@phdthesis{Wenk2020, author = {Wenk, Sebastian}, title = {Engineering formatotrophic growth in Escherichia coli}, school = {Universit{\"a}t Potsdam}, pages = {V, 107}, year = {2020}, abstract = {To meet the demands of a growing world population while reducing carbon dioxide (CO2) emissions, it is necessary to capture CO2 and convert it into value-added compounds. In recent years, metabolic engineering of microbes has gained strong momentum as a strategy for the production of valuable chemicals. As common microbial feedstocks like glucose directly compete with human consumption, the one carbon (C1) compound formate was suggested as an alternative feedstock. Formate can be easily produced by various means including electrochemical reduction of CO2 and could serve as a feedstock for microbial production, hence presenting a novel entry point for CO2 to the biosphere and a storage option for excess electricity. Compared to the gaseous molecule CO2, formate is a highly soluble compound that can be easily handled and stored. It can serve as a carbon and energy source for natural formatotrophs, but these microbes are difficult to cultivate and engineer. In this work, I present the results of several projects that aim to establish efficient formatotrophic growth of E. coli - which cannot naturally grow on formate - via synthetic formate assimilation pathways. In the first study, I establish a workflow for growth-coupled metabolic engineering of E. coli. I demonstrate this approach by presenting an engineering scheme for the PFL-threonine cycle, a synthetic pathway for anaerobic formate assimilation in E. coli. The described methods are intended to create a standardized toolbox for engineers that aim to establish novel metabolic routes in E. coli and related organisms. The second chapter presents a study on the catalytic efficiency of C1-oxidizing enzymes in vivo. As formatotrophic growth requires generation of both energy and biomass from formate, the engineered E. coli strains need to be equipped with a highly efficient formate dehydrogenase, which provides reduction equivalents and ATP for formate assimilation. I engineered a strain that cannot generate reducing power and energy for cellular growth, when fed on acetate. Under this condition, the strain depends on the introduction of an enzymatic system for NADH regeneration, which could further produce ATP via oxidative phosphorylation. I show that the strain presents a valuable testing platform for C1-oxidizing enzymes by testing different NAD-dependent formate and methanol dehydrogenases in the energy auxotroph strain. Using this platform, several candidate enzymes with high in vivo activity, were identified and characterized as potential energy-generating systems for synthetic formatotrophic or methylotrophic growth in E. coli.   In the third chapter, I present the establishment of the serine threonine cycle (STC) - a synthetic formate assimilation pathway - in E. coli. In this pathway, formate is assimilated via formate tetrahydrofolate ligase (FtfL) from Methylobacterium extorquens (M. extorquens). The carbon from formate is attached to glycine to produce serine, which is converted into pyruvate entering central metabolism. Via the natural threonine synthesis and cleavage route, glycine is regenerated and acetyl-CoA is produced as the pathway product. I engineered several selection strains that depend on different STC modules for growth and determined key enzymes that enable high flux through threonine synthesis and cleavage. I could show that expression of an auxiliary formate dehydrogenase was required to achieve growth via threonine synthesis and cleavage on pyruvate. By overexpressing most of the pathway enzymes from the genome, and applying adaptive laboratory evolution, growth on glycine and formate was achieved, indicating the activity of the complete cycle. The fourth chapter shows the establishment of the reductive glycine pathway (rGP) - a short, linear formate assimilation route - in E. coli. As in the STC, formate is assimilated via M. extorquens FtfL. The C1 from formate is condensed with CO2 via the reverse reaction of the glycine cleavage system to produce glycine. Another carbon from formate is attached to glycine to form serine, which is assimilated into central metabolism via pyruvate. The engineered E. coli strain, expressing most of the pathway genes from the genome, can grow via the rGP with formate or methanol as a sole carbon and energy source.}, language = {en} } @phdthesis{Schimpf2020, author = {Schimpf, Stefan}, title = {Herkunft und Ablagerungsmilieu quart{\"a}rer Sedimente im Einzugsgebiet des Heihe, NW China}, school = {Universit{\"a}t Potsdam}, pages = {xi, 186}, year = {2020}, abstract = {Der zentralasiatische Naturraum, wie er sich uns heute pr{\"a}sentiert, ist das Ergebnis eines Zusammenwirkens vieler verschiedener Faktoren {\"u}ber Jahrmillionen hinweg. Im aktuellen Kontext des Klimawandels zeigt sich jedoch, wie stark sich Stofffl{\"u}sse auch kurzfristig {\"a}ndern und dabei das Gesicht der Landschaft verwandeln k{\"o}nnen. Die Gobi-W{\"u}ste in der Inneren Mongolei (China), als Teil der gleichnamigen Trockenregionen Nordwestchinas, ist aufgrund der Ausgestaltung ihrer landschaftspr{\"a}genden Elemente sowie ihrer Landschaftsdynamik, im Zusammenhang mit der Lage zum Tibet-Plateau, in den Fokus der klimageschichtlichen Grundlagenforschung ger{\"u}ckt. Als großes Langzeitarchiv unterschiedlichster fluvialer, lakustriner und {\"a}olischer Sedimente stellt sie eine bedeutende Lokalit{\"a}t zur Rekonstruktion von lokalen und regionalen Stofffl{\"u}ssen dar.. Andererseits ist die Gobi-W{\"u}ste zugleich auch eine bedeutende Quelle f{\"u}r den {\"u}berregionalen Staubtransport, da sie aufgrund der klimatischen Bedingungen insbesondere der Erosion durch Ausblasung preisgegeben wird. Vor diesem Hintergrund erfolgten zwischen 2011 und 2014, im Rahmen des BMBF-Verbundprogramms WTZ Zentralasien - Monsundynamik \& Geo{\"o}kosysteme (F{\"o}rderkennzeichen 03G0814), mehrere deutsch-chinesische Expeditionen in das Ejina-Becken (Innere Mongolei) und das