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  1. Article ; Online: Small-scale spatial beta diversity of bacteria in the mixed upper layer of a lake.

    Pernthaler, Jakob / Krempaska, Natalia / le Moigne, Alizée

    Environmental microbiology

    2023  Volume 25, Issue 10, Page(s) 1847–1859

    Abstract: Bacterial community composition among individual, experimentally generated 'lake snow' particles may be highly variable. Since such aggregates are seasonally abundant in the mixed upper layer of lakes, we hypothesized that particle-attached (PA) bacteria ...

    Abstract Bacterial community composition among individual, experimentally generated 'lake snow' particles may be highly variable. Since such aggregates are seasonally abundant in the mixed upper layer of lakes, we hypothesized that particle-attached (PA) bacteria disproportionally contribute to the small-scale spatial beta diversity of pelagic communities. Community composition was analysed in sets of small (10 mL) samples collected from a pre-alpine lake in May, July and October 2018. Bacteria were classified as free-living (FL) or PA depending on their presence in large, 5-μm pre-filtered reference samples. FL exhibited clear seasonal differences in community composition and assembly. They were spatially uniform in May and July, and only a few FL taxa exhibited significant spatial variability. Spatial heterogeneity of FL in October was caused by high alpha and beta diversity of rare taxa, many with a presumably 'tychoplanktic' (alternating attached and free-living) lifestyle. The spatial beta diversity of PA was always high, and only about 10% of their seasonal richness was present in any single sample. Thus, most compositional variability of pelagic bacteria at spatial scales of cm to m either directly or indirectly originated from PA. On a functional level, this genotypic heterogeneity might affect the spatial distribution of rare metabolic traits.
    MeSH term(s) Lakes/microbiology ; Biodiversity ; Bacteria ; RNA, Ribosomal, 16S/genetics ; RNA, Ribosomal, 16S/metabolism
    Chemical Substances RNA, Ribosomal, 16S
    Language English
    Publishing date 2023-05-12
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2020213-1
    ISSN 1462-2920 ; 1462-2912
    ISSN (online) 1462-2920
    ISSN 1462-2912
    DOI 10.1111/1462-2920.16399
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Stochasticity causes high β‐diversity and functional divergence of bacterial assemblages in closed systems

    Le Moigne, Alizée / Randegger, Florian / Gupta, Anubhav / Petchey, Owen L. / Pernthaler, Jakob

    Ecology. 2023 Apr., v. 104, no. 4 p.e4005-

    2023  

    Abstract: Stochasticity is a major cause of compositional β‐diversity in communities that develop under similar environmental conditions. Such communities may exhibit functional similarity due to sympatric taxa with equivalent metabolic capacities in the source ... ...

    Abstract Stochasticity is a major cause of compositional β‐diversity in communities that develop under similar environmental conditions. Such communities may exhibit functional similarity due to sympatric taxa with equivalent metabolic capacities in the source assemblage. However, the redundancy of individual physiological traits may differ in the original source community, which in turn might lead to more or less pronounced variability of single functions among newly formed communities. We analyzed the degree of stochasticity during the primary assembly of bacterial communities originating from the same source and growing under identical conditions. We tested the links between community composition and functioning in parallel microcosms containing glucose and its dimer cellobiose. Bacteria from prefiltered lake water were diluted in artificial lake water and grown to the stationary phase. The resulting assemblages exhibited high compositional variability of taxa that were rare in the source communities. Simulations showed that the observed richness and incidence‐based β‐diversity could be reproduced by dispersal limitation, or by low dispersal rates associated with the ecological drift of the colonizers. Further null model analysis supported an important influence of stochasticity, as well as a synergy between dispersal limitation and both, heterogeneous and homogeneous selection. The communities functionally differed and the magnitude of functional variability depended on the substrate: more communities consumed glucose than cellobiose. However, there was no relationship between community structure and growth kinetics or substrate consumption. Thus, both structural and functional variability may be a consequence of stochastic processes during initial colonization in closed microbial communities.
    Keywords cellobiose ; community structure ; glucose ; growth models ; lakes ; sympatry
    Language English
    Dates of publication 2023-04
    Publishing place John Wiley & Sons, Inc.
    Document type Article ; Online
    Note JOURNAL ARTICLE
    ZDB-ID 1797-8
    ISSN 0012-9658
    ISSN 0012-9658
    DOI 10.1002/ecy.4005
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    In stock of ZB MED Bonn / Germany

