TY - JOUR A1 - Gefen-Treves, Shany A1 - Kedem, Isaac A1 - Weiss, Gad A1 - Wagner, Dirk A1 - Tchernov, Dan A1 - Kaplan, Aaron T1 - Acclimation of a rocky shore algal reef builder Neogoniolithon sp. to changing illuminations JF - Limnology and oceanography e-lectures / Association for the Sciences of Limnology and Oceanography N2 - Vermetid reefs and rocky shores are hot spots of biodiversity, often referred to as the subtropical equivalent of coral reefs. The development of the ecosystem depends on the activity of several reef builders, including red crustose coralline algae (CCA) such as Neogoniolithon brassica-florida. Despite its importance, little is known about Neogoniolithon sp. acclimation to rapid changes in light intensity and corresponding photosynthetic activity. To overcome the large spatial variability in the light field (due to location and the porous nature of the rocks) we grew Neogoniolithon sp. on glass slides and characterized its photosynthetic performance in response to various light intensities by following O-2 exchange and fluorescence parameters. This was also performed on rock-inhabiting thalli collected from the east Mediterranean basin. Generally, maximal photosynthetic rate was reached when Neogoniolithon sp. thalli grown under low illumination (such as in protected niches where the light intensity can be as low as 1% of surface illumination) were examined. When exposed to light intensities higher than those experienced during growth, Neogoniolithon sp. activates adaptive/protective mechanisms such as state transition and nonphotochemical fluorescence quenching and increases the dark respiration thereafter. We find that the Fv/Fm parameter (variable/maximal fluorescence) is not suitable to assess photosynthetic performance in Neogoniolithon sp. and propose using instead an alternative parameter recently developed. Our findings help to clarify why Neogoniolithon sp. is usually observed in shaded niches along the reef surfaces. Y1 - 2019 U6 - https://doi.org/10.1002/lno.11245 SN - 0024-3590 SN - 1939-5590 VL - 65 IS - 1 SP - 27 EP - 36 PB - Wiley CY - Hoboken ER - TY - JOUR A1 - Nagakura, Toshiki A1 - Schubert, Florian A1 - Wagner, Dirk A1 - Kallmeyer, Jens T1 - Biological sulfate reduction in deep subseafloor sediment of Guaymas Basin JF - Frontiers in microbiology N2 - Sulfate reduction is the quantitatively most important process to degrade organic matter in anoxic marine sediment and has been studied intensively in a variety of settings. Guaymas Basin, a young marginal ocean basin, offers the unique opportunity to study sulfate reduction in an environment characterized by organic-rich sediment, high sedimentation rates, and high geothermal gradients (100-958 degrees C km(-1)). We measured sulfate reduction rates (SRR) in samples taken during the International Ocean Discovery Program (IODP) Expedition 385 using incubation experiments with radiolabeled (SO42-)-S-35 carried out at in situ pressure and temperature. The highest SRR (387 nmol cm(-3) d(-1)) was recorded in near-surface sediments from Site U1548C, which had the steepest geothermal gradient (958 degrees C km(-1)). At this site, SRR were generally over an order of magnitude higher than at similar depths at other sites (e.g., 387-157 nmol cm(-3) d(-1) at 1.9 mbsf from Site U1548C vs. 46-1.0 nmol cm(-3) d(-1) at 2.1 mbsf from Site U1552B). Site U1546D is characterized by a sill intrusion, but it had already reached thermal equilibrium and SRR were in the same range as nearby Site U1545C, which is minimally affected by sills. The wide temperature range observed at each drill site suggests major shifts in microbial community composition with very different temperature optima but awaits confirmation by molecular biological analyses. At the transition between the mesophilic and thermophilic range around 40 degrees C-60 degrees C, sulfate-reducing activity appears to be decreased, particularly in more oligotrophic settings, but shows a slight recovery at higher temperatures. KW - sulfate reduction KW - subsurface life KW - deep biosphere KW - thermophiles; KW - Guaymas Basin Y1 - 2022 U6 - https://doi.org/10.3389/fmicb.2022.845250 