Qilian Shan-Vorland. Im Zuge dieser Expeditionen wurden f{\"u}r eine Bestimmung potenzieller Sedimentquellen erstmals zahlreiche Oberfl{\"a}chenproben aus dem gesamten Einzugsgebiet des Heihe (schwarzer Fluss) gesammelt. Zudem wurden mit zwei Bohrungen im inneren des Ejina-Beckens, erg{\"a}nzende Sedimentbohrkerne zum bestehenden Bohrkern D100 (siehe W{\"u}nnemann (2005)) abgeteuft, um weit reichende, erg{\"a}nzende Informationen zur Landschaftsgeschichte und zum {\"u}berregionalen Sedimenttransfer zu erhalten. Gegenstand und Ziel der vorliegenden Doktorarbeit ist die sedimentologisch-mineralogische Charakterisierung des Untersuchungsgebietes in Bezug auf potenzielle Sedimentquellen und Stofffl{\"u}sse des Ejina-Beckens sowie die Rekonstruktion der Ablagerungsgeschichte eines dort erbohrten, 19m langen Sedimentbohrkerns (GN100). Schwerpunkt ist hierbei die Kl{\"a}rung der Sedimentherkunft innerhalb des Bohrkerns sowie die Ausweisung von Herkunftssignalen und m{\"o}glichen Sedimentquellen bzw. Sedimenttransportpfaden. Die methodische Herangehensweise basiert auf einem Multi-Proxy-Ansatz zur Charakterisierung der klastischen Sedimentfazies anhand von Gel{\"a}ndebeobachtungen, lithologisch-granulometrischen und mineralogisch-geochemischen Analysen sowie statistischen Verfahren. F{\"u}r die mineralogischen Untersuchungen der Sedimente wurde eine neue, rasterelektronenmikroskopische Methode zur automatisierten Partikelanalyse genutzt und den traditionellen Methoden gegen{\"u}bergestellt. Die synoptische Betrachtung der granulometrischen, geochemischen und mineralogischen Befunde der Oberfl{\"a}chensedimente ergibt f{\"u}r das Untersuchungsgebiet ein logisches Kaskadenmodell mit immer wiederkehrenden Prozessbereichen und {\"a}hnlichen Prozesssignalen. Die umfangreichen granulometrischen Analysen deuten dabei auf abnehmende Korngr{\"o}ßen mit zunehmender Entfernung vom Qilian Shan hin und erm{\"o}glichen die Identifizierung von vier texturellen Signalen: den fluvialen Sanden, den D{\"u}nensanden, den Stillwassersedimenten und St{\"a}uben. Diese Ergebnisse k{\"o}nnen als Interpretationsgrundlage f{\"u}r die Korngr{\"o}ßenanalysen des Bohrkerns genutzt werden. Somit ist es m{\"o}glich, die Ablagerungsgeschichte der Bohrkernsedimente zu rekonstruieren und in Verbindung mit eigenen und literaturbasierten Datierungen in einen Gesamtkontext einzuh{\"a}ngen. F{\"u}r das Untersuchungsgebiet werden somit vier Ablagerungsphasen ausgewiesen, die bis in die Zeit des letzten glazialen Maximums (LGM) zur{\"u}ckreichen. W{\"a}hrend dieser Ablagerungsphasen kam es im Zuge unterschiedlicher Aktivit{\"a}ts- und Stabilit{\"a}tsphasen zu einer kontinuierlichen Progradation und {\"U}berpr{\"a}gung des Schwemmf{\"a}chers. Eine besonders aktive Phase kann zwischen 8 ka und 4 ka BP festgestellt werden, w{\"a}hrend der es aufgrund zunehmender fluvialer Aktivit{\"a}ten zu einer deutlich verst{\"a}rkten Schwemmf{\"a}cherdynamik gekommen zu sein scheint. In den Abschnitten davor und danach waren es vor allem {\"a}olische Prozesse, die zu einer {\"U}berpr{\"a}gung des Schwemmf{\"a}chers gef{\"u}hrt haben. Hinsichtlich der mineralogischen Herkunftssignale gibt es eine große Variabilit{\"a}t. Dies spiegelt die enorme Heterogenit{\"a}t der Geologie des Untersuchungsgebietes wider, wodurch die r{\"a}umlichen Signale nicht sehr stark ausgepr{\"a}gt sind. Dennoch, k{\"o}nnen f{\"u}r das Einzugsgebiet drei gr{\"o}ßere Bereiche deklariert werden, die als Herkunftsgebiet in Frage kommen. Das {\"o}stliche Qilian Shan Vorland zeichnet sich dabei durch deutlich h{\"o}here Chloritgehalte als prim{\"a}re Quelle f{\"u}r die Sedimente im Ejina-Becken aus. Sie unterscheiden sich insbesondere durch stark divergierende Chloritgehalte in der Tonmineral- und Gesamtmineralfraktion, was das {\"o}stliche Qilian Shan Vorland als prim{\"a}re Quelle f{\"u}r die Sedimente im Ejina-Becken auszeichnet. Dies steht in Zusammenhang mit den Gr{\"u}nschiefern, Ophioliten und Serpentiniten in diesem Bereich. Geochemisch deutet vor allem das Cr/Rb-Verh{\"a}ltnis eine große Variabilit{\"a}t innerhalb des Einzugsgebietes an. Auch hier ist es das {\"o}stliche Vorland, welches aufgrund seines hohen Anteils an mafischen Gesteinen reich an Chromiten und Spinellen ist und sich somit vom restlichen Untersuchungsgebiet abhebt. Die zeitliche aber auch die generelle Variabilit{\"a}t der Sedimentherkunft l{\"a}sst sich in den Bohrkernsedimenten nicht so deutlich nachzeichnen. Die mineralogisch-sedimentologischen Eigenschaften der erbohrten klastischen Sedimente zeugen zwar von zwischenzeitlichen {\"A}nderungen bei der Sedimentherkunft, diese sind jedoch nicht so deutlich ausgepr{\"a}gt, wie es die Quellsignale in den Oberfl{\"a}chensedimenten vermuten lassen. Ein Grund daf{\"u}r scheint die starke Vermischung unterschiedlichster Sedimente w{\"a}hrend des Transportes zu sein. Die Kombination der Korngr{\"o}ßenergebnisse mit den Befunden der Gesamt- und Schwermineralogie deuten darauf hin, dass es zwischenzeitlich eine Phase mit {\"u}berwiegend {\"a}olischen Prozessen gegeben hat, die mit einem Sedimenteintrag aus dem westlichen Bei Shan in Verbindung stehen. Neben der Zunahme ultrastabiler Schwerminerale wie Zirkon und Granat und der Abnahme opaker Schwerminerale, weisen vor allem die heutigen Verh{\"a}ltnisse darauf hin. Der Vergleich der traditionellen Schwermineralanalyse mit der Computer-Controlled-Scanning-Electron-Microscopy (kurz: CCSEM), die eine automatisierte Partikelauswertung der Proben erm{\"o}glicht, zeigt den deutlichen Vorteil der modernen Analysemethode. Neben einem zeitlichen Vorteil, den man durch die automatisierte Abarbeitung der vorbereiteten Proben erlangen kann, steht vor allem die deutlich gr{\"o}ßere statistische Signifikanz des Ergebnisses im Vordergrund. Zudem k{\"o}nnen mit dieser Methode auch chemische Variet{\"a}ten einiger Schwerminerale bestimmt werden, die eine noch feinere Klassifizierung und sicherere Aussagen zu einer m{\"o}glichen Sedimentherkunft erm{\"o}glichen. Damit ergeben sich außerdem verbesserte Aussagen zu Zusammensetzungen und Entstehungsprozessen der abgelagerten Sedimente. Die Studie verdeutlicht, dass die Sedimentherkunft innerhalb des Untersuchungsgebietes sowie die ablaufenden Prozesse zum Teil stark von lokalen Gegebenheiten abh{\"a}ngen. Die Heterogenit{\"a}t der Geologie und die Gr{\"o}ße des Einzugsgebietes sowie die daraus resultierende Komplexit{\"a}t der Sedimentgenese, machen exakte Zuordnungen zu klar definierten Sedimentquellen sehr schwer. Dennoch zeigen die Ergebnisse, dass die Sedimentzufuhr in das Ejina-Becken in erster Linie durch fluviale klastische Sedimente des Heihe aus dem Qilian Shan erfolgt sein muss. Die Untersuchungsergebnisse zeigen jedoch ebenso die Notwendigkeit einer erg{\"a}nzenden Bearbeitung angrenzender Untersuchungsgebiete, wie beispielsweise den Gobi-Altai im Norden oder den Beishan im Westen, sowie die Verdichtung der Oberfl{\"a}chenbeprobung zur feineren Aufl{\"o}sung von lokalen Sedimentquellen.