TY - JOUR A1 - Cesar Fernández, Guillermo A1 - Lecomte, Karina A1 - Vignoni, Paula A1 - Soto-Rueda, Eliana Marcela A1 - Coria, Silvia H. A1 - Lirio, Juan Manuel A1 - Mlewski, Estela Cecilia T1 - Prokaryotic diversity and biogeochemical characteristics of benthic microbial ecosystems from James Ross Archipelago (West Antarctica) JF - Polar biology : current research and development in science and technology N2 - The James Ross archipelago houses numerous lakes and ponds. In this region, a vast diatom and cyanobacterial variety has been reported; however, the prokaryotic diversity in microbial mats from these lakes remains poorly explored. Here, a high-throughput sequencing of 16S rRNA gene in microbial mats from Lake Bart-Roja in James Ross Island and lakes Pan Negro and North Pan Negro located in Vega Island was performed. Combined with mineralogical and environmental characteristics, we analyzed the diversity and structure of the microbial communities. Sequences assigned to Archaea were extremely low, while Bacteria domain prevailed with the abundance of Proteobacteria (mostly Betaproteobacteriales) followed by Bacteroidetes, Verrucomicrobia, Firmicutes, and Cyanobacteria. Local environmental conditions, such as conductivity and Eh, provided differential microbial assemblages that might have implications in the oligotrophic status of the lakes. Consequently, a clear segregation at the family level was observed. In this sense, the assigned diversity was related to taxa recognized as denitrifiers and sulfur oxidizers. Particularly, in Lake Pan Negro sulfur-reducing and methanogenic representatives were also found and positively correlate with alkalinity and water depth. Moreover, Deinococcus-Thermus was observed in Lake Bart-Roja, while Melainabacteria (Cyanobacteria)-poorly reported in Antarctic mats-was detected in Lake Pan Negro. Epsilonbacteraeota was exclusively found in this lake, suggesting new potential phylotypes. This study contributes to the understanding of the diversity, composition, and structure of Antarctic benthic microbial ecosystems and provides highly valuable information, which can be used as a proxy to evaluate environmental changes affecting Antarctic microbiota. KW - Antarctica KW - microbial mats KW - microbial diversity KW - 16S rRNA genes KW - James Ross archipelago Y1 - 2022 U6 - https://doi.org/10.1007/s00300-021-02997-z SN - 0722-4060 SN - 1432-2056 VL - 45 IS - 3 SP - 405 EP - 418 PB - Springer CY - Berlin ; Heidelberg ER - TY - JOUR A1 - Liu, Qi A1 - Adler, Karsten A1 - Lipus, Daniel A1 - Kämpf, Horst A1 - Bussert, Robert A1 - Plessen, Birgit A1 - Schulz, Hans-Martin A1 - Krauze, Patryk A1 - Horn, Fabian A1 - Wagner, Dirk A1 - Mangelsdorf, Kai A1 - Alawi, Mashal T1 - Microbial signatures in deep CO2-saturated miocene sediments of the active Hartousov mofette system (NW Czech Republic) JF - Frontiers in microbiology N2 - The Hartousov mofette system is a natural CO2 degassing site in the central Cheb Basin (Eger Rift, Central Europe). In early 2016 a 108 m deep core was obtained from this system to investigate the impact of ascending mantle-derived CO2 on indigenous deep microbial communities and their surrounding life habitat. During drilling, a CO2 blow out occurred at a depth of 78.5 meter below surface (mbs) suggesting a CO2 reservoir associated with a deep low-permeable CO2-saturated saline aquifer at the transition from Early Miocene terrestrial to lacustrine sediments. Past microbial communities were investigated by hopanoids and glycerol dialkyl glycerol tetraethers (GDGTs) reflecting the environmental conditions during the time of deposition rather than showing a signal of the current deep biosphere. The composition and distribution of the deep microbial community potentially stimulated by the upward migration of CO2 starting during Mid Pleistocene time was investigated by intact polar lipids (IPLs), quantitative polymerase chain reaction (qPCR), and deoxyribonucleic acid (DNA) analysis. The deep biosphere is characterized by microorganisms that are linked to the distribution and migration of the ascending CO2-saturated groundwater and the availability of organic matter instead of being linked to single lithological units of the investigated rock profile. Our findings revealed high relative abundances of common soil and water bacteria, in particular the facultative, anaerobic and potential iron-oxidizing Acidovorax and other members of the family