SN - 1664-302X VL - 13 PB - Frontiers Media CY - Lausanne ER - TY - JOUR A1 - Oeser, Ralf Andreas A1 - Stroncik, Nicole A1 - Moskwa, Lisa-Marie A1 - Bernhard, Nadine A1 - Schaller, Mirjam A1 - Canessa, Rafaella A1 - van den Brink, Liesbeth A1 - Köster, Moritz A1 - Brucker, Emanuel A1 - Stock, Svenja A1 - Pablo Fuentes, Juan A1 - Godoy, Roberto A1 - Javier Matus, Francisco A1 - Oses Pedraza, Romulo A1 - Osses McIntyre, Pablo A1 - Paulino, Leandro A1 - Seguel, Oscar A1 - Bader, Maaike Y. A1 - Boy, Jens A1 - Dippold, Michaela A. A1 - Ehlers, Todd A1 - Kühn, Peter A1 - Kuzyakov, Yakov A1 - Leinweber, Peter A1 - Scholten, Thomas A1 - Spielvogel, Sandra A1 - Spohn, Marie A1 - Ubernickel, Kirstin A1 - Tielbörger, Katja A1 - Wagner, Dirk A1 - von Blanckenburg, Friedhelm T1 - Chemistry and microbiology of the Critical Zone along a steep climate and vegetation gradient in the Chilean Coastal Cordillera JF - Catena : an interdisciplinary journal of soil science, hydrology, geomorphology focusing on geoecology and landscape evolution N2 - From north to south, denudation rates from cosmogenic nuclides are similar to 10 t km(-2) yr(-1) at the arid Pan de Aziicar site, similar to 20 t km(2) yr(-1) at the semi-arid site of Santa Gracia, -60 t km(-2) yr(-1) at the Mediterranean climate site of La Campana, and similar to 30 t km(-2) yr(-1) at the humid site of Nahuelbuta. A and B horizons increase in thickness and elemental depletion or enrichment increases from north (similar to 26 degrees S) to south (similar to 38 degrees S) in these horizons. Differences in the degree of chemical weathering, quantified by the chemical depletion fraction (CDF), are significant only between the arid and sparsely vegetated site and the other three sites. Differences in the CDF between the sites, and elemental depletion within the sites are sometimes smaller than the variations induced by the bedrock heterogeneity. Microbial abundances (bacteria and archaea) in saprolite substantially increase from the arid to the semi-arid sites. With this study, we provide a comprehensive dataset characterizing the Critical Zone geochemistry in the Chilean Coastal Cordillera. This dataset confirms climatic controls on weathering and denudation rates and provides prerequisites to quantify the role of biota in future studies. KW - Weathering KW - Denudation KW - Microbial abundance KW - Climate KW - Chile Y1 - 2018 U6 - https://doi.org/10.1016/j.catena.2018.06.002 SN - 0341-8162 SN - 1872-6887 VL - 170 SP - 183 EP - 203 PB - Elsevier CY - Amsterdam ER - TY - JOUR A1 - Genderjahn, Steffi A1 - Alawi, Mashal A1 - Mangelsdorf, Kai A1 - Horn, Fabian A1 - Wagner, Dirk T1 - Desiccation- and saline-solerant bacteria and archaea in kalahari an sediments JF - Frontiers in microbiology N2 - More than 41% of the Earth’s land area is covered by permanent or seasonally arid dryland ecosystems. Global development and human activity have led to an increase in aridity, resulting in ecosystem degradation and desertification around the world. The objective of the present work was to investigate and compare the microbial community structure and geochemical characteristics of two geographically distinct saline pan sediments in the Kalahari Desert of southern Africa. Our data suggest that these microbial communities have been shaped by geochemical drivers, including water content, salinity, and the supply of organic matter. Using Illumina 16S rRNA gene sequencing, this study provides new insights into the diversity of bacteria and archaea in semi-arid, saline, and low-carbon environments. Many of the observed taxa are halophilic and adapted to water-limiting conditions. The analysis reveals a high relative abundance of halophilic archaea (primarily Halobacteria), and the bacterial diversity is marked by an abundance of Gemmatimonadetes and spore-forming Firmicutes. In the deeper, anoxic layers, candidate division MSBL1, and acetogenic bacteria (Acetothermia) are abundant. Together, the taxonomic information and geochemical data suggest that acetogenesis could be a prevalent form of metabolism in the deep layers of a saline pan. KW - saline pan KW - Kalahari KW - Halobacteria KW - Gemmatimonadetes KW - Firmicutes Y1 - 2018 U6 - https://doi.org/10.3389/fmicb.2018.02082 SN - 1664-302X VL - 9 PB - Frontiers Research Foundation CY - Lausanne ER - TY - GEN A1 - Genderjahn, Steffi A1 - Alawi, Mashal A1 - Mangelsdorf, Kai A1 - Horn, Fabian A1 - Wagner, Dirk T1 - Desiccation- and saline-tolerant bacteria and archaea in Kalahari pan sediments T2 - Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe N2 - More than 41% of the Earth’s land area is covered by permanent or seasonally arid dryland ecosystems. Global development and human activity have led to an increase in aridity, resulting in ecosystem degradation and desertification around the world. The objective of the present work was to investigate and compare the microbial community structure and geochemical characteristics of two geographically distinct saline pan sediments in the Kalahari Desert of southern Africa. Our data suggest that these microbial communities have been shaped by geochemical drivers, including water content, salinity, and the supply of organic matter. Using Illumina 16S rRNA gene sequencing, this study provides new insights into the diversity of bacteria and archaea in semi-arid, saline, and low-carbon environments. Many of the observed taxa are halophilic and adapted to water-limiting conditions. The analysis reveals a high relative abundance of halophilic archaea (primarily Halobacteria), and the bacterial diversity is marked by an abundance of Gemmatimonadetes and spore-forming Firmicutes. In the deeper, anoxic layers, candidate division MSBL1, and acetogenic bacteria (Acetothermia) are abundant. Together, the taxonomic information and geochemical data suggest that acetogenesis could be a prevalent form of metabolism in the deep layers of a saline pan. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 993 KW - saline pan KW - Kalahari KW - Halobacteria KW - Gemmatimonadetes KW - Firmicutes Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-459154 SN - 1866-8372 IS - 993 ER - TY - JOUR A1 - Bartholomäus, Alexander A1 - Lipus, Daniel A1 - Mitzscherling, Julia A1 - MacLean, Joana A1 - Wagner, Dirk T1 - Draft Genome Sequence of Nocardioides alcanivorans NGK65(T), a Hexadecane-Degrading Bacterium JF - Microbiology Resource Announcements N2 - The Gram-positive bacterium Nocardioides alcanivorans NGK65(T) was isolated from plastic-polluted soil and cultivated on medium with polyethylene as the single carbon source. Nanopore sequencing revealed the presence of candidate enzymes for the biodegradation of polyethylene. Here, we report the draft genome of this newly described member of the terrestrial plastisphere. Y1 - 2022 U6 - https://doi.org/10.1128/mra.01213-21 SN - 2576-098X VL - 11 IS - 8 PB - American Society for Microbiology CY - Washington ER - TY - JOUR A1 - Nwosu, Ebuka Canisius A1 - Brauer, Achim A1 - Kaiser, Jérôme A1 - Horn, Fabian A1 - Wagner, Dirk A1 - Liebner, Susanne T1 - Evaluating sedimentary DNA for tracing changes in cyanobacteria dynamics from sediments spanning the last 350 years of Lake Tiefer See, NE Germany JF - Journal of paleolimnology N2 - Since the beginning of the Anthropocene, lacustrine biodiversity has been influenced by climate change and human activities. These factors advance the spread of harmful cyanobacteria in lakes around the world, which affects water quality and impairs the aquatic food chain. In this study, we assessed changes in cyanobacterial community dynamics via sedimentary DNA (sedaDNA) from well-dated lake sediments of Lake Tiefer See, which is part of the Klocksin Lake Chain spanning the last 350 years. Our diversity and community analysis revealed that cyanobacterial communities form clusters according to the presence or absence of varves. Based on distance-based redundancy and variation partitioning analyses (dbRDA and VPA) we identified that intensified lake circulation inferred from vegetation openness reconstructions, delta C-13 data (a proxy for varve preservation) and total nitrogen content were abiotic factors that significantly explained the variation in the reconstructed cyanobacterial community from Lake Tiefer See