}, language = {de} } @article{TofeldeBufeTurowski2022, author = {Tofelde, Stefanie and Bufe, Aaron and Turowski, Jens M.}, title = {Hillslope Sediment Supply Limits Alluvial Valley Width}, series = {AGU Advances}, journal = {AGU Advances}, publisher = {American Geophysical Union (AGU); Wiley}, address = {Hoboken, New Jersey, USA}, issn = {2576-604X}, doi = {10.1029/2021AV000641}, pages = {20}, year = {2022}, abstract = {River-valley morphology preserves information on tectonic and climatic conditions that shape landscapes. Observations suggest that river discharge and valley-wall lithology are the main controls on valley width. Yet, current models based on these observations fail to explain the full range of cross-sectional valley shapes in nature, suggesting hitherto unquantified controls on valley width. In particular, current models cannot explain the existence of paired terrace sequences that form under cyclic climate forcing. Paired river terraces are staircases of abandoned floodplains on both valley sides, and hence preserve past valley widths. Their formation requires alternating phases of predominantly river incision and predominantly lateral planation, plus progressive valley narrowing. While cyclic Quaternary climate changes can explain shifts between incision and lateral erosion, the driving mechanism of valley narrowing is unknown. Here, we extract valley geometries from climatically formed, alluvial river-terrace sequences and show that across our dataset, the total cumulative terrace height (here: total valley height) explains 90\%-99\% of the variance in valley width at the terrace sites. This finding suggests that valley height, or a parameter that scales linearly with valley height, controls valley width in addition to river discharge and lithology. To explain this valley-width-height relationship, we reformulate existing valley-width models and suggest that, when adjusting to new boundary conditions, alluvial valleys evolve to a width at which sediment removal from valley walls matches lateral sediment supply from hillslope erosion. Such a hillslope-channel coupling is not captured in current valley-evolution models. Our model can explain the existence of paired terrace sequences under cyclic climate forcing and relates valley width to measurable field parameters. Therefore, it facilitates the reconstruction of past climatic and tectonic conditions from valley topography.}, language = {en} } @article{MiklashevskyFischerLindemann2022, author = {Miklashevsky, Alex and Fischer, Martin H. and Lindemann, Oliver}, title = {Spatial-numerical associations without a motor response? Grip force says 'Yes'}, series = {Acta Psychologica}, volume = {231}, journal = {Acta Psychologica}, publisher = {Elsevier}, address = {Amsterdam}, issn = {1873-6297}, doi = {10.1016/j.actpsy.2022.103791}, pages = {1 -- 17}, year = {2022}, abstract = {In numerical processing, the functional role of Spatial-Numerical Associations (SNAs, such as the association of smaller numbers with left space and larger numbers with right space, the Mental Number Line hypothesis) is debated. Most studies demonstrate SNAs with lateralized responses, and there is little evidence that SNAs appear when no response is required. We recorded passive holding grip forces in no-go trials during number processing. In Experiment 1, participants performed a surface numerical decision task ("Is it a number or a letter?"). In Experiment 2, we used a deeper semantic task ("Is this number larger or smaller than five?"). Despite instruction to keep their grip force constant, participants' spontaneous grip force changed in both experiments: Smaller numbers led to larger force increase in the left than in the right hand in the numerical decision task (500-700 ms after stimulus onset). In the semantic task, smaller numbers again led to larger force increase in the left hand, and larger numbers increased the right-hand holding force. This effect appeared earlier (180 ms) and lasted longer (until 580 ms after stimulus onset). This is the first demonstration of SNAs with passive holding force. Our result suggests that (1) explicit motor response is not a prerequisite for SNAs to appear, and (2) the timing and strength of SNAs are task-dependent. (216 words).}, language = {en} } @techreport{KienbaumFischerPassmann2023, type = {Working Paper}, author = {Kienbaum, Janna and Fischer, Patryk and Passmann, Sven}, title = {Forschungsdatenmanagement bei personenbezogenen Daten}, doi = {10.5281/zenodo.7428524}, pages = {18}, year = {2023}, abstract = {Das Dokument "Forschungsdatenmanagement bei personenbezogenen Daten - eine Handreichung" versammelt zentrale Inhalte, Verweise und Vorgehensweisen f{\"u}r Forscher*innen, die in einer Studie personenbezogene Daten erheben und diese verarbeiten, archivieren oder ver{\"o}ffentlichen wollen. Die Handreichung verweist an den entsprechenden Abschnitten auf weiterf{\"u}hrende Materialien wie insbesondere die Handreichung „Datenschutz" des Rats f{\"u}r die Sozial-, Verhaltens-, Bildungs- und Wirtschaftswissenschaften (RatSWD).