    Z 4' 49/37: Show issues
    Z 7543: Show issues

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  3. Article ; Online: Stochasticity causes high β-diversity and functional divergence of bacterial assemblages in closed systems.

    Le Moigne, Alizée / Randegger, Florian / Gupta, Anubhav / Petchey, Owen L / Pernthaler, Jakob

    Ecology

    2023  Volume 104, Issue 4, Page(s) e4005

    Abstract: Stochasticity is a major cause of compositional β-diversity in communities that develop under similar environmental conditions. Such communities may exhibit functional similarity due to sympatric taxa with equivalent metabolic capacities in the source ... ...

    Abstract Stochasticity is a major cause of compositional β-diversity in communities that develop under similar environmental conditions. Such communities may exhibit functional similarity due to sympatric taxa with equivalent metabolic capacities in the source assemblage. However, the redundancy of individual physiological traits may differ in the original source community, which in turn might lead to more or less pronounced variability of single functions among newly formed communities. We analyzed the degree of stochasticity during the primary assembly of bacterial communities originating from the same source and growing under identical conditions. We tested the links between community composition and functioning in parallel microcosms containing glucose and its dimer cellobiose. Bacteria from prefiltered lake water were diluted in artificial lake water and grown to the stationary phase. The resulting assemblages exhibited high compositional variability of taxa that were rare in the source communities. Simulations showed that the observed richness and incidence-based β-diversity could be reproduced by dispersal limitation, or by low dispersal rates associated with the ecological drift of the colonizers. Further null model analysis supported an important influence of stochasticity, as well as a synergy between dispersal limitation and both, heterogeneous and homogeneous selection. The communities functionally differed and the magnitude of functional variability depended on the substrate: more communities consumed glucose than cellobiose. However, there was no relationship between community structure and growth kinetics or substrate consumption. Thus, both structural and functional variability may be a consequence of stochastic processes during initial colonization in closed microbial communities.
    MeSH term(s) Cellobiose/metabolism ; Microbiota ; Bacteria ; Water/metabolism
    Chemical Substances Cellobiose (16462-44-5) ; Water (059QF0KO0R)
    Language English
    Publishing date 2023-03-05
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2010140-5
    ISSN 1939-9170 ; 0012-9658
    ISSN (online) 1939-9170
    ISSN 0012-9658
    DOI 10.1002/ecy.4005
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  4. Article: The biogeochemical variability of Arctic thermokarst ponds is reflected by stochastic and niche‐driven microbial community assembly processes

    Le Moigne, Alizée / Bartosiewicz, Maciej / Schaepman‐Strub, Gabriela / Abiven, Samuel / Pernthaler, Jakob

    Environmental microbiology. 2020 Nov., v. 22, no. 11

    2020  

    Abstract: Shallow thermokarst ponds are a conspicuous landscape element of the Arctic Siberian tundra with high biogeochemical variability. Little is known about how microbes from the regional species pool assemble into local pond communities and how the resulting ...

