Metagenomic survey of the microbiome of ancient Siberian permafrost and modern Kamchatkan cryosols
In the context of global warming, the melting of Arctic permafrost raises the threat of a reemergence of microorganisms some of which were shown to remain viable in ancient frozen soils for up to half a million years. In order to evaluate this risk, it is of interest to acquire a better knowledge of...
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ftpubmed:oai:pubmedcentral.nih.gov:10117733 2023-06-11T04:08:58+02:00 Metagenomic survey of the microbiome of ancient Siberian permafrost and modern Kamchatkan cryosols Rigou, Sofia Christo-Foroux, Eugène Santini, Sébastien Goncharov, Artemiy Strauss, Jens Grosse, Guido Fedorov, Alexander N Labadie, Karine Abergel, Chantal Claverie, Jean-Michel 2022-04-07 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10117733/ http://www.ncbi.nlm.nih.gov/pubmed/37223356 https://doi.org/10.1093/femsml/uqac003 en eng Oxford University Press http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10117733/ http://www.ncbi.nlm.nih.gov/pubmed/37223356 http://dx.doi.org/10.1093/femsml/uqac003 © The Author(s) 2022. Published by Oxford University Press on behalf of FEMS. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com Microlife Research Article Text 2022 ftpubmed https://doi.org/10.1093/femsml/uqac003 2023-05-28T00:40:16Z In the context of global warming, the melting of Arctic permafrost raises the threat of a reemergence of microorganisms some of which were shown to remain viable in ancient frozen soils for up to half a million years. In order to evaluate this risk, it is of interest to acquire a better knowledge of the composition of the microbial communities found in this understudied environment. Here, we present a metagenomic analysis of 12 soil samples from Russian Arctic and subarctic pristine areas: Chukotka, Yakutia and Kamchatka, including nine permafrost samples collected at various depths. These large datasets (9.2 × 10(11) total bp) were assembled (525 313 contigs > 5 kb), their encoded protein contents predicted, and then used to perform taxonomical assignments of bacterial, archaeal and eukaryotic organisms, as well as DNA viruses. The various samples exhibited variable DNA contents and highly diverse taxonomic profiles showing no obvious relationship with their locations, depths or deposit ages. Bacteria represented the largely dominant DNA fraction (95%) in all samples, followed by archaea (3.2%), surprisingly little eukaryotes (0.5%), and viruses (0.4%). Although no common taxonomic pattern was identified, the samples shared unexpected high frequencies of β-lactamase genes, almost 0.9 copy/bacterial genome. In addition to known environmental threats, the particularly intense warming of the Arctic might thus enhance the spread of bacterial antibiotic resistances, today's major challenge in public health. β-Lactamases were also observed at high frequency in other types of soils, suggesting their general role in the regulation of bacterial populations. Text Arctic Chukotka Global warming Kamchatka permafrost Subarctic Yakutia PubMed Central (PMC) Arctic microLife 3 |
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Open Polar |
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PubMed Central (PMC) |
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ftpubmed |
language |
English |
topic |
Research Article |
spellingShingle |
Research Article Rigou, Sofia Christo-Foroux, Eugène Santini, Sébastien Goncharov, Artemiy Strauss, Jens Grosse, Guido Fedorov, Alexander N Labadie, Karine Abergel, Chantal Claverie, Jean-Michel Metagenomic survey of the microbiome of ancient Siberian permafrost and modern Kamchatkan cryosols |
topic_facet |
Research Article |
description |
In the context of global warming, the melting of Arctic permafrost raises the threat of a reemergence of microorganisms some of which were shown to remain viable in ancient frozen soils for up to half a million years. In order to evaluate this risk, it is of interest to acquire a better knowledge of the composition of the microbial communities found in this understudied environment. Here, we present a metagenomic analysis of 12 soil samples from Russian Arctic and subarctic pristine areas: Chukotka, Yakutia and Kamchatka, including nine permafrost samples collected at various depths. These large datasets (9.2 × 10(11) total bp) were assembled (525 313 contigs > 5 kb), their encoded protein contents predicted, and then used to perform taxonomical assignments of bacterial, archaeal and eukaryotic organisms, as well as DNA viruses. The various samples exhibited variable DNA contents and highly diverse taxonomic profiles showing no obvious relationship with their locations, depths or deposit ages. Bacteria represented the largely dominant DNA fraction (95%) in all samples, followed by archaea (3.2%), surprisingly little eukaryotes (0.5%), and viruses (0.4%). Although no common taxonomic pattern was identified, the samples shared unexpected high frequencies of β-lactamase genes, almost 0.9 copy/bacterial genome. In addition to known environmental threats, the particularly intense warming of the Arctic might thus enhance the spread of bacterial antibiotic resistances, today's major challenge in public health. β-Lactamases were also observed at high frequency in other types of soils, suggesting their general role in the regulation of bacterial populations. |
format |
Text |
author |
Rigou, Sofia Christo-Foroux, Eugène Santini, Sébastien Goncharov, Artemiy Strauss, Jens Grosse, Guido Fedorov, Alexander N Labadie, Karine Abergel, Chantal Claverie, Jean-Michel |
author_facet |
Rigou, Sofia Christo-Foroux, Eugène Santini, Sébastien Goncharov, Artemiy Strauss, Jens Grosse, Guido Fedorov, Alexander N Labadie, Karine Abergel, Chantal Claverie, Jean-Michel |
author_sort |
Rigou, Sofia |
title |
Metagenomic survey of the microbiome of ancient Siberian permafrost and modern Kamchatkan cryosols |
title_short |
Metagenomic survey of the microbiome of ancient Siberian permafrost and modern Kamchatkan cryosols |
title_full |
Metagenomic survey of the microbiome of ancient Siberian permafrost and modern Kamchatkan cryosols |
title_fullStr |
Metagenomic survey of the microbiome of ancient Siberian permafrost and modern Kamchatkan cryosols |
title_full_unstemmed |
Metagenomic survey of the microbiome of ancient Siberian permafrost and modern Kamchatkan cryosols |
title_sort |
metagenomic survey of the microbiome of ancient siberian permafrost and modern kamchatkan cryosols |
publisher |
Oxford University Press |
publishDate |
2022 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10117733/ http://www.ncbi.nlm.nih.gov/pubmed/37223356 https://doi.org/10.1093/femsml/uqac003 |
geographic |
Arctic |
geographic_facet |
Arctic |
genre |
Arctic Chukotka Global warming Kamchatka permafrost Subarctic Yakutia |
genre_facet |
Arctic Chukotka Global warming Kamchatka permafrost Subarctic Yakutia |
op_source |
Microlife |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10117733/ http://www.ncbi.nlm.nih.gov/pubmed/37223356 http://dx.doi.org/10.1093/femsml/uqac003 |
op_rights |
© The Author(s) 2022. Published by Oxford University Press on behalf of FEMS. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
op_doi |
https://doi.org/10.1093/femsml/uqac003 |
container_title |
microLife |
container_volume |
3 |
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1768382622022500352 |