}, language = {de} } @techreport{KienbaumWuerflFavella2022, type = {Working Paper}, author = {Kienbaum, Janna and W{\"u}rfl, Katja and Favella, Gianpiero}, title = {Leitfaden f{\"u}r einen qualitativen Methoden- und Feldbericht}, doi = {10.5281/zenodo.7247993}, pages = {12}, year = {2022}, abstract = {Der Leitfaden f{\"u}r einen qualitativen Methoden- und Feldbericht ist im Rahmen des DFG-Verbundprojektes "FDNext" (2020-2023) entstanden und dient als Orientierungshilfe f{\"u}r die Dokumentation erhobener Daten mit dem Schwerpunkt auf die qualitative Bildungsforschung.}, language = {de} } @article{LindnerMoellerHildebrandtetal.2022, author = {Lindner, Nadja and Moeller, Korbinian and Hildebrandt, Frauke and Hasselhorn, Marcus and Lonnemann, Jan}, title = {Children's use of egocentric reference frames in spatial language is related to their numerical magnitude understanding}, series = {Frontiers in Psychology}, journal = {Frontiers in Psychology}, publisher = {Frontiers}, address = {Lausanne, Schweiz}, issn = {1664-1078}, doi = {10.3389/fpsyg.2022.943191}, pages = {1 -- 13}, year = {2022}, abstract = {Numerical magnitude information is assumed to be spatially represented in the form of a mental number line defined with respect to a body-centred, egocentric frame of reference. In this context, spatial language skills such as mastery of verbal descriptions of spatial position (e.g., in front of, behind, to the right/left) have been proposed to be relevant for grasping spatial relations between numerical magnitudes on the mental number line. We examined 4- to 5-year-old's spatial language skills in tasks that allow responses in egocentric and allocentric frames of reference, as well as their relative understanding of numerical magnitude (assessed by a number word comparison task). In addition, we evaluated influences of children's absolute understanding of numerical magnitude assessed by their number word comprehension (montring different numbers using their fingers) and of their knowledge on numerical sequences (determining predecessors and successors as well as identifying missing dice patterns of a series). Results indicated that when considering responses that corresponded to the egocentric perspective, children's spatial language was associated significantly with their relative numerical magnitude understanding, even after controlling for covariates, such as children's SES, mental rotation skills, and also absolute magnitude understanding or knowledge on numerical sequences. This suggests that the use of egocentric reference frames in spatial language may facilitate spatial representation of numbers along a mental number line and thus seem important for preschoolers' relative understanding of numerical magnitude.}, language = {en} } @article{OgunkolaGuiraudieCaprazFeronetal.2023, author = {Ogunkola, Moses Olalekan and Guiraudie-Capraz, Gaelle and F{\´e}ron, Fran{\c{c}}ois and Leimk{\"u}hler, Silke}, title = {The Human Mercaptopyruvate Sulfurtransferase TUM1 Is Involved in Moco Biosynthesis, Cytosolic tRNA Thiolation and Cellular Bioenergetics in Human Embryonic Kidney Cells}, series = {Biomolecules}, volume = {13}, journal = {Biomolecules}, edition = {1}, publisher = {MDPI}, address = {Basel, Schweiz}, issn = {2218-273X}, doi = {10.3390/biom13010144}, pages = {1 -- 23}, year = {2023}, abstract = {Sulfur is an important element that is incorporated into many biomolecules in humans. The incorporation and transfer of sulfur into biomolecules is, however, facilitated by a series of different sulfurtransferases. Among these sulfurtransferases is the human mercaptopyruvate sulfurtransferase (MPST) also designated as tRNA thiouridine modification protein (TUM1). The role of the human TUM1 protein has been suggested in a wide range of physiological processes in the cell among which are but not limited to involvement in Molybdenum cofactor (Moco) biosynthesis, cytosolic tRNA thiolation and generation of H2S as signaling molecule both in mitochondria and the cytosol. Previous interaction studies showed that TUM1 interacts with the L-cysteine desulfurase NFS1 and the Molybdenum cofactor biosynthesis protein 3 (MOCS3). Here, we show the roles of TUM1 in human cells using CRISPR/Cas9 genetically modified Human Embryonic Kidney cells. Here, we show that TUM1 is involved in the sulfur transfer for Molybdenum cofactor synthesis and tRNA thiomodification by spectrophotometric measurement of the activity of sulfite oxidase and liquid chromatography quantification of the level of sulfur-modified tRNA. Further, we show that TUM1 has a role in hydrogen sulfide production and cellular bioenergetics.}, language = {en} } @article{MarggrafLindeckeVoigtetal.2023, author = {Marggraf, Lara Christin and Lindecke, Oliver and Voigt, Christian C. and Pētersons, Gunārs and Voigt-Heucke, Silke Luise}, title = {Nathusius' bats, Pipistrellus nathusii, bypass mating opportunities of their own species, but respond to foraging heterospecifics on migratory transit flights}, series = {Frontiers in Ecology and Evolution}, journal = {Frontiers in Ecology and Evolution}, publisher = {Frontiers}, address = {Lausanne, Schweiz}, issn = {2296-701X}, doi = {10.3389/fevo.2022.908560}, pages = {1 -- 10}, year = {2023}, abstract = {In late summer, migratory bats of the temperate zone face the challenge of accomplishing two energy-demanding tasks almost at the same time: migration and mating. Both require information and involve search efforts, such as localizing prey or finding potential mates. In non-migrating bat species, playback studies showed that listening to vocalizations of other bats, both con-and heterospecifics, may help a recipient bat to find foraging patches and mating sites. However, we are still unaware of the degree to which migrating bats depend on con-or heterospecific vocalizations for identifying potential feeding or mating opportunities during nightly transit flights. Here, we investigated the vocal responses of Nathusius' pipistrelle bats, Pipistrellus nathusii, to simulated feeding and courtship aggregations at a coastal migration corridor. We presented migrating bats either feeding buzzes or courtship calls of their own or a heterospecific migratory species, the common noctule, Nyctalus