    Abstract Shallow thermokarst ponds are a conspicuous landscape element of the Arctic Siberian tundra with high biogeochemical variability. Little is known about how microbes from the regional species pool assemble into local pond communities and how the resulting patterns affect functional properties such as dissolved organic carbon (DOC) remineralization and greenhouse gas (GHG) turnover. We analysed the pelagic microbiomes of 20 ponds in north‐eastern Siberia in the context of their physico‐chemical properties. Ponds were categorized as polygonal or trough according to their geomorphological origin. The diversity of bacteria and eukaryotic microbes was assessed by ribosomal gene tag sequencing. Null model analysis revealed an important role of stochastic assembly processes within ponds of identical origin, in particular for genotypes only occurring in few systems. Nevertheless, the two pond types clearly represented distinct niches for both the bacterial and eukaryotic microbial communities. Carbon dioxide concentration, indicative of heterotrophic microbial processes, varied greatly, especially in the trough ponds. Methane concentrations were lower in polygonal ponds and were correlated with the estimated abundance of methanotrophs. Thus, the overall functional variability of Arctic ponds reflects the stochastic assembly of their microbial communities. Distinct functional subcommunities can, nevertheless, be related to GHG concentrations.
    Keywords Siberia ; carbon dioxide ; dissolved organic carbon ; genes ; geomorphology ; greenhouse gases ; landscapes ; methane ; methanotrophs ; microbial communities ; microbiome ; tundra ; Arctic region
    Language English
    Dates of publication 2020-11
    Size p. 4847-4862.
    Publishing place John Wiley & Sons, Inc.
    Document type Article
    Note NAL-AP-2-clean ; JOURNAL ARTICLE
    ZDB-ID 2020213-1
    ISSN 1462-2920 ; 1462-2912
    ISSN (online) 1462-2920
    ISSN 1462-2912
    DOI 10.1111/1462-2920.15260
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  5. Article ; Online: The biogeochemical variability of Arctic thermokarst ponds is reflected by stochastic and niche-driven microbial community assembly processes.

    Le Moigne, Alizée / Bartosiewicz, Maciej / Schaepman-Strub, Gabriela / Abiven, Samuel / Pernthaler, Jakob

    Environmental microbiology

    2020  Volume 22, Issue 11, Page(s) 4847–4862

    Abstract: Shallow thermokarst ponds are a conspicuous landscape element of the Arctic Siberian tundra with high biogeochemical variability. Little is known about how microbes from the regional species pool assemble into local pond communities and how the resulting ...

    Abstract Shallow thermokarst ponds are a conspicuous landscape element of the Arctic Siberian tundra with high biogeochemical variability. Little is known about how microbes from the regional species pool assemble into local pond communities and how the resulting patterns affect functional properties such as dissolved organic carbon (DOC) remineralization and greenhouse gas (GHG) turnover. We analysed the pelagic microbiomes of 20 ponds in north-eastern Siberia in the context of their physico-chemical properties. Ponds were categorized as polygonal or trough according to their geomorphological origin. The diversity of bacteria and eukaryotic microbes was assessed by ribosomal gene tag sequencing. Null model analysis revealed an important role of stochastic assembly processes within ponds of identical origin, in particular for genotypes only occurring in few systems. Nevertheless, the two pond types clearly represented distinct niches for both the bacterial and eukaryotic microbial communities. Carbon dioxide concentration, indicative of heterotrophic microbial processes, varied greatly, especially in the trough ponds. Methane concentrations were lower in polygonal ponds and were correlated with the estimated abundance of methanotrophs. Thus, the overall functional variability of Arctic ponds reflects the stochastic assembly of their microbial communities. Distinct functional subcommunities can, nevertheless, be related to GHG concentrations.
    MeSH term(s) Arctic Regions ; Bacteria/classification ; Bacteria/genetics ; Bacteria/isolation & purification ; Bacteria/metabolism ; Biodiversity ; Carbon Dioxide/analysis ; Carbon Dioxide/metabolism ; Eukaryota/classification ; Eukaryota/genetics ; Eukaryota/isolation & purification ; Eukaryota/metabolism ; Methane/analysis ; Methane/metabolism ; Microbiota ; Ponds/chemistry ; Ponds/microbiology
    Chemical Substances Carbon Dioxide (142M471B3J) ; Methane (OP0UW79H66)
    Language English
    Publishing date 2020-10-13
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2020213-1
    ISSN 1462-2920 ; 1462-2912
    ISSN (online) 1462-2920
    ISSN 1462-2912
    DOI 10.1111/1462-2920.15260
    Database MEDical Literature Analysis and Retrieval System OnLINE

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