Contrasting Winter Versus Summer Microbial Communities and Metabolic Functions in a Permafrost Thaw Lake
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...
Published in: | Frontiers in Microbiology |
---|---|
Main Authors: | , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
Published: |
Frontiers Media S.A.
2019
|
Subjects: | |
Online Access: | https://doi.org/10.3389/fmicb.2019.01656 https://doaj.org/article/4fe34c0ea5a8476b862b113c642206cc |
id |
ftdoajarticles:oai:doaj.org/article:4fe34c0ea5a8476b862b113c642206cc |
---|---|
record_format |
openpolar |
spelling |
ftdoajarticles:oai:doaj.org/article:4fe34c0ea5a8476b862b113c642206cc 2023-05-15T16:37:06+02:00 Contrasting Winter Versus Summer Microbial Communities and Metabolic Functions in a Permafrost Thaw Lake Adrien Vigneron Connie Lovejoy Perrine Cruaud Dimitri Kalenitchenko Alexander Culley Warwick F. Vincent 2019-07-01T00:00:00Z https://doi.org/10.3389/fmicb.2019.01656 https://doaj.org/article/4fe34c0ea5a8476b862b113c642206cc EN eng Frontiers Media S.A. https://www.frontiersin.org/article/10.3389/fmicb.2019.01656/full https://doaj.org/toc/1664-302X 1664-302X doi:10.3389/fmicb.2019.01656 https://doaj.org/article/4fe34c0ea5a8476b862b113c642206cc Frontiers in Microbiology, Vol 10 (2019) MAGs microbial diversity metagenomes methane permafrost thermokarst Microbiology QR1-502 article 2019 ftdoajarticles https://doi.org/10.3389/fmicb.2019.01656 2022-12-31T14:19:59Z 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 or absent in the amplicon survey, but accounted for about a third of the metagenomic reads. The winter lineages were associated with multiple reductive metabolic processes, fermentations and pathways for the mobilization and degradation of complex organic matter, along with a strong potential for syntrophy or cross-feeding. The results imply that the summer community represents a transient stage of the annual cycle, and that carbon dioxide and methane production continue through the prolonged season of ice cover via a taxonomically distinct winter community and diverse mechanisms of permafrost carbon transformation. Article in Journal/Newspaper Ice permafrost Subarctic Thermokarst Directory of Open Access Journals: DOAJ Articles Frontiers in Microbiology 10 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
MAGs microbial diversity metagenomes methane permafrost thermokarst Microbiology QR1-502 |
spellingShingle |
MAGs microbial diversity metagenomes methane permafrost thermokarst Microbiology QR1-502 Adrien Vigneron Connie Lovejoy Perrine Cruaud Dimitri Kalenitchenko Alexander Culley Warwick F. Vincent Contrasting Winter Versus Summer Microbial Communities and Metabolic Functions in a Permafrost Thaw Lake |
topic_facet |
MAGs microbial diversity metagenomes methane permafrost thermokarst Microbiology QR1-502 |
description |
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 or absent in the amplicon survey, but accounted for about a third of the metagenomic reads. The winter lineages were associated with multiple reductive metabolic processes, fermentations and pathways for the mobilization and degradation of complex organic matter, along with a strong potential for syntrophy or cross-feeding. The results imply that the summer community represents a transient stage of the annual cycle, and that carbon dioxide and methane production continue through the prolonged season of ice cover via a taxonomically distinct winter community and diverse mechanisms of permafrost carbon transformation. |
format |
Article in Journal/Newspaper |
author |
Adrien Vigneron Connie Lovejoy Perrine Cruaud Dimitri Kalenitchenko Alexander Culley Warwick F. Vincent |
author_facet |
Adrien Vigneron Connie Lovejoy Perrine Cruaud Dimitri Kalenitchenko Alexander Culley Warwick F. Vincent |
author_sort |
Adrien Vigneron |
title |
Contrasting Winter Versus Summer Microbial Communities and Metabolic Functions in a Permafrost Thaw Lake |
title_short |
Contrasting Winter Versus Summer Microbial Communities and Metabolic Functions in a Permafrost Thaw Lake |
title_full |
Contrasting Winter Versus Summer Microbial Communities and Metabolic Functions in a Permafrost Thaw Lake |
title_fullStr |
Contrasting Winter Versus Summer Microbial Communities and Metabolic Functions in a Permafrost Thaw Lake |
title_full_unstemmed |
Contrasting Winter Versus Summer Microbial Communities and Metabolic Functions in a Permafrost Thaw Lake |
title_sort |
contrasting winter versus summer microbial communities and metabolic functions in a permafrost thaw lake |
publisher |
Frontiers Media S.A. |
publishDate |
2019 |
url |
https://doi.org/10.3389/fmicb.2019.01656 https://doaj.org/article/4fe34c0ea5a8476b862b113c642206cc |
genre |
Ice permafrost Subarctic Thermokarst |
genre_facet |
Ice permafrost Subarctic Thermokarst |
op_source |
Frontiers in Microbiology, Vol 10 (2019) |
op_relation |
https://www.frontiersin.org/article/10.3389/fmicb.2019.01656/full https://doaj.org/toc/1664-302X 1664-302X doi:10.3389/fmicb.2019.01656 https://doaj.org/article/4fe34c0ea5a8476b862b113c642206cc |
op_doi |
https://doi.org/10.3389/fmicb.2019.01656 |
container_title |
Frontiers in Microbiology |
container_volume |
10 |
_version_ |
1766027396530569216 |