noctula. We expected that during migratory transit flights, simulated feeding opportunities would be particularly attractive to bats, as well as simulated mating opportunities which may indicate suitable roosts for a stopover. However, we found that when compared to the natural silence of both pre-and post-playback phases, bats called indifferently during the playback of conspecific feeding sounds, whereas P. nathusii echolocation call activity increased during simulated feeding of N. noctula. In contrast, the call activity of P. nathusii decreased during the playback of conspecific courtship calls, while no response could be detected when heterospecific call types were broadcasted. Our results suggest that while on migratory transits, P. nathusii circumnavigate conspecific mating aggregations, possibly to save time or to reduce the risks associated with social interactions where aggression due to territoriality might be expected. This avoidance behavior could be a result of optimization strategies by P. nathusii when performing long-distance migratory flights, and it could also explain the lack of a response to simulated conspecific feeding. However, the observed increase of activity in response to simulated feeding of N. noctula, suggests that P. nathusii individuals may be eavesdropping on other aerial hawking insectivorous species during migration, especially if these occupy a slightly different foraging niche.}, language = {en} } @article{ReegStriglJeltsch2022, author = {Reeg, Jette and Strigl, Lea and Jeltsch, Florian}, title = {Agricultural buffer zone thresholds to safeguard functional bee diversity}, series = {Ecology and Evolution}, volume = {12}, journal = {Ecology and Evolution}, edition = {3}, publisher = {Wiley Online Library}, address = {Hoboken, New Jersey, USA}, issn = {2045-7758}, doi = {10.1002/ece3.8748}, pages = {1 -- 17}, year = {2022}, abstract = {Wild bee species are important pollinators in agricultural landscapes. However, population decline was reported over the last decades and is still ongoing. While agricultural intensification is a major driver of the rapid loss of pollinating species, transition zones between arable fields and forest or grassland patches, i.e., agricultural buffer zones, are frequently mentioned as suitable mitigation measures to support wild bee populations and other pollinator species. Despite the reported general positive effect, it remains unclear which amount of buffer zones is needed to ensure a sustainable and permanent impact for enhancing bee diversity and abundance. To address this question at a pollinator community level, we implemented a process-based, spatially explicit simulation model of functional bee diversity dynamics in an agricultural landscape. More specifically, we introduced a variable amount of agricultural buffer zones (ABZs) at the transition of arable to grassland, or arable to forest patches to analyze the impact on bee functional diversity and functional richness. We focused our study on solitary bees in a typical agricultural area in the Northeast of Germany. Our results showed positive effects with at least 25\% of virtually implemented agricultural buffer zones. However, higher amounts of ABZs of at least 75\% should be considered to ensure a sufficient increase in Shannon diversity and decrease in quasi-extinction risks. These high amounts of ABZs represent effective conservation measures to safeguard the stability of pollination services provided by solitary bee species. As the model structure can be easily adapted to other mobile species in agricultural landscapes, our community approach offers the chance to compare the effectiveness of conservation measures also for other pollinator communities in future.}, language = {en} } @article{LiebeDordevicKaufmannetal.2022, author = {Liebe, Thomas and Dordevic, Milos and Kaufmann, J{\"o}rn and Avetisyan, Araks and Skalej, Martin and M{\"u}ller, Notger Germar}, title = {Investigation of the functional pathogenesis of mild cognitive impairment by localisation-based locus coeruleus resting-state fMRI}, series = {Human Brain Mapping}, volume = {43}, journal = {Human Brain Mapping}, edition = {18}, publisher = {Wiley}, address = {New York, NY, USA}, issn = {1097-0193}, doi = {10.1002/hbm.26039}, pages = {5630 -- 5642}, year = {2022}, abstract = {Dementia as one of the most prevalent diseases urges for a better understanding of the central mechanisms responsible for clinical symptoms, and necessitates improvement of actual diagnostic capabilities. The brainstem nucleus locus coeruleus (LC) is a promising target for early diagnosis because of its early structural alterations and its relationship to the functional disturbances in the patients. In this study, we applied our improved method of localisation-based LC resting-state fMRI to investigate the differences in central sensory signal processing when comparing functional connectivity (fc) of a patient group with mild cognitive impairment (MCI, n = 28) and an age-matched healthy control group (n = 29). MCI and control participants could be differentiated in their Mini-Mental-State-Examination (MMSE) scores (p < .001) and LC intensity ratio (p = .010). In the fMRI, LC fc to anterior cingulate cortex (FDR p < .001) and left anterior insula (FDR p = .012) was elevated, and LC fc to right temporoparietal junction (rTPJ, FDR p = .012) and posterior cingulate cortex (PCC, FDR p = .021) was decreased in the patient group. Importantly, LC to rTPJ connectivity was also positively correlated to MMSE scores in MCI patients (p = .017). Furthermore, we found a hyperactivation of the left-insula salience network in the MCI patients. Our results and our proposed disease model shed new light on the functional pathogenesis of MCI by directing to attentional network disturbances, which could aid new therapeutic strategies and provide a marker for diagnosis and prediction of disease progression.