Molecular investigation of protistan diversity along an elevation transect of alpine lakes

Großmann, Lars; Jensen, Manfred; Pandey, Ram Vinay; Jost, Steffen; Bass, David; Psenner, Roland; Boenigk, Jens

doi:10.3354/ame01798

Cited by 18 publications

(21 citation statements)

References 48 publications

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“…In accordance with our findings, a large genetic divergence between distinct lake microbial communities has been reported in recent deep-sequencing campaigns, in particular for the rare biosphere (Filker et al 2016, Grossmann et al 2016b, Triadó-Margarit and Casamayor 2012. In particular, distribution patterns of rare taxa seem to vary widely and to deviate from the rather uniform patterns in abundant protists (Grossmann et al 2016a, Schiaffino et al 2016). This confirms recent claims that distribution patterns are almost certainly differential, with some taxa being ubiquitous whereas others are rather endemic, as proposed for instance by the moderate endemicity model.…”

Section: Eukaryotic Microbial Molecular Diversity In European Freshwasupporting

confidence: 91%

“…Considerable research effort has been focused on marine diversity (Countway et al 2005,Countway et al 2007, Campo et al 2016, Lovejoy et al 2006, López-García et al 2001, Massana and Pedrós-Alió 2008, Worden et al 2006. Despite the global importance of freshwater resources and the heterogeneity of freshwater systems, their biological diversity has been comparatively neglected (Filker et al 2016, Grossmann et al 2016a, Kammerlander et al 2015, Lepère et al 2007, Taib et al 2013, Triadó-Margarit and Casamayor 2012, Slapeta et al 2005. Our study revealed a high diversity of microbial freshwater eukaryotes and a high level of regional separation.…”

Section: Eukaryotic Microbial Molecular Diversity In European Freshwamentioning

confidence: 78%

“…Only recently has increasing evidence demonstrated that protists have a biogeography, and the underlying assumption of a worldwide dispersal of protists has been progressively replaced by the acceptance of the endemic distribution of at least some taxa (Bass and Boenigk 2011, Foissner 2006, Livermore and Jones 2015. The research focus has consequently recently turned to the underlying patterns of protist distribution while dispersal limitation is now generally accepted (Bik et al 2011, Grossmann et al 2016a, Katz et al 2005, Fernán-dez et al 2017.…”

Section: Introductionmentioning

confidence: 99%

“…Casteleyn et al 2010) but presumably weaker in freshwaters than in marine systems (Hillebrand 2004) or in soils Grossmann et al (2016a). Nevertheless, even though geographic gradients are assumed to be weak in protists (Gimmler et al 2016) historical factors presumably affect protist distribution as their distribution patterns in freshwater violate the assumption of unlimited dispersal (Grossmann et al 2016a). In particular, we hypothesize that European mountain ranges act as dispersal barriers for protists.…”

Section: Introductionmentioning

confidence: 99%

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Geographic distance and mountain ranges structure freshwater protist communities on a European scalе

Boenigk¹,

Wodniok²,

Böck³

et al. 2018

Metabarcoding and Metagenomics

112

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Protists influence ecosystems by modulating microbial population size, diversity, metabolic outputs and gene flow. In this study we used eukaryotic ribosomal amplicon diversity from 218 European freshwater lakes sampled in August 2012 to assess the effect of mountain ranges as biogeographic barriers on spatial patterns and microbial community structure in European freshwaters. The diversity of microbial communities as reflected by amplicon clusters suggested that the eukaryotic microbial inventory of lakes was well-sampled at the European and at the local scale. Our pan-European diversity analysis indicated that biodiversity and richness of high mountain lakes differed from that of lowland lakes. Further, the taxon inventory of high-mountain lakes strongly contributed to beta-diversity despite a low taxon inventory. Even though ecological factors, in general, strongly affect protist community pattern, we show that geographic distance and geographic barriers significantly contribute to community composition particularly for high mountain regions which presumably act as biogeographic islands. However, community composition in lowland lakes was also affected by geographic distance but less pronounced as in high mountain regions. In consequence protist populations are locally structured into distinct biogeographic provinces and community analyses revealed biogeographic patterns also for lowland lakes whereby European mountain ranges act as dispersal barriers in particular for short to intermediate distances whereas the effect of mountain ranges levels off on larger scale.protists (algae) are the dominant primary producers in aquatic ecosystems and contribute roughly 50 % to global primary production, i.e. they are of similar importance as land plants. Heterotrophic protists, on the other hand, are the primary agents of the top-down control of bacteria and primary producers and are thus key organisms in determining the fate and transport of organic matter in nature (Boenigk and Arndt 2002, Caron 2001, Foissner 1987, Sherr et al. 2007) .Increasing our knowledge of biodiversity distribution patterns at any level of the tree of life is of paramount ecological and evolutionary significance (Campo et al.