sediments. Operational taxonomic units (OTUs) assigned to Microcystis sp. and Aphanizomenon sp. were identified as potential eutrophication-driven taxa of growing importance since circa common era (ca. CE) 1920 till present. This result is corroborated by a cyanobacteria lipid biomarker analysis. Furthermore, we suggest that stronger lake circulation as indicated by non-varved sediments favoured the deposition of the non-photosynthetic cyanobacteria sister clade Sericytochromatia, whereas lake bottom anoxia as indicated by subrecent- and recent varves favoured the Melainabacteria in sediments. Our findings highlight the potential of high-resolution amplicon sequencing in investigating the dynamics of past cyanobacterial communities in lake sediments and show that lake circulation, anoxic conditions, and human-induced eutrophication are main factors explaining variations in the cyanobacteria community in Lake Tiefer See during the last 350 years. KW - Late Holocene KW - Methylheptadecanes KW - Varves KW - Anthropocene KW - Sericytochromatia KW - Melainabacteria Y1 - 2021 U6 - https://doi.org/10.1007/s10933-021-00206-9 SN - 0921-2728 SN - 1573-0417 VL - 66 IS - 3 SP - 279 EP - 296 PB - Springer CY - Dordrecht ER - TY - JOUR A1 - Nwosu, Ebuka Canisius A1 - Roeser, Patricia Angelika A1 - Yang, Sizhong A1 - Ganzert, Lars A1 - Dellwig, Olaf A1 - Pinkerneil, Sylvia A1 - Brauer, Achim A1 - Dittmann, Elke A1 - Wagner, Dirk A1 - Liebner, Susanne T1 - From water into sediment-tracing freshwater cyanobacteria via DNA analyses JF - Microorganisms : open access journal N2 - Sedimentary ancient DNA-based studies have been used to probe centuries of climate and environmental changes and how they affected cyanobacterial assemblages in temperate lakes. Due to cyanobacteria containing potential bloom-forming and toxin-producing taxa, their approximate reconstruction from sediments is crucial, especially in lakes lacking long-term monitoring data. To extend the resolution of sediment record interpretation, we used high-throughput sequencing, amplicon sequence variant (ASV) analysis, and quantitative PCR to compare pelagic cyanobacterial composition to that in sediment traps (collected monthly) and surface sediments in Lake Tiefer See. Cyanobacterial composition, species richness, and evenness was not significantly different among the pelagic depths, sediment traps and surface sediments (p > 0.05), indicating that the cyanobacteria in the sediments reflected the cyanobacterial assemblage in the water column. However, total cyanobacterial abundances (qPCR) decreased from the metalimnion down the water column. The aggregate-forming (Aphanizomenon) and colony-forming taxa (Snowella) showed pronounced sedimentation. In contrast, Planktothrix was only very poorly represented in sediment traps (meta- and hypolimnion) and surface sediments, despite its highest relative abundance at the thermocline (10 m water depth) during periods of lake stratification (May-October). We conclude that this skewed representation in taxonomic abundances reflects taphonomic processes, which should be considered in future DNA-based paleolimnological investigations. KW - Aphanizomenon KW - Planktothrix KW - Snowella KW - cyanobacteria sedimentation KW - lake monitoring KW - sedimentary ancient DNA KW - sediment traps KW - environmental reconstruction Y1 - 2021 U6 - https://doi.org/10.3390/microorganisms9081778 SN - 2076-2607 VL - 9 IS - 8 PB - MDPI CY - Basel ER - TY - GEN A1 - Vuillemin, Aurèle A1 - Friese, André A1 - Alawi, Mashal A1 - Henny, Cynthia A1 - Nomosatryo, Sulung A1 - Wagner, Dirk A1 - Crowe, Sean A. A1 - Kallmeyer, Jens T1 - Geomicrobiological features of ferruginous sediments from Lake Towuti, Indonesia T2 - Frontiers in microbiology N2 - Lake Towuti is a tectonic basin, surrounded by ultramafic rocks. Lateritic soils form through weathering and deliver abundant iron (oxy)hydroxides but very little sulfate to the lake and its sediment. To characterize the sediment biogeochemistry, we collected cores at three sites with increasing water depth and decreasing bottom water oxygen concentrations. Microbial cell densities were highest at the shallow