}, language = {en} } @article{TiedemannIobbiNivolLeimkuehler2022, author = {Tiedemann, Kim and Iobbi-Nivol, Chantal and Leimk{\"u}hler, Silke}, title = {The Role of the Nucleotides in the Insertion of the bis-Molybdopterin Guanine Dinucleotide Cofactor into apo-Molybdoenzymes}, series = {Molecules}, volume = {27}, journal = {Molecules}, edition = {9}, publisher = {MDPI}, address = {Basel, Schweiz}, issn = {1420-3049}, doi = {10.3390/molecules27092993}, pages = {1 -- 15}, year = {2022}, abstract = {The role of the GMP nucleotides of the bis-molybdopterin guanine dinucleotide (bis-MGD) cofactor of the DMSO reductase family has long been a subject of discussion. The recent characterization of the bis-molybdopterin (bis-Mo-MPT) cofactor present in the E. coli YdhV protein, which differs from bis-MGD solely by the absence of the nucleotides, now enables studying the role of the nucleotides of bis-MGD and bis-MPT cofactors in Moco insertion and the activity of molybdoenzymes in direct comparison. Using the well-known E. coli TMAO reductase TorA as a model enzyme for cofactor insertion, we were able to show that the GMP nucleotides of bis-MGD are crucial for the insertion of the bis-MGD cofactor into apo-TorA.}, language = {en} } @article{WeithoffBell2022, author = {Weithoff, Guntram and Bell, Elanor Margaret}, title = {Complex Trophic Interactions in an Acidophilic Microbial Community}, series = {Microorganisms}, volume = {10}, journal = {Microorganisms}, edition = {7}, publisher = {MDPI}, address = {Basel, Schweiz}, issn = {2076-2607}, doi = {10.3390/microorganisms10071340}, pages = {1 -- 10}, year = {2022}, abstract = {Extreme habitats often harbor specific communities that differ substantially from non-extreme habitats. In many cases, these communities are characterized by archaea, bacteria and protists, whereas the number of species of metazoa and higher plants is relatively low. In extremely acidic habitats, mostly prokaryotes and protists thrive, and only very few metazoa thrive, for example, rotifers. Since many studies have investigated the physiology and ecology of individual species, there is still a gap in research on direct, trophic interactions among extremophiles. To fill this gap, we experimentally studied the trophic interactions between a predatory protist (Actinophrys sol, Heliozoa) and its prey, the rotifers Elosa woralli and Cephalodella sp., the ciliate Urosomoida sp. and the mixotrophic protist Chlamydomonas acidophila (a green phytoflagellate, Chlorophyta). We found substantial predation pressure on all animal prey. High densities of Chlamydomonas acidophila reduced the predation impact on the rotifers by interfering with the feeding behaviour of A. sol. These trophic relations represent a natural case of intraguild predation, with Chlamydomonas acidophila being the common prey and the rotifers/ciliate and A. sol being the intraguild prey and predator, respectively. We further studied this intraguild predation along a resource gradient using Cephalodella sp. as the intraguild prey. The interactions among the three species led to an increase in relative rotifer abundance with increasing resource (Chlamydomonas) densities. By applying a series of laboratory experiments, we revealed the complexity of trophic interactions within a natural extremophilic community.}, language = {en} } @article{PrasseIversenLienhardetal.2022, author = {Prasse, Paul and Iversen, Pascal and Lienhard, Matthias and Thedinga, Kristina and Herwig, Ralf and Scheffer, Tobias}, title = {Pre-Training on In Vitro and Fine-Tuning on Patient-Derived Data Improves Deep Neural Networks for Anti-Cancer Drug-Sensitivity Prediction}, series = {MDPI}, volume = {14}, journal = {MDPI}, edition = {16}, publisher = {MDPI}, address = {Basel, Schweiz}, issn = {2072-6694}, doi = {10.3390/cancers14163950}, pages = {1 -- 14}, year = {2022}, abstract = {Large-scale databases that report the inhibitory capacities of many combinations of candidate drug compounds and cultivated cancer cell lines have driven the development of preclinical drug-sensitivity models based on machine learning. However, cultivated cell lines have devolved from human cancer cells over years or even decades under selective pressure in culture conditions. Moreover, models that have been trained on in vitro data cannot account for interactions with other types of cells. Drug-response data that are based on patient-derived cell cultures, xenografts, and organoids, on the other hand, are not available in the quantities that are needed to train high-capacity machine-learning models. We found that pre-training deep neural network models of drug sensitivity on in vitro drug-sensitivity databases before fine-tuning the model parameters on patient-derived data improves the models' accuracy and improves the biological plausibility of the features, compared to training only on patient-derived data. From our experiments, we can conclude that pre-trained models outperform models that have been trained on the target domains in the vast majority of cases.}, language = {en} } @article{OmaneHoehle2020, author = {Omane, Paul Okyere and H{\"o}hle, Barbara}, title = {Acquiring syntactic variability}, series = {Frontiers in communication}, volume = {2021}, journal = {Frontiers in communication}, publisher = {Frontiers Media}, address = {Lausanne, Schweiz}, issn = {2297-900X}, doi = {10.3389/fcomm.2021.604951}, pages = {15}, year = {2020}, abstract = {This paper investigates the predictions of the Derivational Complexity Hypothesis by studying the acquisition of wh-questions in 4- and 5-year-old Akan-speaking children in an experimental approach using an elicited production and an elicited imitation task. Akan has two types of wh-question structures (wh-in-situ and wh-ex-situ questions), which allows an investigation of children's acquisition of these two question structures and their preferences for one or the other. Our results show that adults prefer to use wh-ex-situ questions over wh-in-situ questions. The results from the children show that both age groups have the two question structures in their linguistic repertoire. However, they differ in their preferences in usage in the elicited production task: while the 5-year-olds preferred the wh-in-situ structure over the wh-ex-situ structure, the 4-year-olds showed a selective preference for the wh-in-situ structure in who-questions. These findings suggest a developmental change in wh-question preferences in Akan-learning children between 4 and 5 years of age with a so far unobserved u-shaped developmental pattern. In the elicited imitation task, all groups showed a strong tendency to maintain the structure of in-situ and ex-situ questions in repeating grammatical questions. When repairing ungrammatical ex-situ questions, structural changes to grammatical in-situ questions were hardly observed but the insertion of missing morphemes while keeping the ex-situ structure. Together, our findings provide only partial support for the Derivational Complexity Hypothesis.