Comamonadaceae across the whole recovered core. The results also highlighted the frequent detection of the putative sulfate-oxidizing and CO2-fixating genus Sulfuricurvum at certain depths. A set of new IPLs are suggested to be indicative for microorganisms associated to CO2 accumulation in the mofette system. KW - geo-bio interaction KW - CO2 KW - mofette systems KW - Eger Rift KW - microbial lipid KW - biomarker KW - microbial diversity KW - deep biosphere KW - saline groundwater Y1 - 2020 U6 - https://doi.org/10.3389/fmicb.2020.543260 SN - 1664-302X VL - 11 PB - Frontiers Media CY - Lausanne ER - TY - THES A1 - Nwosu, Ebuka Canisius T1 - Sedimentary DNA-based reconstruction of cyanobacterial communities from Lake Tiefer See, NE Germany, for the last 11,000 years N2 - Climate change and human-driven eutrophication promote the spread of harmful cyanobacteria blooms in lakes worldwide, which affects water quality and impairs the aquatic food chain. In recent times, sedimentary ancient DNA-based (sedaDNA) studies were used to probe how centuries of climate and environmental changes have affected cyanobacterial assemblages in temperate lakes. However, there is a lack of information on the consistency between sediment-deposited cyanobacteria communities versus those of the water column, and on the individual role of natural climatic changes versus human pressure on cyanobacteria community dynamics over multi-millennia time scales. Therefore, this thesis uses sedimentary ancient DNA of Lake Tiefer See in northeastern Germany to trace the deposition of cyanobacteria along the water column into the sediment, and to reconstruct cyanobacteria communities spanning the last 11,000 years using a set of molecular techniques including quantitative PCR, biomarkers, metabarcoding, and metagenome sequence analyses. The results of this thesis proved that cyanobacterial composition and species richness did not significantly differ among different water depths, sediment traps, and surface sediments. This means that the cyanobacterial community composition from the sediments reflects the water column communities. However, there is a skewed sediment deposition of different cyanobacteria groups because of DNA alteration and/or deterioration during transport along the water column to the sediment. Specifically, single filament taxa, such as Planktothrix, are poorly represented in sediments despite being abundant in the water column as shown by an additional study of the thesis on cyanobacteria seasonality. In contrast, aggregate-forming taxa, like Aphanizomenon, are relatively overrepresented in sediment although they are not abundant in the water column. These different deposition patterns of cyanobacteria taxa should be considered in future DNA-based paleolimnological investigations. The thesis also reveals a substantial increase in total cyanobacteria abundance during the Bronze Age which is not apparent in prior phases of the early to middle Holocene and is suggested to be caused by human farming, deforestation, and excessive nutrient addition to the lake. Not only cyanobacterial abundance was influenced by human activity but also cyanobacteria community composition differed significantly between phases of no, moderate, and intense human impact. The data presented in this thesis are the first on sedimentary cyanobacteria DNA since the early Holocene in a temperate lake. The results bring together archaeological, historical climatic, and limnological data with deep DNA-sequencing and paleoecology to reveal a legacy impact of human pressure on lake cyanobacteria populations dating back to approximately 4000 years. N2 - Der Klimawandel und die vom Menschen verursachte Eutrophierung fördern die Ausbreitung schädlicher Cyanobakterienblüten in Seen weltweit, was die Wasserqualität und die aquatische Nahrungskette beeinträchtigt. In jüngster Zeit wurden sedimentäre DNA (sedaDNA)-Studien verwendet, um zu untersuchen, wie sich klimatische- und menschliche Umweltveränderungen von Jahrhunderten auf Cyanobakteriengemeinschaften in Seen ausgewirkt haben. Jedoch fehlen bislang Informationen, wie repräsentativ die im Sediment abgelagerten Cyanobakterien und deren DNA für die Gemeinschaften der Wassersäule sind, sowie zur individuellen Rolle natürlicher klimatischer Veränderungen gegenüber dem menschlichen Einflusses auf die Dynamik von Cyanobakterien über Zeitskalen von Jahrtausenden. Daher wurde in dieser Arbeit sedimentäre alte DNA (sedaDNA) des Tiefen Sees in Nordostdeutschland verwendet, um die Ablagerung von Cyanobakterien entlang der Wassersäule in das Sediment zu verfolgen. Ein Hauptteil dieser Arbeit bildete jedoch die Rekonstruktion von Cyanobakteriengemeinschaften der letzten 11.000 Jahre, unter Verwendung einer Reihe von molekularen Techniken, darunter quantitative PCR, Biomarker, Metabarcoding und Metagenom-Sequenzanalysen. Die Ergebnisse dieser Arbeit beweisen, dass die Cyanobakterien-Zusammensetzung und der Artenreichtum zwischen verschiedenen Wassertiefen, Sedimentfallen und Oberflächensedimenten nicht signifikant unterschiedlich ist. Das bedeutet, dass die Zusammensetzung der Cyanobakteriengemeinschaften aus den Sedimenten die Gemeinschaften der Wassersäule widerspiegelt. Aufgrund von DNA-Veränderungen und/oder -Abbau während des Transports entlang der Wassersäule zum Sediment kommt es jedoch zu einer verzerrten Sedimentablagerung verschiedener Cyanobakterien Arten. Insbesondere sind filamentose Arten wie Planktothrix in Sedimenten schlecht vertreten, obwohl sie, laut Ergebnissen einer zusätzlichen Studie dieser Arbeit zur Saisonalität von Cyanobakterien, in der Wassersäule reichlich vorhanden sind. Im Gegensatz dazu sind aggregatbildende Arten wie Aphanizomenon in Sedimenten relativ gesehen überrepräsentiert, obwohl sie in der Wassersäule relativ selten vorkommen. Diese unterschiedlichen Muster zur Sedimentablagerung verschiedener Cyanobakterien Arten sollten in zukünftigen DNA-basierten paläolimnologischen Untersuchungen berücksichtigt werden. Die Dissertation zeigt auch eine deutliche Zunahme der Cyanobakterien Abundanz während der Bronzezeit, die in vorhergehenden Phasen des frühen und mittleren Holozäns nicht erkennbar war. Dies ist wahrscheinlich durch menschliche Landwirtschaft, Entwaldung und übermäßige Nährstoffzufuhr in den See verursacht worden. Nicht nur die Abundanz von Cyanobakterien wurde durch menschliche Aktivitäten beeinflusst, sondern auch die Zusammensetzung von deren Gemeinschaften, die sich signifikant zwischen Phasen unterscheidet, die durch keinen, moderaten, und intensiven menschlichen Einfluss gekennzeichnet sind. Die in dieser Dissertation präsentierten Daten sind die ersten zu sedimentärer Cyanobakterien-DNA seit dem frühen Holozän eines Sees der gemäßigte Klimazone. Die Ergebnisse vereinen archäologische, historische, klimatische und limnologische Daten mit hochaufgelöster und Hochdurchsatz-DNA-Sequenzierung und belegen, dass der menschliche Einfluss auf Cyanobakteriengemeinschaften in Seen etwa 4000 Jahre zurückreicht. KW - anthropogenic impact KW - paleoecology KW - high throughput sequencing KW - cyanobacteria biomarker KW - microbial diversity KW - microbial ecology KW - 7-methylheptadecane KW - 7-Methylheptadecan KW - anthropogene Einwirkung KW - Cyanobakterien-Biomarker KW - hoher Durchsatz Sequenzierung KW - mikrobielle Vielfalt KW - mikrobielle Ökologie KW - Paläoökologie Y1 - 2022 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-563590 ER - TY - GEN A1 - Rieck, Angelika A1 - Herlemann, Daniel P. R. A1 - Jürgens, Klaus A1 - Grossart, Hans-Peter T1 - Particle-associated differ from free-living bacteria in surface waters of the Baltic Sea T2 - Frontiers in microbiology N2 - Many studies on bacterial community composition (BCC) do not distinguish between particle associated (PA) and free-living (FL) bacteria or neglect the PA fraction by pre-filtration removing most particles. Although temporal and spatial gradients in environmental variables are known to shape BCC, it remains unclear how and to what extent PA and FL bacterial diversity responds to such environmental changes. To elucidate the BCC of both bacterial fractions related to different environmental settings, we studied surface samples of three Baltic Sea stations (marine, mesohaline, and oligohaline) in two different seasons (summer and fall/winter). Amplicon sequencing of the 16S rRNA gene revealed significant differences in BCC of both bacterial fractions among stations and seasons, with a particularly high number of PA operational taxonomic units (OTUs at genus-level) at the marine station in both seasons. "Shannon and Simpson indices" showed a higher diversity of PA than FL bacteria at the marine station in both seasons and at the oligohaline station in fall/winter. In general, a high fraction of bacterial OTUs was found exclusively in the PA fraction (52% of total OTUs). These findings indicate that PA bacteria significantly contribute to overall bacterial richness and that they differ from FL bacteria. Therefore, to gain a deeper understanding on diversity and dynamics of aquatic bacteria, PA and FL bacteria should be generally studied independently. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 428 KW - microbial communities KW - microbial diversity KW - particle-associated and free-living bacteria KW - Baltic Sea KW - salinity gradient KW - seasons KW - 454-pyrosequencing Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-406442 ER - TY - JOUR A1 - Pieck, Angelika A1 - Herlemann, Daniel P. P. A1 - Juergens, Klaus A1 - Grossart, Hans-Peter T1 - Particle-Associated Differ from Free-Living Bacteria in Surface Waters of the Baltic Sea JF - Frontiers in microbiology N2 - Many studies on bacterial community composition (BCC) do not distinguish between particle associated (PA) and free-living (FL) bacteria or neglect the PA fraction by pre-filtration removing most particles. Although temporal and spatial gradients in environmental variables are known to shape BCC, it remains unclear how and to what extent PA and FL bacterial diversity responds to such environmental changes. To elucidate the BCC of both bacterial fractions related to different environmental settings, we studied surface samples of three Baltic Sea stations (marine, mesohaline, and oligohaline) in two different seasons (summer and fall/winter). Amplicon sequencing of the 16S rRNA gene revealed significant differences in BCC of both bacterial fractions among stations and seasons, with a particularly high number of PA operational taxonomic units (OTUs at genus-level) at the marine station in both seasons. "Shannon and Simpson indices" showed a higher diversity of PA than FL bacteria at the marine station in both seasons and at the oligohaline station in fall/winter. In general, a high fraction of bacterial OTUs was found exclusively in the PA fraction (52% of total OTUs). These findings indicate that PA bacteria significantly contribute to overall bacterial richness and that they differ from FL bacteria. Therefore, to gain a deeper understanding on diversity and dynamics of aquatic bacteria, PA and FL bacteria should be generally studied independently. KW - microbial communities KW - microbial diversity KW - particle-associated and free-living bacteria KW - Baltic Sea KW - salinity gradient KW - seasons KW - 454-pyrosequencing Y1 - 2015 U6 - https://doi.org/10.3389/fmicb.2015.01297 SN - 1664-302X VL - 6 PB - Frontiers Research Foundation CY - Lausanne ER - TY - JOUR A1 - Krause, Sascha A1 - Le Roux, Xavier A1 - Niklaus, Pascal A. A1 - Van Bodegom, Peter M. A1 - Lennon, Jay T. A1 - Bertilsson, Stefan A1 - Grossart, Hans-Peter A1 - Philippot, Laurent A1 - Bodelier, Paul L. E. T1 - Trait-based approaches for understanding microbial biodiversity and ecosystem functioning JF - Frontiers in microbiology N2 - In ecology, biodiversity-ecosystem functioning (BEE) research has seen a shift in perspective from taxonomy to function in the last two decades, with successful application of trait-based approaches. This shift offers opportunities for a deeper mechanistic understanding of the role of biodiversity in maintaining multiple ecosystem processes and services. In this paper, we highlight studies that have focused on BEE of microbial communities with an emphasis on integrating trait-based approaches to microbial ecology. In doing so, we explore some of the inherent challenges and opportunities of understanding BEE using microbial systems. For example, microbial biologists characterize communities using gene phylogenies that are often unable to resolve functional traits. Additionally, experimental designs of existing microbial BEE studies are often inadequate to unravel BEE relationships. We argue that combining eco-physiological studies with contemporary molecular tools in a trait-based framework can reinforce our ability to link microbial diversity to ecosystem processes. We conclude that such trait-based approaches are a promising framework to increase the understanding of microbial BEE relationships and thus generating systematic principles in microbial ecology and more generally ecology. KW - functional traits KW - ecosystem function KW - ecological theory KW - study designs KW - microbial diversity Y1 - 2014 U6 - https://doi.org/10.3389/fmicb.2014.00251 SN - 1664-302X VL - 5 PB - Frontiers Research Foundation CY - Lausanne ER -