TY - GEN A1 - Olmer, Ruth A1 - Engels, Lena A1 - Usman, Abdulai A1 - Menke, Sandra A1 - Malik, Muhammad Nasir Hayat A1 - Pessler, Frank A1 - Göhring, Gudrun A1 - Bornhorst, Dorothee A1 - Bolten, Svenja A1 - Abdelilah-Seyfried, Salim A1 - Scheper, Thomas A1 - Kempf, Henning A1 - Zweigerdt, Robert A1 - Martin, Ulrich T1 - Differentiation of Human Pluripotent Stem Cells into Functional Endothelial Cells in Scalable Suspension Culture T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Endothelial cells (ECs) are involved in a variety of cellular responses. As multifunctional components of vascular structures, endothelial (progenitor) cells have been utilized in cellular therapies and are required as an important cellular component of engineered tissue constructs and in vitro disease models. Although primary ECs from different sources are readily isolated and expanded, cell quantity and quality in terms of functionality and karyotype stability is limited. ECs derived from human induced pluripotent stem cells (hiPSCs) represent an alternative and potentially superior cell source, but traditional culture approaches and 2D differentiation protocols hardly allow for production of large cell numbers. Aiming at the production of ECs, we have developed a robust approach for efficient endothelial differentiation of hiPSCs in scalable suspension culture. The established protocol results in relevant numbers of ECs for regenerative approaches and industrial applications that show in vitro proliferation capacity and a high degree of chromosomal stability. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1182 KW - virus infection KW - progenitor cells KW - in vitro KW - telomere dysfunction KW - cord blood KW - cardiomyogenic differentiation KW - angiogenesis KW - efficient KW - aberrations KW - expression Y1 - 2017 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-427095 SN - 1866-8372 IS - 5 ER - TY - GEN A1 - Prát, Tomáš A1 - Hajny ́, Jakub A1 - Grunewald, Wim A1 - Vasileva, Mina A1 - Molnár, Gergely A1 - Tejos, Ricardo A1 - Schmid, Markus A1 - Sauer, Michael A1 - Friml, Jiří T1 - WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - 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. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1123 KW - apical-basal axis KW - arabidopsis-thaliana KW - root gravitropism KW - DNA-binding KW - gene-expression KW - transport KW - efflux KW - canalization KW - plants KW - phosphorylation Y1 - 2021 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-446331 SN - 1866-8372 IS - 1123 ER - TY - GEN A1 - Küken, Anika A1 - Sommer, Frederik A1 - Yaneva-Roder, Liliya A1 - Mackinder, Luke C.M. A1 - Höhne, Melanie A1 - Geimer, Stefan A1 - Jonikas, Martin C. A1 - Schroda, Michael A1 - Stitt, Mark A1 - Nikoloski, Zoran A1 - Mettler-Altmann, Tabea T1 - Effects of microcompartmentation on flux distribution and metabolic pools in Chlamydomonas reinhardtii chloroplasts T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Cells and organelles are not homogeneous but include microcompartments that alter the spatiotemporal characteristics of cellular processes. The effects of microcompartmentation on metabolic pathways are however difficult to study experimentally. The pyrenoid is a microcompartment that is essential for a carbon concentrating mechanism (CCM) that improves the photosynthetic performance of eukaryotic algae. Using Chlamydomonas reinhardtii, we obtained experimental data on photosynthesis, metabolites, and proteins in CCM-induced and CCM-suppressed cells. We then employed a computational strategy to estimate how fluxes through the Calvin-Benson cycle are compartmented between the pyrenoid and the stroma. Our model predicts that ribulose-1,5-bisphosphate (RuBP), the substrate of Rubisco, and 3-phosphoglycerate (3PGA), its product, diffuse in and out of the pyrenoid, respectively, with higher fluxes in CCM-induced cells. It also indicates that there is no major diffusional barrier to metabolic flux between the pyrenoid and stroma. Our computational approach represents a stepping stone to understanding microcompartmentalized CCM in other organisms. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1122 KW - carbon concentrating mechanism KW - B12-dependent 1,2-propanediol degradation KW - green algae KW - co2 concentrating mechanism KW - salmonella typhimurium KW - co2 concentration KW - enzyme activities KW - anhydrase CAH3 KW - protein KW - expression Y1 - 2021 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-446358 SN - 1866-8372 IS - 1122 ER - TY - GEN A1 - Mantzouki, Evanthia A1 - Lürling, Miquel A1 - Fastner, Jutta A1 - Domis, Lisette Nicole de Senerpont A1 - Wilk-Woźniak, Elżbieta A1 - Koreiviene, Judita A1 - Seelen, Laura A1 - Teurlincx, Sven A1 - Verstijnen, Yvon A1 - Krztoń, Wojciech A1 - Walusiak, Edward A1 - Karosienė, Jūratė A1 - Kasperovičienė, Jūratė A1 - Savadova, Ksenija A1 - Vitonytė, Irma A1 - Cillero-Castro, Carmen A1 - Budzyńska, Agnieszka A1 - Goldyn, Ryszard A1 - Kozak, Anna A1 - Rosińska, Joanna A1 - Szeląg-Wasielewska, Elżbieta A1 - Domek, Piotr A1 - Jakubowska-Krepska, Natalia A1 - Kwasizur, Kinga A1 - Messyasz, Beata A1 - Pełechata, Aleksandra A1 - Pełechaty, Mariusz A1 - Kokocinski, Mikolaj A1 - García-Murcia, Ana A1 - Real, Monserrat A1 - Romans, Elvira A1 - Noguero-Ribes, Jordi A1 - Duque, David Parreño A1 - Fernández-Morán, Elísabeth A1 - Karakaya, Nusret A1 - Häggqvist, Kerstin A1 - Beklioğlu, Meryem A1 - Filiz, Nur A1 - Levi, Eti E. A1 - Iskin, Uğur A1 - Bezirci, Gizem A1 - Tavşanoğlu, Ülkü Nihan A1 - Özhan, Koray A1 - Gkelis, Spyros A1 - Panou, Manthos A1 - Fakioglu, Özden A1 - Avagianos, Christos A1 - Kaloudis, Triantafyllos A1 - Çelik, Kemal A1 - Yilmaz, Mete A1 - Marcé, Rafael A1 - Catalán, Nuria A1 - Bravo, Andrea G. A1 - Buck, Moritz A1 - Colom-Montero, William A1 - Mustonen, Kristiina A1 - Pierson, Don A1 - Yang, Yang A1 - Raposeiro, Pedro M. A1 - Gonçalves, Vítor A1 - Antoniou, Maria G. A1 - Tsiarta, Nikoletta A1 - McCarthy, Valerie A1 - Perello, Victor C. A1 - Feldmann, Tõnu A1 - Laas, Alo A1 - Panksep, Kristel A1 - Tuvikene, Lea A1 - Gagala, Ilona A1 - Mankiewicz-Boczek, Joana A1 - Yağcı, Meral Apaydın A1 - Çınar, Şakir A1 - Çapkın, Kadir A1 - Yağcı, Abdulkadir A1 - Cesur, Mehmet A1 - Bilgin, Fuat A1 - Bulut, Cafer A1 - Uysal, Rahmi A1 - Obertegger, Ulrike A1 - Boscaini, Adriano A1 - Flaim, Giovanna A1 - Salmaso, Nico A1 - Cerasino, Leonardo A1 - Richardson, Jessica A1 - Visser, Petra M. A1 - Verspagen, Jolanda M. H. A1 - Karan, Tünay A1 - Soylu, Elif Neyran A1 - Maraşlıoğlu, Faruk A1 - Napiórkowska-Krzebietke, Agnieszka A1 - Ochocka, Agnieszka A1 - Pasztaleniec, Agnieszka A1 - Antão-Geraldes, Ana M. A1 - Vasconcelos, Vitor A1 - Morais, João A1 - Vale, Micaela A1 - Köker, Latife A1 - Akçaalan, Reyhan A1 - Albay, Meriç A1 - Maronić, Dubravka Špoljarić A1 - Stević, Filip A1 - Pfeiffer, Tanja Žuna A1 - Fonvielle, Jeremy Andre A1 - Straile, Dietmar A1 - Rothhaupt, Karl-Otto A1 - Hansson, Lars-Anders A1 - Urrutia-Cordero, Pablo A1 - Bláha, Luděk A1 - Geriš, Rodan A1 - Fránková, Markéta A1 - Koçer, Mehmet Ali Turan A1 - Alp, Mehmet Tahir A1 - Remec-Rekar, Spela A1 - Elersek, Tina A1 - Triantis, Theodoros A1 - Zervou, Sevasti-Kiriaki A1 - Hiskia, Anastasia A1 - Haande, Sigrid A1 - Skjelbred, Birger A1 - Madrecka, Beata A1 - Nemova, Hana A1 - Drastichova, Iveta A1 - Chomova, Lucia A1 - Edwards, Christine A1 - Sevindik, Tuğba Ongun A1 - Tunca, Hatice A1 - Önem, Burçin A1 - Aleksovski, Boris A1 - Krstić, Svetislav A1 - Vucelić, Itana