site a feature we attribute to the availability of labile organic matter (OM) and the higher abundance of electron acceptors due to oxic bottom water conditions. At the two other sites, OM degradation and reduction processes below the oxycline led to partial electron acceptor depletion. Genetic information preserved in the sediment as extracellular DNA (eDNA) provided information on aerobic and anaerobic heterotrophs related to Nitrospirae. Chloroflexi, and Therrnoplasmatales. These taxa apparently played a significant role in the degradation of sinking OM. However, eDNA concentrations rapidly decreased with core depth. Despite very low sulfate concentrations, sulfate-reducing bacteria were present and viable in sediments at all three sites, as confirmed by measurement of potential sulfate reduction rates. Microbial community fingerprinting supported the presence of taxa related to Deltaproteobacteria and Firmicutes with demonstrated capacity for iron and sulfate reduction. Concomitantly, sequences of Ruminococcaceae, Clostridiales, and Methanornicrobiales indicated potential for fermentative hydrogen and methane production. Such first insights into ferruginous sediments showed that microbial populations perform successive metabolisms related to sulfur, iron, and methane. In theory, iron reduction could reoxidize reduced sulfur compounds and desorb OM from iron minerals to allow remineralization to methane. Overall, we found that biogeochemical processes in the sediments can be linked to redox differences in the bottom waters of the three sites, like oxidant concentrations and the supply of labile OM. At the scale of the lacustrine record, our geomicrobiological study should provide a means to link the extant subsurface biosphere to past environments. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 440 KW - bottom waters KW - iron-rich sediment KW - sedimentary microbes KW - extracellular DNA KW - sulfate reduction KW - iron reduction KW - Lake Towuti Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-407312 ER - TY - JOUR A1 - Rodriguez, Victoria A1 - Moskwa, Lisa-Marie A1 - Oses, Romulo A1 - Kühn, Peter A1 - Riveras-Muñoz, Nicolás A1 - Seguel, Oscar A1 - Scholten, Thomas A1 - Wagner, Dirk T1 - Impact of climate and slope aspects on the composition of soil bacterial communities involved in pedogenetic processes along the chilean coastal cordillera JF - Microorganisms N2 - Soil bacteria play a fundamental role in pedogenesis. However, knowledge about both the impact of climate and slope aspects on microbial communities and the consequences of these items in pedogenesis is lacking. Therefore, soil-bacterial communities from four sites and two different aspects along the climate gradient of the Chilean Coastal Cordillera were investigated. Using a combination of microbiological and physicochemical methods, soils that developed in arid, semi-arid, mediterranean, and humid climates were analyzed. Proteobacteria, Acidobacteria, Chloroflexi, Verrucomicrobia, and Planctomycetes were found to increase in abundance from arid to humid climates, while Actinobacteria and Gemmatimonadetes decreased along the transect. Bacterial-community structure varied with climate and aspect and was influenced by pH, bulk density, plant-available phosphorus, clay, and total organic-matter content. Higher bacterial specialization was found in arid and humid climates and on the south-facing slope and was likely promoted by stable microclimatic conditions. The presence of specialists was associated with ecosystem-functional traits, which shifted from pioneers that accumulated organic matter in arid climates to organic decomposers in humid climates. These findings provide new perspectives on how climate and slope aspects influence the composition and functional capabilities of bacteria, with most of these capabilities being involved in pedogenetic processes. KW - bacterial-community structure KW - bacterial diversity KW - climate gradient KW - slope aspect KW - Chilean Coastal Cordillera KW - soil formation Y1 - 2022 U6 - https://doi.org/10.3390/microorganisms10050847 SN - 2076-2607 VL - 10 IS - 5 PB - MDPI CY - Basel ER -