategists and activated distinct ARGs. Our work demonstrates that the high resilience of the native micmbiota toward antimicrobial exposure is not only explained by the presence of antibiotic resistance genes but also adapted metabolic activity as a trade-off for survival. Moreover, our results highlight the importance of native microbiomes as important but so far neglected AMR reservoirs. We expect that this phenomenon is representative for a wide range of environmental microbiota exposed to chemicals that potentially contribute to the emergence of antibiotic-resistant bacteria from natural environments. Y1 - 2022 U6 - https://doi.org/10.1016/j.envint.2022.107474 SN - 1873-6750 VL - 168 PB - Elsevier Science CY - Amsterdam [u.a.] ER - TY - JOUR A1 - Apriyanto, Ardha A1 - Ajambang, Walter T1 - Transcriptomic dataset for early inflorescence stages of oil palm in response to defoliation stress JF - Data in Brief N2 - Oil palm breeding and seed development have been hindered due to the male parent's incapacity to produce male inflorescence as a source of pollen under normal conditions. On the other hand, a young oil palm plantation has a low pollination rate due to a lack of male flowers. These are the common problem of sex ratio in the oil palm industry. Nevertheless, the regulation of sex ratio in oil palm plants is a complex mechanism and remains an open question until now. Researchers have previously used complete defoliation to induce male inflorescences, but the biological and molecular mechanisms underlying this morphological change have yet to be discovered. Here, we present an RNA-seq dataset from three early stages of an oil palm inflorescence under normal conditions and complete defoliation stress. This transcriptomic dataset is a valuable resource to improve our understanding of sex determination mechanisms in oil palm inflorescence. KW - Complete defoliation KW - Flower development KW - Leaf axil KW - NGS KW - RNA-seq KW - Sex KW - determination Y1 - 2022 U6 - https://doi.org/10.1016/j.dib.2022.107914 SN - 2352-3409 VL - 41 PB - Elsevier CY - Amsterdam ER - TY - JOUR A1 - Kernecker, Maria A1 - Fienitz, Meike A1 - Nendel, Claas A1 - Paetzig, Marlene A1 - Walzl, Karin Pirhofer A1 - Raatz, Larissa A1 - Schmidt, Martin A1 - Wulf, Monika A1 - Zscheischler, Jana T1 - Transition zones across agricultural field boundaries for integrated landscape research and management of biodiversity and yields JF - Ecological solutions and evidence N2 - Biodiversity conservation and agricultural production have been largely framed as separate goals for landscapes in the discourse on land use. Although there is an increasing tendency to move away from this dichotomy in theory, the tendency is perpetuated by the spatially explicit approaches used in research and management practice. Transition zones (TZ) have previously been defined as areas where two adjacent fields or patches interact, and so they occur abundantly throughout agricultural landscapes. Biodiversity patterns in TZ have been extensively studied, but their relationship to yield patterns and social-ecological dimensions has been largely neglected. Focusing on European, temperate agricultural landscapes, we outline three areas of research and management that together demonstrate how TZ might be used to facilitate an integrated landscape approach: (i) plant and animal species' use and response to boundaries and the resulting effects on yield, for a deeper understanding of how landscape structure shapes quantity and quality of TZ; (ii) local knowledge on field or patch-level management and its interactions with biodiversity and yield in TZ, and (iii) conflict prevention and collaborative management across land-use boundaries. KW - ecotones KW - field boundaries KW - functional traits KW - landscape complexity; KW - land-use conflicts KW - local knowledge KW - spillovers Y1 - 2022 U6 - https://doi.org/10.1002/2688-8319.12122 SN - 2688-8319 VL - 3 IS - 1 PB - Wiley CY - Hoboken ER - TY - JOUR A1 - Mehner, Thomas A1 - Attermeyer, Katrin A1 - Brauns, Mario A1 - Brothers, Soren A1 - Hilt, Sabine A1 - Scharnweber, Inga Kristin A1 - Dorst, Renee Minavan A1 - Vanni, Michael J. A1 - Gaedke, Ursula T1 - Trophic transfer efficiency in lakes JF - Ecosystems N2 - Trophic transfer efficiency (TTE) is usually calculated as the ratio of production rates between two consecutive trophic levels. Although seemingly simple, TTE estimates from lakes are rare. In our review, we explore the processes and structures that must be understood for a proper lake TTE estimate. We briefly discuss measurements of production rates and trophic positions and mention how ecological efficiencies, nutrients (N, P) and other compounds (fatty acids) affect energy transfer between trophic levels and hence TTE. Furthermore, we elucidate how TTE estimates are linked with size-based approaches according to the Metabolic Theory of Ecology, and how food-web models can be applied to study TTE in lakes. Subsequently, we explore temporal and spatial heterogeneity of production and TTE in lakes, with a particular focus on the links between benthic and pelagic habitats and between the lake and the terrestrial environment. We provide an overview of TTE estimates from lakes found in the published literature. Finally, we present two alternative approaches to estimating TTE. First, TTE can be seen as a mechanistic quantity informing about the energy and matter flow between producer and consumer groups. This approach is informative with respect to food-web structure, but requires enormous amounts of data. The greatest uncertainty comes from the proper consideration of basal production to estimate TTE of omnivorous organisms. An alternative approach is estimating food-chain and food-web efficiencies, by comparing the heterotrophic production of single consumer levels or the total sum of all heterotrophic production including that of heterotrophic bacteria to the total sum of primary production. We close the review by pointing to a few research questions that would benefit from more frequent and standardized estimates of TTE in lakes. KW - stoichiometry KW - production rates KW - trophic position KW - fatty acids KW - land-water coupling KW - food-web models Y1 - 2022 U6 - https://doi.org/10.1007/s10021-022-00776-3 SN - 1432-9840 SN - 1435-0629 VL - 25 IS - 8 SP - 1628 EP - 1652 PB - Springer CY - New York ER -