}, language = {en} } @article{DordevicHoelzerRussoetal.2022, author = {Dordevic, Milos and H{\"o}lzer, Sonja and Russo, Augusta and Garc{\´i}a Alanis, Jos{\´e} Carlos and M{\"u}ller, Notger Germar}, title = {The Role of the Precuneus in Human Spatial Updating in a Real Environment Setting—A cTBS Study}, series = {Life}, volume = {12}, journal = {Life}, edition = {8}, publisher = {MDPI}, address = {Basel, Schweiz}, issn = {2075-1729}, doi = {10.3390/life12081239}, pages = {1 -- 13}, year = {2022}, abstract = {As we move through an environment, we update positions of our body relative to other objects, even when some objects temporarily or permanently leave our field of view—this ability is termed egocentric spatial updating and plays an important role in everyday life. Still, our knowledge about its representation in the brain is still scarce, with previous studies using virtual movements in virtual environments or patients with brain lesions suggesting that the precuneus might play an important role. However, whether this assumption is also true when healthy humans move in real environments where full body-based cues are available in addition to the visual cues typically used in many VR studies is unclear. Therefore, in this study we investigated the role of the precuneus in egocentric spatial updating in a real environment setting in 20 healthy young participants who underwent two conditions in a cross-over design: (a) stimulation, achieved through applying continuous theta-burst stimulation (cTBS) to inhibit the precuneus and (b) sham condition (activated coil turned upside down). In both conditions, participants had to walk back with blindfolded eyes to objects they had previously memorized while walking with open eyes. Simplified trials (without spatial updating) were used as control condition, to make sure the participants were not affected by factors such as walking blindfolded, vestibular or working memory deficits. A significant interaction was found, with participants performing better in the sham condition compared to real stimulation, showing smaller errors both in distance and angle. The results of our study reveal evidence of an important role of the precuneus in a real-environment egocentric spatial updating; studies on larger samples are necessary to confirm and further investigate this finding.}, language = {en} } @article{WestphalKalinowskiHoferichteretal.2022, author = {Westphal, Andrea and Kalinowski, Eva and Hoferichter, Clara Josepha and Vock, Miriam}, title = {K-12 teachers' stress and burnout during the COVID-19 pandemic: A systematic review}, series = {Frontiers in Psychology}, journal = {Frontiers in Psychology}, publisher = {Frontiers}, address = {Lausanne, Schweiz}, issn = {1664-1078}, doi = {10.3389/fpsyg.2022.920326}, pages = {1 -- 29}, year = {2022}, abstract = {We present the first systematic literature review on stress and burnout in K-12 teachers during the COVID-19 pandemic. Based on a systematic literature search, we identified 17 studies that included 9,874 K-12 teachers from around the world. These studies showed some indication that burnout did increase during the COVID-19 pandemic. There were, however, almost no differences in the levels of stress and burnout experienced by K-12 teachers compared to individuals employed in other occupational fields. School principals' leadership styles emerged as an organizational characteristic that is highly relevant for K-12 teachers' levels of stress and burnout. Individual teacher characteristics associated with burnout were K-12 teachers' personality, self-efficacy in online teaching, and perceived vulnerability to COVID-19. In order to reduce stress, there was an indication that stress-management training in combination with training in technology use for teaching may be superior to stress-management training alone. Future research needs to adopt more longitudinal designs and examine the interplay between individual and organizational characteristics in the development of teacher stress and burnout during the COVID-19 pandemic and beyond.}, language = {en} } @article{KruegerFoersterTrauthetal.2021, author = {Kr{\"u}ger, Johanna and Foerster, Verena Elisabeth and Trauth, Martin H. and Hofreiter, Michael and Tiedemann, Ralph}, title = {Exploring the Past Biosphere of Chew Bahir/Southern Ethiopia: Cross-Species Hybridization Capture of Ancient Sedimentary DNA from a Deep Drill Core}, series = {Frontiers in Earth Science}, journal = {Frontiers in Earth Science}, publisher = {Frontiers in Earth Science}, address = {Lausanne, Schweiz}, issn = {2296-6463}, doi = {10.3389/feart.2021.683010}, pages = {1 -- 20}, year = {2021}, abstract = {Eastern Africa has been a prime target for scientific drilling because it is rich in key paleoanthropological sites as well as in paleolakes, containing valuable paleoclimatic information on evolutionary time scales. The Hominin Sites and Paleolakes Drilling Project (HSPDP) explores these paleolakes with the aim of reconstructing environmental conditions around critical episodes of hominin evolution. Identification of biological taxa based on their sedimentary ancient DNA (sedaDNA) traces can contribute to understand past ecological and climatological conditions of the living environment of our ancestors. However, sedaDNA recovery from tropical environments is challenging