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Section: Eukaryotic Microbial Molecular Diversity In European Freshwasupporting

confidence: 91%

Section: Eukaryotic Microbial Molecular Diversity In European Freshwamentioning

confidence: 78%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Geographic distance and mountain ranges structure freshwater protist communities on a European scalе

Boenigk¹,

Wodniok²,

Böck³

et al. 2018

Metabarcoding and Metagenomics

112

View full text Add to dashboard Cite

show abstract

“…The sequence data analyzed in the current study was taken from [9, 10] (Additional file 1). It stems from a set of alpine Austrian lakes, which were sampled in order to study the change of lake microbial ecosystems of three different lakes over time [9] and the difference in microbiome composition over many lakes [10].…”

Section: Methodsmentioning

confidence: 99%

SEDE-GPS: socio-economic data enrichment based on GPS information

Sperlea¹,

Füser²,

Boenigk³

et al. 2018

BMC Bioinformatics

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BackgroundMicrobes are essentail components of all ecosystems because they drive many biochemical processes and act as primary producers. In freshwater ecosystems, the biodiversity in and the composition of microbial communities can be used as indicators for environmental quality. Recently, some environmental features have been identified that influence microbial ecosystems. However, the impact of human action on lake microbiomes is not well understood. This is, in part, due to the fact that environmental data is, albeit theoretically accessible, not easily available.ResultsIn this work, we present SEDE-GPS, a tool that gathers data that are relevant to the environment of an user-provided GPS coordinate. To this end, it accesses a list of public and corporate databases and aggregates the information in a single file, which can be used for further analysis. To showcase the use of SEDE-GPS, we enriched a lake microbial ecology sequencing dataset with around 18,000 socio-economic, climate, and geographic features. The sources of SEDE-GPS are public databases such as Eurostat, the Climate Data Center, and OpenStreetMap, as well as corporate sources such as Twitter. Using machine learning and feature selection methods, we were able to identify features in the data provided by SEDE-GPS that can be used to predict lake microbiome alpha diversity.ConclusionThe results presented in this study show that SEDE-GPS is a handy and easy-to-use tool for comprehensive data enrichment for studies of ecology and other processes that are affected by environmental features. Furthermore, we present lists of environmental, socio-economic, and climate features that are predictive for microbial biodiversity in lake ecosystems. These lists indicate that human action has a major impact on lake microbiomes. SEDE-GPS and its source code is available for download at http://SEDE-GPS.heiderlab.deElectronic supplementary materialThe online version of this article (10.1186/s12859-018-2419-4) contains supplementary material, which is available to authorized users.

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Patterns of protist distribution and diversification in alpine lakes across Europe

et al. 2021

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Biogeography in Europe is known to be crucially influenced by the large mountain ranges serving as biogeographical islands for cold‐adapted taxa and geographical barriers for warm‐adapted taxa. While biogeographical patterns are well‐known for plants and animals in Europe, we here investigated diversity and distribution patterns of protist freshwater communities on a European scale (256 lakes) in the light of the well‐studied post‐glacial distribution patterns of macroorganisms. Thus, our study compared 43 alpine protist communities of lakes located in the Alps, Carpathians, Pyrenees, and the Sierra Nevada with that of surrounding lowland lakes. We verified altitudinal diversity gradients of freshwater protists with decreasing richness and diversity across altitudes similar to those observed for plants and animals. Alpine specialists and generalists could be identified differing significantly in richness and diversity, but hardly in occurrence and proportions of major taxonomic groups. High proportions of region‐specific alpine specialists indicate an increased occurrence of distinct lineages within each mountain range and thus, suggested either separated glacial refugia or post‐glacial diversification within mountain ranges. However, a few alpine specialists were shared between mountain ranges suggesting a post‐glacial recolonization from a common lowland pool. Our results identified generalists with wide distribution ranges and putatively wide tolerance ranges toward environmental conditions as main drivers of protist diversification (specification) in alpine lakes, while there was hardly any diversification in alpine specialists.

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Molecular investigation of protistan diversity along an elevation transect of alpine lakes

Cited by 18 publications

References 48 publications

Geographic distance and mountain ranges structure freshwater protist communities on a European scalе

Geographic distance and mountain ranges structure freshwater protist communities on a European scalе

SEDE-GPS: socio-economic data enrichment based on GPS information

Patterns of protist distribution and diversification in alpine lakes across Europe

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