Bokan A1 - Nawrocka, Lidia A1 - Salmi, Pauliina A1 - Machado-Vieira, Danielle A1 - Oliveira, Alinne Gurjão De A1 - Delgado-Martín, Jordi A1 - García, David A1 - Cereijo, Jose Luís A1 - Gomà, Joan A1 - Trapote, Mari Carmen A1 - Vegas-Vilarrúbia, Teresa A1 - Obrador, Biel A1 - Grabowska, Magdalena A1 - Karpowicz, Maciej A1 - Chmura, Damian A1 - Úbeda, Bárbara A1 - Gálvez, José Ángel A1 - Özen, Arda A1 - Christoffersen, Kirsten Seestern A1 - Warming, Trine Perlt A1 - Kobos, Justyna A1 - Mazur-Marzec, Hanna A1 - Pérez-Martínez, Carmen A1 - Ramos-Rodríguez, Eloísa A1 - Arvola, Lauri A1 - Alcaraz-Párraga, Pablo A1 - Toporowska, Magdalena A1 - Pawlik-Skowronska, Barbara A1 - Niedźwiecki, Michał A1 - Pęczuła, Wojciech A1 - Leira, Manel A1 - Hernández, Armand A1 - Moreno-Ostos, Enrique A1 - Blanco, José María A1 - Rodríguez, Valeriano A1 - Montes-Pérez, Jorge Juan A1 - Palomino, Roberto L. A1 - Rodríguez-Pérez, Estela A1 - Carballeira, Rafael A1 - Camacho, Antonio A1 - Picazo, Antonio A1 - Rochera, Carlos A1 - Santamans, Anna C. A1 - Ferriol, Carmen A1 - Romo, Susana A1 - Soria, Juan Miguel A1 - Dunalska, Julita A1 - Sieńska, Justyna A1 - Szymański, Daniel A1 - Kruk, Marek A1 - Kostrzewska-Szlakowska, Iwona A1 - Jasser, Iwona A1 - Žutinić, Petar A1 - Udovič, Marija Gligora A1 - Plenković-Moraj, Anđelka A1 - Frąk, Magdalena A1 - Bańkowska-Sobczak, Agnieszka A1 - Wasilewicz, Michał A1 - Özkan, Korhan A1 - Maliaka, Valentini A1 - Kangro, Kersti A1 - Grossart, Hans-Peter A1 - Paerl, Hans W. A1 - Carey, Cayelan C. A1 - Ibelings, Bas W. T1 - Temperature effects explain continental scale distribution of cyanobacterial toxins T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Insight into how environmental change determines the production and distribution of cyanobacterial toxins is necessary for risk assessment. Management guidelines currently focus on hepatotoxins (microcystins). Increasing attention is given to other classes, such as neurotoxins (e.g., anatoxin-a) and cytotoxins (e.g., cylindrospermopsin) due to their potency. Most studies examine the relationship between individual toxin variants and environmental factors, such as nutrients, temperature and light. In summer 2015, we collected samples across Europe to investigate the effect of nutrient and temperature gradients on the variability of toxin production at a continental scale. Direct and indirect effects of temperature were the main drivers of the spatial distribution in the toxins produced by the cyanobacterial community, the toxin concentrations and toxin quota. Generalized linear models showed that a Toxin Diversity Index (TDI) increased with latitude, while it decreased with water stability. Increases in TDI were explained through a significant increase in toxin variants such as MC-YR, anatoxin and cylindrospermopsin, accompanied by a decreasing presence of MC-LR. While global warming continues, the direct and indirect effects of increased lake temperatures will drive changes in the distribution of cyanobacterial toxins in Europe, potentially promoting selection of a few highly toxic species or strains. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1105 KW - microcystin KW - anatoxin KW - cylindrospermopsin KW - temperature KW - direct effects KW - indirect effects KW - spatial distribution KW - European Multi Lake Survey Y1 - 2021 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-427902 SN - 1866-8372 IS - 1105 ER - TY - GEN A1 - Mayer, Martin A1 - Ullmann, Wiebke A1 - Sunde, Peter A1 - Fischer, Christina A1 - Blaum, Niels T1 - Habitat selection by the European hare in arable landscapes BT - the importance of small‐scale habitat structure for conservation T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Agricultural land‐use practices have intensified over the last decades, leading to population declines of various farmland species, including the European hare (Lepus europaeus). In many European countries, arable fields dominate agricultural landscapes. Compared to pastures, arable land is highly variable, resulting in a large spatial variation of food and cover for wildlife over the course of the year, which potentially affects habitat selection by hares. Here, we investigated within‐home‐range habitat selection by hares in arable areas in Denmark and Germany to identify habitat requirements for their conservation. We hypothesized that hare habitat selection would depend on local habitat structure, that is, vegetation height, but also on agricultural field size, vegetation type, and proximity to field edges. Active hares generally selected for short vegetation (1–25 cm) and avoided higher vegetation and bare ground, especially when fields were comparatively larger. Vegetation >50 cm potentially restricts hares from entering parts of their home range and does not provide good forage, the latter also being the case on bare ground. The vegetation type was important for habitat selection by inactive hares, with fabaceae, fallow, and maize being selected for, potentially providing both cover and forage. Our results indicate that patches of shorter vegetation could improve the forage quality and habitat accessibility for hares, especially in areas with large monocultures. Thus, policymakers should aim to increase areas with short vegetation throughout the year. Further, permanent set‐asides, like fallow and wildflower areas, would provide year‐round cover for inactive hares. Finally, the reduction in field sizes would increase the density of field margins, and farming different crop types within small areas could improve the habitat for hares and other farmland species. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1076 KW - agriculture KW - arable land KW - conservation KW - GPS KW - habitat selection KW - Lepus europaeus KW - vegetation height Y1 - 2021 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-467891 SN - 1866-8372 IS - 1076 ER - TY - GEN A1 - Weyrich, Alexandra A1 - Jeschek, Marie A1 - Schrapers, Katharina T. A1 - Lenz, Dorina A1 - Chung, Tzu Hung A1 - Ruebensam, Kathrin A1 - Yasar, Sermin A1 - Schneemann, Markus A1 - Ortmann, Sylvia A1 - Jewgenow, Katarina A1 - Fickel, Jörns T1 - Diet changes alter paternally inherited epigenetic pattern in male Wild guinea pigs T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Epigenetic modifications, of which DNA methylation is the most stable, are a mechanism conveying environmental information to subsequent generations via parental germ lines. The paternal contribution to adaptive processes in the offspring might be crucial, but has been widely neglected in comparison to the maternal one. To address the paternal impact on the offspring's adaptability to changes in diet composition, we investigated if low protein diet (LPD) in F0 males caused epigenetic alterations in their subsequently sired sons. We therefore fed F0 male Wild guinea pigs with a diet lowered in protein content (LPD) and investigated DNA methylation in sons sired before and after their father's LPD treatment in both, liver and testis tissues. Our results point to a 'heritable epigenetic response' of the sons to the fathers' dietary change. Because we detected methylation changes also in the testis tissue, they are likely to be transmitted to the F2 generation. Gene-network analyses of differentially methylated genes in liver identified main metabolic pathways indicating a metabolic reprogramming ('metabolic shift'). Epigenetic mechanisms, allowing an immediate and inherited adaptation may thus be important for the survival of species in the context of a persistently changing environment, such as climate change. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1065 KW - DNA methylation KW - exposure KW - wild mammal species KW - inheritance KW - plasticity KW - adaptation Y1 - 2021 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-460031 SN - 1866-8372 IS - 1065 ER - TY - GEN A1 - Gräf, Ralph T1 - Comparative biology of centrosomal structures in eukaryotes T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - The centrosome is not only the largest and most sophisticated protein complex within a eukaryotic cell, in the light of evolution, it is also one of its most ancient organelles. This special issue of "Cells" features representatives of three main, structurally divergent centrosome types, i.e., centriole-containing centrosomes, yeast spindle pole bodies (SPBs), and amoebozoan nucleus-associated bodies (NABs). Here, I discuss their evolution and their key-functions in microtubule organization, mitosis, and cytokinesis. Furthermore, I provide a brief history of centrosome research and highlight recently emerged topics, such as the role of centrioles in ciliogenesis, the relationship of centrosomes and centriolar satellites, the integration of centrosomal structures into the nuclear envelope and the involvement of centrosomal components in non-centrosomal microtubule organization. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1063 KW - centrosome KW - centriole KW - cilium KW - basal body KW - spindle pole body KW - SPB KW - nucleus-associated body KW - NAB KW - microtubules Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-472294 SN - 1866-8372 IS - 1063 ER - TY - GEN A1 - Beermann, Jan A1 - Westbury, Michael V. A1 - Hofreiter, Michael A1 - Hilgers, Leon A1 - Deister, Fabian A1 - Neumann, Hermann A1 - Raupach, Michael J. T1 - Cryptic species in a well-known habitat BT - applying taxonomics to the amphipod genus Epimeria (Crustacea, Peracarida) T2 - Postprints der Universität Potsdam : Mathematisch Naturwissenschaftliche Reihe N2 - Taxonomy plays a central role in biological sciences. It provides a communication system for scientists as it aims to enable correct identification of the studied organisms. As a consequence, species descriptions should seek to include as much available information as possible at species level to follow an integrative concept of 'taxonomics'. Here, we describe the cryptic species Epimeria frankei sp. nov. from the North Sea, and also redescribe its sister species, Epimeria cornigera. The morphological information obtained is substantiated by DNA barcodes and complete nuclear 18S rRNA gene sequences. In addition, we provide, for the first time, full mitochondrial genome data as part of a metazoan species description for a holotype, as well as the neotype. This study represents the first successful implementation of the recently proposed concept of taxonomics, using data from high-throughput technologies for integrative taxonomic studies, allowing the highest level of confidence for both biodiversity and ecological research. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1059 KW - multiple sequence alignment KW - Oxidase Subunit-I KW - mitochondrial genome KW - control region KW - Ribosomal-RNA KW - asellota crustacea KW - gammarus crustacea KW - deep-sea KW - DNA KW - evolution Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-460792 SN - 1866-8372 IS - 1059 ER - TY - GEN A1 - Dittmann, Thea A1 - Heinken, Thilo A1 - Schmidt, Marcus T1 - Die Wälder von Magdeburgerforth (Fläming, Sachsen-Anhalt) T1 - The forests of Magdeburgerforth (Fläming, NE Germany) BT - eine Wiederholungsuntersuchungnach sechs Jahrzehnten BT - a resurvey study after six decade T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - In einem rund 2.200 ha großen Waldgebiet bei Magdeburgerforth (Fläming, Sachsen-Anhalt) wur-den 1948 bis 1950 von Harro Passarge 120 Vegetationsaufnahmen sowie eine Vegetationskartierung erstellt. Das Gebiet zeichnet sich durch eine große Vielfalt an Waldtypen aus den Verbänden Agrostio-Quercion petraeae, Alnion glutinosae, Alnion incanae, Carpinion betuli, Dicrano-Pinion und Quercion roboris aus. Daher und weil viele der heute in Wäldern wirksamen Prozesse (z. B. Stickstoffeintrag, Klimawandel) vor 60 Jahren noch nicht spürbar waren, bietet sich das Gebiet für eine Wiederholungs-untersuchung besonders an. Da die Aufnahmeflächen von Passarge nicht punktgenau verortet waren, wurden im Jahr 2014 in einem über die Forstabteilungen und die Vegetationskarte definierten Such-raum immer die der Erstaufnahme ähnlichsten Waldbestände erfasst. Insgesamt konnten 97 (81 %) der Aufnahmen wiederholt werden. Vegetationsveränderungen werden mithilfe einer NMDS-Ordination, der Gegenüberstellung von α-Diversität, Zeigerwerten und Waldbindungskategorien für die beiden Aufnahmezeitpunkte sowie über die Identifikation von Gewinner- und Verlierer-Arten analysiert.Auch wenn methodenbedingt bei der Wiederholungsuntersuchung nur die jeweils geringstmögliche Vegetationsveränderung abgebildet wird, konnten Ergebnisse erzielt werden, die mit denen quasi-permanenter Plots übereinstimmen. Die beobachteten allgemeinen Trends (Eutrophierung, Sukzession nach Nutzungswandel, Verlust lichtliebender und magerkeitszeigender Arten, Ausbreitung von stick-stoffliebenden Arten und mesophilen Waldarten, Einwanderung von Neophyten, keine generelle Ab-nahme der Artenzahl) stimmen gut mit den in zahlreichen Studien aus mitteleuropäischen Wäldern festgestellten überein. Durch das von nassen bis trockenen sowie von bodensauer-nährstoffarmen bis zu relativ basenreichen Böden reichende Standortsspektrum innerhalb des Untersuchungsgebietes konnte aber – deutlicher als in den meisten bisherigen Fallstudien – gezeigt werden, dass sich die Resilienz der Wälder gegenüber Vegetationsveränderung je nach Ausgangsgesellschaft stark unterscheidet und jeweils unterschiedliche Treiber wirksam sind. Stellario-Carpinetum und Luzulo-Quercetum erwiesen sich als relativ stabil, und auch in den Feuchtwäldern des Circaeo-Alnetum gab es trotz eines Arten-wechsels wenig Hinweise auf Umweltveränderungen. Dagegen wiesen die Wälder nährstoffarmer Standorte (Sphagno-Alnetum, Betulo-Quercetum, Dicrano-Pinion) viele Verliererarten und eine starke Eutrophierungstendenz auf. Die in besonderem Maße von historischen Waldnutzungsformen abhängi-gen thermophilen Wälder und die Flechten-Kiefernwälder gingen weitgehend verloren. N2 - Between 1948 and 1950 the German phytosociologist Harro Passarge conducted 120 releves in a 2,200 ha large forest area near Magdeburgerforth (Flaming, Saxony-Anhalt, NE Germany). The study area is characterized by a remarkable diversity of forest communities of the alliances Agrostio-Quercion petraeae, Alnion glutinosae, Alnion incanae, Carpinion betuli, Dicrano-Pinion and Quercion roboris. Because of this broad ecological spectrum, and because many processes which impact Central European forests today (nitrogen deposition, climate change) were not noticeable at the date of the first survey, it provides a good opportunity for a resurvey study after 60 years. As the position of Passarge's releves were not marked in a map, in the 2014 resurvey we sampled the most similar forest stands within a search area defined by the forest compartment and the Passarge vegetation map. In this way, 97 (81%) of the releves could be repeated. Vegetation change was analysed by NMDS ordination and the comparison of a diversity, Ellenberg