Contrasting Winter Versus Summer Microbial Communities and Metabolic Functions in a Permafrost Thaw Lake

Frontiers in Microbiology
Adrien VigneronWarwick F Vincent

Abstract

Permafrost thawing results in the formation of thermokarst lakes, which are biogeochemical hotspots in northern landscapes and strong emitters of greenhouse gasses to the atmosphere. Most studies of thermokarst lakes have been in summer, despite the predominance of winter and ice-cover over much of the year, and the microbial ecology of these waters under ice remains poorly understood. Here we first compared the summer versus winter microbiomes of a subarctic thermokarst lake using DNA- and RNA-based 16S rRNA amplicon sequencing and qPCR. We then applied comparative metagenomics and used genomic bin reconstruction to compare the two seasons for changes in potential metabolic functions in the thermokarst lake microbiome. In summer, the microbial community was dominated by Actinobacteria and Betaproteobacteria, with phototrophic and aerobic pathways consistent with the utilization of labile and photodegraded substrates. The microbial community was strikingly different in winter, with dominance of methanogens, Planctomycetes, Chloroflexi and Deltaproteobacteria, along with various taxa of the Patescibacteria/Candidate Phyla Radiation (Parcubacteria, Microgenomates, Omnitrophica, Aminicenantes). The latter group was underestimated ...Continue Reading

References

Mar 16, 2004·Water Research·F A M de BokA J M Stams
May 13, 2006·Environmental Microbiology·Ryan J NewtonKatherine D McMahon
Sep 11, 2007·Applied and Environmental Microbiology·Ryan J NewtonKatherine D McMahon
Dec 14, 2007·Nucleic Acids Research·Minoru KanehisaYoshihiro Yamanishi
Jan 9, 2008·The ISME Journal·Andreas Teske, Ketil B Sørensen
Oct 8, 2008·Nucleic Acids Research·Brandi L CantarelBernard Henrissat
Jun 30, 2009·Bioinformatics·Victor M MarkowitzNikos C Kyrpides
Sep 10, 2011·Bioinformatics·Tanja Magoč, Steven L Salzberg
Nov 19, 2011·The ISME Journal·David E GrahamJanet K Jansson
May 31, 2012·Nucleic Acids Research·Yanbin YinYing Xu
Sep 12, 2012·Biotechnology Journal·Tana KoudelakovaJiri Damborsky
Apr 4, 2014·Bioinformatics·Anthony M BolgerBjoern Usadel
May 13, 2014·Nature Reviews. Microbiology·Janet K Jansson, Neslihan Taş
Apr 10, 2015·Nature·E A G SchuurJ E Vonk
Apr 29, 2015·Proceedings of the National Academy of Sciences of the United States of America·Alexander Tøsdal TveitMette Marianne Svenning
Jun 15, 2015·Bioinformatics·Cheng YuanYanni Sun
Jun 18, 2015·Nature·Christopher T BrownJillian F Banfield
Mar 10, 2016·Journal of Molecular Microbiology and Biotechnology·Rainer U MeckenstockAnne M Himmelberg
Aug 10, 2016·Scientific Reports·Sophie CrevecoeurConnie Lovejoy
May 20, 2017·The ISME Journal·Adrien VigneronNicolas Tsesmetzis
Jul 12, 2017·The ISME Journal·Rachel MackelprangMark P Waldrop
Oct 14, 2017·The ISME Journal·Stefan M NeuenschwanderMichaela M Salcher
Jul 18, 2018·Nature·Ben J WoodcroftGene W Tyson
Aug 17, 2018·Nature Communications·Katey Walter AnthonyGuido Grosse

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Citations

Oct 28, 2020·Viruses·Catherine GirardAlexander I Culley
Aug 23, 2020·The Science of the Total Environment·D Payandi-RollandO S Pokrovsky
Apr 20, 2021·Frontiers in Microbiology·Isabelle B FournierWarwick F Vincent

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Datasets Mentioned

BETA
PRJNA515027

Methods Mentioned

BETA
PCR
amplicon sequencing

Software Mentioned

mem
IMG
REAGO
Aminicentantes
MEGAHIT
MiSeq Reporter
MER
Trimmomatic
Mothur
IDBA

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