because high temperatures, UV irradiation, and desiccation result in highly degraded DNA. Consequently, most of the DNA fragments in tropical sediments are too short for PCR amplification. We analyzed sedaDNA in the upper 70 m of the composite sediment core of the HSPDP drill site at Chew Bahir for eukaryotic remnants. We first tested shotgun high throughput sequencing which leads to metagenomes dominated by bacterial DNA of the deep biosphere, while only a small fraction was derived from eukaryotic, and thus probably ancient, DNA. Subsequently, we performed cross-species hybridization capture of sedaDNA to enrich ancient DNA (aDNA) from eukaryotic remnants for paleoenvironmental analysis, using established barcoding genes (cox1 and rbcL for animals and plants, respectively) from 199 species that may have had relatives in the past biosphere at Chew Bahir. Metagenomes yielded after hybridization capture are richer in reads with similarity to cox1 and rbcL in comparison to metagenomes without prior hybridization capture. Taxonomic assignments of the reads from these hybridization capture metagenomes also yielded larger fractions of the eukaryotic domain. For reads assigned to cox1, inferred wet periods were associated with high inferred relative abundances of putative limnic organisms (gastropods, green algae), while inferred dry periods showed increased relative abundances for insects. These findings indicate that cross-species hybridization capture can be an effective approach to enhance the information content of sedaDNA in order to explore biosphere changes associated with past environmental conditions, enabling such analyses even under tropical conditions.}, language = {en} } @phdthesis{Kempa2004, author = {Kempa, Stefan}, title = {Analysen zur Stressantwort von Arabidopsis thaliana unter Schwefelmangelbedingungen : Studien zur Funktion der Dehydroascorbatreduktase in vivo}, address = {Potsdam}, pages = {123 S. : graph. Darst.}, year = {2004}, language = {de} } @article{BlockBonaventuraGrahnetal.2022, author = {Block, Andrea and Bonaventura, Klaus and Grahn, Patricia and Bestgen, Felix and Wippert, Pia-Maria}, title = {Stress management in pre-and postoperative care amongst practitioners and patients in cardiac catheterization laboratory: a study protocol}, series = {Frontiers in Cardiovascular Medicine}, volume = {9}, journal = {Frontiers in Cardiovascular Medicine}, publisher = {Frontiers}, address = {Lausanne, Schweiz}, issn = {2297-055X}, doi = {10.3389/fcvm.2022.830256}, pages = {1 -- 10}, year = {2022}, abstract = {Background: As the number of cardiac diseases continuously increases within the last years in modern society, so does cardiac treatment, especially cardiac catheterization. The procedure of a cardiac catheterization is challenging for both patients and practitioners. Several potential stressors of psychological or physical nature can occur during the procedure. The objective of the study is to develop and implement a stress management intervention for both practitioners and patients that aims to reduce the psychological and physical strain of a cardiac catheterization. Methods: The clinical study (DRKS00026624) includes two randomized controlled intervention trials with parallel groups, for patients with elective cardiac catheterization and practitioners at the catheterization lab, in two clinic sites of the Ernst-von-Bergmann clinic network in Brandenburg, Germany. Both groups received different interventions for stress management. The intervention for patients comprises a psychoeducational video with different stress management technics and additional a standardized medical information about the cardiac catheterization examination. The control condition includes the in hospitals practiced medical patient education before the examination (usual care). Primary and secondary outcomes are measured by physiological parameters and validated questionnaires, the day before (M1) and after (M2) the cardiac catheterization and at a postal follow-up 6 months later (M3). It is expected that people with standardized information and psychoeducation show reduced complications during cardiac catheterization procedures, better pre- and post-operative wellbeing, regeneration, mood and lower stress levels over time. The intervention for practitioners includes a Mindfulness-based stress reduction program (MBSR) over 8 weeks supervised by an experienced MBSR practitioner directly at the clinic site and an operative guideline. It is expected that practitioners with intervention show improved perceived and chronic stress, occupational health, physical and mental function, higher effort-reward balance, regeneration and quality of life. Primary and secondary outcomes are measured by physiological parameters (heart rate variability, saliva cortisol) and validated questionnaires and will be assessed before (M1) and after (M2) the MBSR intervention and at a postal follow-up 6 months later (M3). Physiological biomarkers in practitioners will be assessed before (M1) and after intervention (M2) on two work days and a two days off. Intervention effects in both groups (practitioners and patients) will be evaluated separately using multivariate variance analysis. Discussion: This study evaluates the effectiveness of two stress management intervention programs for patients and practitioners within cardiac catheter laboratory. Study will disclose strains during a cardiac catheterization affecting both patients and practitioners. For practitioners it may contribute to improved working conditions and occupational safety, preservation of earning capacity, avoidance of participation restrictions and loss of performance. In both groups less anxiety, stress and complications before and during the procedures can be expected. The study may add knowledge how to eliminate stressful exposures and to contribute to more (psychological) security, less output losses and exhaustion during work. The evolved stress management guidelines, training manuals and the standardized patient education should be transferred into clinical routines}, language = {en} }