indicator values and linkage to forest habitats of species from both censuses, as well as by the identification of winner and loser species. Although, due to the methodology, only the smallest possible vegetation change was indicated, we nevertheless gained results which conform to those of resurveys based on quasi-permanent plots. The main trends (eutrophication, succession after management change, loss of plant species that are light demanding and linked to oligotrophic sites, spread of nitrophilous and mesophilous forest species, immigration of neophytes, no general decline in species richness) are in agreement with the results of several other resurvey studies in Central and Western European forests. Because of the wide spectrum of habitats within the study area (from wet to dry, as well as from acidic and nutrient-poor to relatively base-rich) we could demonstrate more clearly than in previous studies that the resilience of forests to vegetation change differs strongly according to the initial forest type, and that different drivers of temporal changes are active. Mesophilous forests (Stellario-Carpinetum and Luzulo-Quercetum) turned out to be relatively stable, while Circaeo-Alnetum forests also showed few signs of environmental change despite some species turnover. In contrast, forests of nutrient-poor habitats (Sphagno-Alnetum, Betulo-Quercetum, Dicrano-Pinion) were characterized by many loser species and a strong tendency towards eutrophication. Thermophilous forests and lichen-pine forests, which are especially dependent on historical forest management techniques, largely disappeared. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1053 KW - initial site conditions KW - nitrogen deposition KW - past land use KW - quasi-permanent plots KW - vegetation change KW - winner and loser species Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-460058 SN - 1866-8372 IS - 1053 SP - 11 EP - 42 ER - TY - GEN A1 - Epp, Laura Saskia A1 - Kruse, Stefan A1 - Kath, Nadja J. A1 - Stoof-Leichsenring, Kathleen Rosemarie A1 - Tiedemann, Ralph A1 - Pestryakova, Luidmila Agafyevna A1 - Herzschuh, Ulrike T1 - Temporal and spatial patterns of mitochondrial haplotype and species distributions in Siberian larches inferred from ancient environmental DNA and modeling T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Changes in species' distributions are classically projected based on their climate envelopes. For Siberian forests, which have a tremendous significance for vegetation-climate feedbacks, this implies future shifts of each of the forest-forming larch (Larix) species to the north-east. However, in addition to abiotic factors, reliable projections must assess the role of historical biogeography and biotic interactions. Here, we use sedimentary ancient DNA and individual-based modelling to investigate the distribution of larch species and mitochondrial haplotypes through space and time across the treeline ecotone on the southern Taymyr peninsula, which at the same time presents a boundary area of two larch species. We find spatial and temporal patterns, which suggest that forest density is the most influential driver determining the precise distribution of species and mitochondrial haplotypes. This suggests a strong influence of competition on the species' range shifts. These findings imply possible climate change outcomes that are directly opposed to projections based purely on climate envelopes. Investigations of such fine-scale processes of biodiversity change through time are possible using paleoenvironmental DNA, which is available much more readily than visible fossils and can provide information at a level of resolution that is not reached in classical palaeoecology. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1052 KW - ecological genetics KW - ecological modelling KW - palaeoecology KW - plant ecology KW - climate change KW - introgression KW - temperature KW - treeline KW - vegetation KW - mitochondrial haplotypes KW - Siberian larch KW - larch species KW - range shifts KW - vegetation-climate feedbacks KW - ecosystems KW - impacts KW - dynamics Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-468352 SN - 1866-8372 IS - 1052 ER - TY - GEN A1 - Martin-Creuzburg, Dominik A1 - Massier, Tamara A1 - Wacker, Alexander T1 - Sex-specific differences in essential lipid requirements of Daphnia magna T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - 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. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1050 KW - allocation KW - cholesterol KW - eicosapentaenoic acid KW - food quality KW - male Daphnia KW - polyunsaturated fatty acids KW - sterols KW - lipid limitation thresholds Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-469099 SN - 1866-8372 IS - 1050 ER - TY - GEN A1 - Boch, Steffen A1 - Müller, Jörg A1 - Prati, Daniel A1 - Fischer, Markus T1 - Low-intensity management promotes bryophyte diversity in grasslands T1 - Extensive Landnutzung fördert die Moosdiversität im Grünland T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Bryophytes constitute an important and permanent component of the grassland flora and diversity in Europe. As most bryophyte species are sensitive to habitat change, their diversity is likely to decline following land-use intensification. Most previous studies on bryophyte diversity focused on specific habitats of high bryophyte diversity, such as bogs, montane grasslands, or calcareous dry grasslands. In contrast, mesic grasslands are rarely studied, although they are the most common grassland habitat in Europe. They are secondary vegetation, maintained by agricultural use and thus, are influenced by different forms of land use. We studied bryophyte species richness in three regions in Germany, in 707 plots of 16 m2 representing different land-use types and environmental conditions. Our study is one of the few to inspect the relationships between bryophyte richness and land use across contrasting regions and using a high number of replicates.Among the managed grasslands, pastures harboured 2.5 times more bryophyte species than mead-ows and mown pastures. Similarly, bryophyte cover was about twice as high in fallows and pastures than in meadows and mown pastures. Among the pastures, bryophyte species richness was about three times higher in sheep grazed plots than in the ones grazed by cattle or horses. In general, bryophyte species richness and cover was more than 50% lower in fertilized than in unfertilized plots. Moreover, the amount of suitable substrates was linked to bryophyte diversity. Species richness of bryophytes growing on stones increased with stone cover, and the one of bryophytes growing on bark and deadwood increased with larger values of woody plant species and deadwood cover. Our findings highlight the importance of low-intensity land use and high structural heterogeneity for bryophyte conservation. They also caution against an intensification of traditionally managed pastures. In the light of our results, we recommend to maintain low-intensity sheep grazing on sites with low productivity, such as slopes on shallow soils. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1049 KW - biodiversity exploratories KW - competition KW - dry and mesic grasslands KW - grazing KW - fertilization KW - land use KW - liverwort KW - meadow KW - moss KW - pasture Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-460086 SN - 1866-8372 IS - 1049 SP - 311 EP - 328 ER - TY - GEN A1 - Biterova, Ekaterina A1 - Esmaeeli Moghaddam Tabalvandani, Mariam A1 - Alanen, Heli I. A1 - Saaranen, Mirva A1 - Ruddock, Lloyd W. T1 - Structures of Angptl3 and Angptl4 BT - modulators of triglyceride levels and coronary artery disease T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - 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. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1048 KW - angiopoitin-like 4 KW - of-function mutations KW - cardiovascular-disease KW - lipoprotein-lipase KW - heart-disease KW - risk KW - recognition KW - protein KW - metaanalysis KW - association KW - cardiovascular biology KW - x-ray crystallography Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-467943 SN - 1866-8372 IS - 1048 ER - TY - GEN A1 - Möser, Christin A1 - Lorenz, Jessica S. A1 - Sajfutdinow, Martin A1 - Smith, David M. T1 - Pinpointed stimulation of EphA2 receptors via DNA-templated oligovalence T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - DNA nanostructures enable the attachment of functional molecules to nearly any unique location on their underlying structure. Due to their single-base-pair structural resolution, several ligands can be spatially arranged and closely controlled according to the geometry of their desired target, resulting in optimized binding and/or signaling interactions. Here, the efficacy of SWL, an ephrin-mimicking peptide that binds specifically to EphrinA2 (EphA2) receptors, increased by presenting up to three of these peptides on small DNA nanostructures in an oligovalent manner. Ephrin signaling pathways play crucial roles in tumor development and progression. Moreover, Eph receptors are potential targets in cancer diagnosis and treatment. Here, the quantitative impact of SWL valency on binding, phosphorylation (key player for activation) and phenotype regulation in EphA2-expressing prostate cancer cells was demonstrated. EphA2 phosphorylation was significantly increased by DNA trimers carrying three SWL peptides compared to monovalent SWL. In comparison to one of EphA2’s natural ligands ephrin-A1, which is known to bind promiscuously to multiple receptors, pinpointed targeting of EphA2 by oligovalent DNA-SWL constructs showed enhanced cell retraction. Overall, we show that DNA scaffolds can increase the potency of weak signaling peptides through oligovalent presentation and serve as potential tools for examination of complex signaling pathways. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1041 KW - DNA nanostructure KW - ephrin KW - EphA2 KW - SWL KW - PC-3 cells KW - multivalence Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-468828 SN - 1866-8372 IS - 1041 ER - TY - GEN A1 - Heim, Wieland A1 - Eccard, Jana A1 - Bairlein, Franz T1 - Migration phenology determines niche use of East Asian buntings (Emberizidae) during stopover T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Stopover niche utilization of birds during migration has not gained much attention so far, since the majority of the studies focuses on breeding or wintering areas. However, stopover sites are crucial for migratory birds. They are often used by a multitude of species, which could lead to increased competition. In this work, we investigated niche use of 8 migratory and closely related Emberiza bunting species at a stopover site in Far East Russia, situated on the poorly studied East Asian flyway. We used bird ringing data to evaluate morphological similarity as well as niche overlap on the trophic, spatial, and temporal dimension. Bill morphology was used as a proxy for their trophic niche. We were able to prove that a majority of the species occupies well-defined stopover niches on at least one of the dimensions. Niche breadth and niche overlap differ between spring and autumn season with higher overlap found during spring. Morphological differences are mostly related to overall size and wing pointedness. The temporal dimension is most important for segregation among the studied species. Furthermore, all species seem to exhibit a rather strict and consistent phenological pattern. Their occurrence at the study site is highly correlated with their geographic origin and the length of their migration route. We assume that buntings are able to use available resources opportunistically during stopover, while trying to follow a precise schedule in order to avoid competition and to ensure individual fitness. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1038 KW - bird migration KW - Emberiza KW - habitat use KW - non-breeding KW - phenology KW - stopover Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-470607 SN - 1866-8372 IS - 1038 SP - 681 EP - 692 ER - TY - GEN A1 - Kruse, Julia A1 - Kummer, Volker A1 - Shivas, Roger G. A1 - Thines, Marco T1 - The first smut fungus, Thecaphora anthemidis sp. nov. (Glomosporiaceae), described from Anthemis (Asteraceae) T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - There are 63 known species of Thecaphora (Glomosporiaceae, Ustilaginomycotina), a third of which occur on Asteraceae. These smut fungi produce yellowish-brown to reddish-brown masses of spore balls in specific, mostly regenerative, plant organs. A species of Thecaphora was collected in the flower heads of Anthemis chia (Anthemideae, Asteraceae) on Rhodes Island, Greece, in 2015 and 2017, which represents the first smut record of a smut fungus on a host plant species in this tribe. Based on its distinctive morphology, host species and genetic divergence, this species is described as Thecaphora anthemidis sp. nov. Molecular barcodes of the ITS region are provided for this and several other species of Thecaphora. A phylogenetic and morphological comparison to closely related species showed that Th. anthemidis differed from other species of Thecaphora. Thecaphora anthemidis produced loose spore balls in the flower heads and peduncles of Anthemis chia unlike other flower-infecting species. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 995 KW - Glomosporiaceae KW - host specificity KW - internal transcribed spacer KW - molecular phylogenetics KW - smut fungi Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-446377 SN - 1866-8372 SP - 39 EP - 50 ER - TY - GEN A1 - Nakamura, Moritaka A1 - Claes, Andrea R. A1 - Grebe, Tobias A1 - Hermkes, Rebecca A1 - Viotti, Corrado A1 - Ikeda, Yoshihisa A1 - Grebe, Markus T1 - Auxin and ROP GTPase signaling of polar nuclear migration in root epidermal hair cells T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Polar nuclear migration is crucial during the development of diverse eukaryotes. In plants, root hair growth requires polar nuclear migration into the outgrowing hair. However, knowledge about the dynamics and the regulatory mechanisms underlying nuclear movements in root epidermal cells remains limited. Here, we show that both auxin and Rho-of-Plant (ROP) signaling modulate polar nuclear position at the inner epidermal plasma membrane domain oriented to the cortical cells during cell elongation as well as subsequent polar nuclear movement to the outer domain into the emerging hair bulge in Arabidopsis (Arabidopsis thaliana). Auxin signaling via the nuclear AUXIN RESPONSE FACTOR7 (ARF7)/ARF19 and INDOLE ACETIC ACID7 pathway ensures correct nuclear placement toward the inner membrane domain. Moreover, precise inner nuclear placement relies on SPIKE1 Rho-GEF, SUPERCENTIPEDE1 Rho-GDI, and ACTIN7 (ACT7) function and to a lesser extent on VTI11 vacuolar SNARE activity. Strikingly, the directionality and/or velocity of outer polar nuclear migration into the hair outgrowth along actin strands also are ACT7 dependent, auxin sensitive, and regulated by ROP signaling. Thus, our findings provide a founding framework revealing auxin and ROP signaling of inner polar nuclear position with some contribution by vacuolar morphology and of actin-dependent outer polar nuclear migration in root epidermal hair cells. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 992 KW - Arabidopsis-thaliana KW - planar polarity KW - tip growth KW - morphogenesis KW - gene KW - proteins KW - dynamics KW - transformation KW - activation KW - initiation Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-441278 SN - 1866-8372 IS - 992 SP - 378 EP - 391 ER - TY - GEN A1 - Senczuk, Gabriele A1 - Havenstein, Katja A1 - Milana, Valentina A1 - Ripa, Chiara A1 - De Simone, Emanuela A1 - Tiedemann, Ralph A1 - Castiglia, Riccardo T1 - Spotlight on islands BT - on the origin and diversification of an ancient lineage of the Italian wall lizard Podarcis siculus in the western Pontine Islands T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - 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. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 991 KW - mitochondrial dna sequences KW - genetic diversity KW - haplotype reconstruction KW - evolutionary history KW - geological evolution KW - population structure KW - Tyrrhenian Sea KW - endemic lizard KW - genotype data KW - biogeography Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-446360 SN - 1866-8372 IS - 991 ER - TY - GEN A1 - Lukan, Tjaša A1 - Machens, Fabian A1 - Coll, Anna A1 - Baebler, Špela A1 - Messerschmidt, Katrin A1 - Gruden, Kristina T1 - Plant X-tender BT - an extension of the AssemblX system for the assembly and expression of multigene constructs in plants T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Cloning multiple DNA fragments for delivery of several genes of interest into the plant genome is one of the main technological challenges in plant synthetic biology. Despite several modular assembly methods developed in recent years, the plant biotechnology community has not widely adopted them yet, probably due to the lack of appropriate vectors and software tools. Here we present Plant X-tender, an extension of the highly efficient, scarfree and sequence-independent multigene assembly strategy AssemblX,based on overlapdepended cloning methods and rare-cutting restriction enzymes. Plant X-tender consists of a set of plant expression vectors and the protocols for most efficient cloning into the novel vector set needed for plant expression and thus introduces advantages of AssemblX into plant synthetic biology. The novel vector set covers different backbones and selection markers to allow full design flexibility. We have included ccdB counterselection, thereby allowing the transfer of multigene constructs into the novel vector set in a straightforward and highly efficient way. Vectors are available as empty backbones and are fully flexible regarding the orientation of expression cassettes and addition of linkers between them, if required. We optimised the assembly and subcloning protocol by testing different scar-less assembly approaches: the noncommercial SLiCE and TAR methods and the commercial Gibson assembly and NEBuilder HiFi DNA assembly kits. Plant X-tender was applicable even in combination with low efficient homemade chemically competent or electrocompetent Escherichia coli. We have further validated the developed procedure for plant protein expression by cloning two cassettes into the newly developed vectors and subsequently transferred them to Nicotiana benthamiana in a transient expression setup. Thereby we show that multigene constructs can be delivered into plant cells in a streamlined and highly efficient way. Our results will support faster introduction of synthetic biology into plant science. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 990 KW - ligation cloning extract KW - DNA cloning KW - synthetic biology KW - multiple genes KW - vector system KW - transformation KW - recombination KW - protein KW - RNA KW - Methylation Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-446281 SN - 1866-8372 IS - 990 ER - TY - GEN A1 - Otto, Nils A1 - Marelja, Zvonimir A1 - Schoofs, Andreas A1 - Kranenburg, Holger A1 - Bittern, Jonas A1 - Yildirim, Kerem A1 - Berh, Dimitri A1 - Bethke, Maria A1 - Thomas, Silke A1 - Rode, Sandra A1 - Risse, Benjamin A1 - Jiang, Xiaoyi A1 - Pankratz, Michael A1 - Leimkühler, Silke A1 - Klämbt, Christian T1 - The sulfite oxidase Shopper controls neuronal activity by regulating glutamate homeostasis in Drosophila ensheathing glia T2 - Postprints der Universität Potsdam : Mathematisch Naturwissenschaftliche Reihe N2 - Specialized glial subtypes provide support to developing and functioning neural networks. Astrocytes modulate information processing by neurotransmitter recycling and release of neuromodulatory substances, whereas ensheathing glial cells have not been associated with neuromodulatory functions yet. To decipher a possible role of ensheathing glia in neuronal information processing, we screened for glial genes required in the Drosophila central nervous system for normal locomotor behavior. Shopper encodes a mitochondrial sulfite oxidase that is specifically required in ensheathing glia to regulate head bending and peristalsis. shopper mutants show elevated sulfite levels affecting the glutamate homeostasis which then act on neuronal network function. Interestingly, human patients lacking the Shopper homolog SUOX develop neurological symptoms, including seizures. Given an enhanced expression of SUOX by oligodendrocytes, our findings might indicate that in both invertebrates and vertebrates more than one glial cell type may be involved in modulating neuronal activity. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 975 KW - molybdenum cofactor deficiency KW - blood-brain-barrier KW - larval locomotion KW - energy-metabolism KW - cerebral-cortex KW - astrocytes KW - behavior KW - cells KW - transmission KW - disease KW - Diseases of the nervous system KW - Glial biology KW - Glial development KW - Neurotransmitters Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-426205 SN - 1866-8372 IS - 975 ER - TY - GEN A1 - Raatz, Michael A1 - van Velzen, Ellen A1 - Gaedke, Ursula T1 - Co‐adaptation impacts the robustness of predator–prey dynamics against perturbations T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - Global change threatens the maintenance of ecosystem functions that are shaped by the persistence and dynamics of populations. It has been shown that the persistence of species increases if they possess larger trait adaptability. Here, we investigate whether trait adaptability also affects the robustness of population dynamics of interacting species and thereby shapes the reliability of ecosystem functions that are driven by these dynamics. We model co‐adaptation in a predator–prey system as changes to predator offense and prey defense due to evolution or phenotypic plasticity. We investigate how trait adaptation affects the robustness of population dynamics against press perturbations to environmental parameters and against pulse perturbations targeting species abundances and their trait values. Robustness of population dynamics is characterized by resilience, elasticity, and resistance. In addition to employing established measures for resilience and elasticity against pulse perturbations (extinction probability and return time), we propose the warping distance as a new measure for resistance against press perturbations, which compares the shapes and amplitudes of pre‐ and post‐perturbation population dynamics. As expected, we find that the robustness of population dynamics depends on the speed of adaptation, but in nontrivial ways. Elasticity increases with speed of adaptation as the system returns more rapidly to the pre‐perturbation state. Resilience, in turn, is enhanced by intermediate speeds of adaptation, as here trait adaptation dampens biomass oscillations. The resistance of population dynamics strongly depends on the target of the press perturbation, preventing a simple relationship with the adaptation speed. In general, we find that low robustness often coincides with high amplitudes of population dynamics. Hence, amplitudes may indicate the robustness against perturbations also in other natural systems with similar dynamics. Our findings show that besides counteracting extinctions, trait adaptation indeed strongly affects the robustness of population dynamics against press and pulse perturbations. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 809 KW - disturbance KW - evolutionary rescue KW - population dynamics KW - stability KW - trait adaptation Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-442489 SN - 1866-8372 IS - 809 ER - TY - GEN A1 - Malinova, Irina A1 - Qasim, Hadeel M. A1 - Brust, Henrike A1 - Fettke, Jörg T1 - Parameters of Starch Granule Genesis in Chloroplasts of Arabidopsis thaliana T2 - Frontiers in Plant Science N2 - Starch is the primary storage carbohydrate in most photosynthetic organisms and allows the accumulation of carbon and energy in form of an insoluble and semi-crystalline particle. In the last decades large progress, especially in the model plant Arabidopsis thaliana, was made in understanding the structure and metabolism of starch and its conjunction. The process underlying the initiation of starch granules remains obscure, although this is a fundamental process and seems to be strongly regulated, as in Arabidopsis leaves the starch granule number per chloroplast is fixed with 5-7. Several single, double, and triple mutants were reported in the last years that showed massively alterations in the starch granule number per chloroplast and allowed further insights in this important process. This mini review provides an overview of the current knowledge of processes involved in the initiation and formation of starch granules. We discuss the central role of starch synthase 4 and further proteins for starch genesis and affecting metabolic factors. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 478 KW - starch biosynthesis KW - starch granule biogenesis KW - starch synthase KW - plastidial phosphorylase KW - maltooligosaccharides Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-419295 UR - urn:nbn:de:kobv:517-opus4-419295 ER - TY - GEN A1 - Grau, José Horacio A1 - Hackl, Thomas A1 - Koepfli, Klaus-Peter A1 - Hofreiter, Michael T1 - Improving draft genome contiguity with reference-derived in silico mate-pair libraries T2 - GigaScience N2 - Background Contiguous genome assemblies are a highly valued biological resource because of the higher number of completely annotated genes and genomic elements that are usable compared to fragmented draft genomes. Nonetheless, contiguity is difficult to obtain if only low coverage data and/or only distantly related reference genome assemblies are available. Findings In order to improve genome contiguity, we have developed Cross-Species Scaffolding—a new pipeline that imports long-range distance information directly into the de novo assembly process by constructing mate-pair libraries in silico. Conclusions We show how genome assembly metrics and gene prediction dramatically improve with our pipeline by assembling two primate genomes solely based on ∼30x coverage of shotgun sequencing data. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 477 KW - genome assembly KW - mate-pairs KW - in silico KW - scaffolding KW - shotgun sequencing Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-419225 ER - TY - GEN A1 - Kunstmann, Ruth Sonja A1 - Scheidt, Tom A1 - Buchwald, Saskia A1 - Helm, Alexandra A1 - Mulard, Laurence A. A1 - Fruth, Angelika A1 - Barbirz, Stefanie T1 - Bacteriophage Sf6 Tailspike Protein for Detection of Shigella flexneri Pathogens T2 - Viruses N2 - Bacteriophage research is gaining more importance due to increasing antibiotic resistance. However, for treatment with bacteriophages, diagnostics have to be improved. Bacteriophages carry adhesion proteins, which bind to the bacterial cell surface, for example tailspike proteins (TSP) for specific recognition of bacterial O-antigen polysaccharide. TSP are highly stable proteins and thus might be suitable components for the integration into diagnostic tools. We used the TSP of bacteriophage Sf6 to establish two applications for detecting Shigella flexneri (S. flexneri), a highly contagious pathogen causing dysentery. We found that Sf6TSP not only bound O-antigen of S. flexneri serotype Y, but also the glucosylated O-antigen of serotype 2a. Moreover, mass spectrometry glycan analyses showed that Sf6TSP tolerated various O-acetyl modifications on these O-antigens. We established a microtiter plate-based ELISA like tailspike adsorption assay (ELITA) using a Strep-tag®II modified Sf6TSP. As sensitive screening alternative we produced a fluorescently labeled Sf6TSP via coupling to an environment sensitive dye. Binding of this probe to the S. flexneri O-antigen Y elicited a fluorescence intensity increase of 80% with an emission maximum in the visible light range. The Sf6TSP probes thus offer a promising route to a highly specific and sensitive bacteriophage TSP-based Shigella detection system. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 472 KW - Shigella flexneri KW - bacteriophage KW - tailspike proteins KW - O-antigen KW - serotyping KW - microtiter plate assay KW - fluorescence sensor Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-417831 ER - TY - GEN A1 - Nagel, Rebecca A1 - Kirschbaum, Frank A1 - Hofmann, Volker A1 - Engelmann, Jacob A1 - Tiedemann, Ralph T1 - Electric pulse characteristics can enable species recognition in African weakly electric fish species T2 - Scientific Reports N2 - Communication is key to a wide variety of animal behaviours and multiple modalities are often involved in this exchange of information from sender to receiver. The communication of African weakly electric fish, however, is thought to be predominantly unimodal and is mediated by their electric sense, in which species-specific electric organ discharges (EODs) are generated in a context-dependent and thus variable sequence of pulse intervals (SPI). While the primary function of the electric sense is considered to be electrolocation, both of its components likely carry information regarding identity of the sender. However, a clear understanding of their contribution to species recognition is incomplete. We therefore analysed these two electrocommunication components (EOD waveform and SPI statistics) in two sympatric mormyrid Campylomormyrus species. In a set of five playback conditions, we further investigated which components may drive interspecific recognition and discrimination. While we found that both electrocommunication components are species-specific, the cues necessary for species recognition differ between the two species studied. While the EOD waveform and SPI were both necessary and sufficient for species recognition in C. compressirostris males, C. tamandua males apparently utilize other, non-electric modalities. Mapped onto a recent phylogeny, our results suggest that discrimination by electric cues alone may be an apomorphic trait evolved during a recent radiation in this taxon. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 470 KW - Dwelling Atlantic Mollies KW - Organ Discharge Patterns KW - Mormyrid Fish KW - Pollimyrus-Isidori KW - Acoustic-Signals KW - Sexual Selection KW - Phylogenetic-Relationships KW - Hypopomus-Occidentalis KW - Convergent Evolution KW - Poecili-Mexicana Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-417577 ER - TY - GEN A1 - Broeker, Nina K. A1 - Kiele, Franziska A1 - Casjens, Sherwood R. A1 - Gilcrease, Eddie B. A1 - Thalhammer, Anja A1 - Koetz, Joachim T1 - In Vitro Studies of Lipopolysaccharide-Mediated DNA Release of Podovirus HK620 T2 - Viruses N2 - Gram-negative bacteria protect themselves with an outermost layer containing lipopolysaccharide (LPS). O-antigen-specific bacteriophages use tailspike proteins (TSP) to recognize and cleave the O-polysaccharide part of LPS. However, O-antigen composition and structure can be highly variable depending on the environmental conditions. It is important to understand how these changes may influence the early steps of the bacteriophage infection cycle because they can be linked to changes in host range or the occurrence of phage resistance. In this work, we have analyzed how LPS preparations in vitro trigger particle opening and DNA ejection from the E. coli podovirus HK620. Fluorescence-based monitoring of DNA release showed that HK620 phage particles in vitro ejected their genome at velocities comparable to those found for other podoviruses. Moreover, we found that HK620 irreversibly adsorbed to the LPS receptor via its TSP at restrictive low temperatures, without opening the particle but could eject its DNA at permissive temperatures. DNA ejection was solely stimulated by LPS, however, the composition of the O-antigen dictated whether the LPS receptor could start the DNA release from E. coli phage HK620 in vitro. This finding can be significant when optimizing bacteriophage mixtures for therapy, where in natural environments O-antigen structures may rapidly change. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 469 KW - O-antigen specific phage KW - podovirus KW - HK620 KW - lipopolysaccharide KW - in vitro particle opening KW - tailspike protein Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-417493 ER - TY - GEN A1 - Scherer, Ulrike A1 - Tiedemann, Ralph A1 - Schlupp, Ingo T1 - Male size, not female preferences influence female reproductive success in a poeciliid fish (Poecilia latipinna) BT - a combined behavioural/genetic approach T2 - BMC Research Notes N2 - Objective We investigated the potential role of indirect benefits for female mate preferences in a highly promiscuous species of live-bearing fishes, the sailfin molly Poecilia latipinna using an integrative approach that combines methods from animal behavior, life-history evolution, and genetics. Males of this species solely contribute sperm for reproduction, and consequently females do not receive any direct benefits. Despite this, females typically show clear mate preferences. It has been suggested that females can increase their reproductive success through indirect benefits from choosing males of higher quality. Results Although preferences for large body size have been recorded as an honest signal for genetic quality, this particular study resulted in female preference being unaffected by male body size. Nonetheless, larger males did sire more offspring, but with no effect on offspring quality. This study presents a methodical innovation by combining preference testing with life history measurements—such as the determination of the dry weight of fish embryos—and paternity analyses on single fish embryos. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 468 KW - Fitness KW - Life history KW - Mate choice KW - Microsatellite analysis KW - Offspring weight KW - Paternity analysis KW - Sailfin molly KW - Sexual selection Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-417471 ER - TY - GEN A1 - Ehrlich, Elias A1 - Gaedke, Ursula T1 - Not attackable or not crackable BT - How pre-and post-attack defenses with different competition costs affect prey coexistence and population dynamics T2 - Ecology and Evolution N2 - It is well-known that prey species often face trade-offs between defense against predation and competitiveness, enabling predator-mediated coexistence. However, we lack an understanding of how the large variety of different defense traits with different competition costs affects coexistence and population dynamics. Our study focusses on two general defense mechanisms, that is, pre-attack (e.g., camouflage) and post-attack defenses (e.g., weaponry) that act at different phases of the predator—prey interaction. We consider a food web model with one predator, two prey types and one resource. One prey type is undefended, while the other one is pre-or post-attack defended paying costs either by a higher half-saturation constant for resource uptake or a lower maximum growth rate. We show that post-attack defenses promote prey coexistence and stabilize the population dynamics more strongly than pre-attack defenses by interfering with the predator’s functional response: Because the predator spends time handling “noncrackable” prey, the undefended prey is indirectly facilitated. A high half-saturation constant as defense costs promotes coexistence more and stabilizes the dynamics less than a low maximum growth rate. The former imposes high costs at low resource concentrations but allows for temporally high growth rates at predator-induced resource peaks preventing the extinction of the defended prey. We evaluate the effects of the different defense mechanisms and costs on coexistence under different enrichment levels in order to vary the importance of bottom-up and top-down control of the prey community. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 466 KW - coexistence KW - competition–defense trade‐off KW - defense against predation KW - functional response KW - indirect facilitation KW - predator–prey cycles Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-417391 ER - TY - GEN A1 - Taron, Ulrike H. A1 - Lell, Moritz A1 - Barlow, Axel A1 - Paijmans, Johanna L. A. T1 - Testing of Alignment Parameters for Ancient Samples BT - Evaluating and Optimizing Mapping Parameters for Ancient Samples Using the TAPAS Tool T2 - Genes N2 - 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. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 415 KW - ancient DNA KW - short-read mapping KW - palaeogenomics KW - alignment sensitivity / specificity Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-409683 ER - TY - GEN A1 - Schedina, Ina Maria A1 - Groth, Detlef A1 - Schlupp, Ingo A1 - Tiedemann, Ralph T1 - The gonadal transcriptome of the unisexual Amazon molly Poecilia formosa in comparison to its sexual ancestors, Poecilia mexicana and Poecilia latipinna N2 - 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. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 412 KW - Differential gene expression KW - Gynogenesis KW - Hybrid speciation KW - Meiosis KW - Poecilia formosa KW - Poecilia latipinna KW - Poecilia mexicana Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-409299 ER -