Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean
14 pages, 6 figures, additional information https://doi.org/10.1038/s41564-021-00979-9.-- Data availability: Accession numbers for the data used and generated in this study can be found in Supplementary Table 12, which includes the Arctic MAGs Catalogue and their functional annotation (European Bioi...
Published in: | Nature Microbiology |
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Online Access: | http://hdl.handle.net/10261/254760 https://doi.org/10.1038/s41564-021-00979-9 https://doi.org/10.13039/501100004794 https://doi.org/10.13039/100013060 https://doi.org/10.13039/501100000780 https://doi.org/10.13039/501100011033 |
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ftcsic:oai:digital.csic.es:10261/254760 2024-02-11T10:00:08+01:00 Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean Royo-Llonch, Marta Sánchez, Pablo Ruiz-González, Clara Salazar, Guillem Pedrós-Alió, Carlos Sebastián, Marta Labadie, Karine Paoli, Lucas Ibarbalz, Federico M. Zinger, Lucie Churcheward, Benjamin Tara Oceans Coordinators Chaffron, Samuel Eveillard, Damien Karsenti, Eric Sunagawa, Shinichi Wincker, Patrick Karp-Boss, Lee Bowler, Chris Acinas, Silvia G. Agencia Estatal de Investigación (España) Ministerio de Ciencia, Innovación y Universidades (España) Centre National de la Recherche Scientifique (France) European Commission European Molecular Biology Laboratory 2021-11 http://hdl.handle.net/10261/254760 https://doi.org/10.1038/s41564-021-00979-9 https://doi.org/10.13039/501100004794 https://doi.org/10.13039/100013060 https://doi.org/10.13039/501100000780 https://doi.org/10.13039/501100011033 en eng Nature Publishing Group #PLACEHOLDER_PARENT_METADATA_VALUE# info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/CTM2017-87736-R info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/PID2020-116489RB-I00 https://doi.org/10.1038/s41564-021-00979-9 Sí Nature Microbiology 6: 1561-1574 (2021) CEX2019-000928-S http://hdl.handle.net/10261/254760 doi:10.1038/s41564-021-00979-9 2058-5276 http://dx.doi.org/10.13039/501100004794 http://dx.doi.org/10.13039/100013060 http://dx.doi.org/10.13039/501100000780 http://dx.doi.org/10.13039/501100011033 open artículo http://purl.org/coar/resource_type/c_6501 2021 ftcsic https://doi.org/10.1038/s41564-021-00979-910.13039/50110000479410.13039/10001306010.13039/50110000078010.13039/501100011033 2024-01-16T11:15:48Z 14 pages, 6 figures, additional information https://doi.org/10.1038/s41564-021-00979-9.-- Data availability: Accession numbers for the data used and generated in this study can be found in Supplementary Table 12, which includes the Arctic MAGs Catalogue and their functional annotation (European Bioinformatics Institute BioStudies ID: S-BSST451) and the co-assembly of metagenomic samples used to generate the metagenomic bins (European Nucleotide Archive PRJEB41575). Accession numbers for the metagenomic and metatranscriptomic samples used in the fragment recruitment analyses can be found in Supplementary Table 13. Publicly available datasets used in this study include the following: CheckM v.1.0.11 (https://github.com/Ecogenomics/CheckM/releases/tag/v1.1.0), GTDB release 89 (https://data.gtdb.ecogenomic.org/releases/release89/), SILVA 132 (https://www.arb-silva.de/documentation/release-132/), KEGG release 89.1 (https://www.genome.jp/kegg/docs/relnote.html) and Pfam database release 31.0 (http://ftp.ebi.ac.uk/pub/databases/Pfam/releases/Pfam31.0/). Source data are provided with this paper The role of the Arctic Ocean ecosystem in climate regulation may depend on the responses of marine microorganisms to environmental change. We applied genome-resolved metagenomics to 41 Arctic seawater samples, collected at various depths in different seasons during the Tara Oceans Polar Circle expedition, to evaluate the ecology, metabolic potential and activity of resident bacteria and archaea. We assembled 530 metagenome-assembled genomes (MAGs) to form the Arctic MAGs catalogue comprising 526 species. A total of 441 MAGs belonged to species that have not previously been reported and 299 genomes showed an exclusively polar distribution. Most Arctic MAGs have large genomes and the potential for fast generation times, both of which may enable adaptation to a copiotrophic lifestyle in nutrient-rich waters. We identified 38 habitat generalists and 111 specialists in the Arctic Ocean. We also found a general prevalence of 14 ... Article in Journal/Newspaper Arctic Arctic Ocean Digital.CSIC (Spanish National Research Council) Arctic Arctic Ocean Nature Microbiology 6 12 1561 1574 |
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14 pages, 6 figures, additional information https://doi.org/10.1038/s41564-021-00979-9.-- Data availability: Accession numbers for the data used and generated in this study can be found in Supplementary Table 12, which includes the Arctic MAGs Catalogue and their functional annotation (European Bioinformatics Institute BioStudies ID: S-BSST451) and the co-assembly of metagenomic samples used to generate the metagenomic bins (European Nucleotide Archive PRJEB41575). Accession numbers for the metagenomic and metatranscriptomic samples used in the fragment recruitment analyses can be found in Supplementary Table 13. Publicly available datasets used in this study include the following: CheckM v.1.0.11 (https://github.com/Ecogenomics/CheckM/releases/tag/v1.1.0), GTDB release 89 (https://data.gtdb.ecogenomic.org/releases/release89/), SILVA 132 (https://www.arb-silva.de/documentation/release-132/), KEGG release 89.1 (https://www.genome.jp/kegg/docs/relnote.html) and Pfam database release 31.0 (http://ftp.ebi.ac.uk/pub/databases/Pfam/releases/Pfam31.0/). Source data are provided with this paper The role of the Arctic Ocean ecosystem in climate regulation may depend on the responses of marine microorganisms to environmental change. We applied genome-resolved metagenomics to 41 Arctic seawater samples, collected at various depths in different seasons during the Tara Oceans Polar Circle expedition, to evaluate the ecology, metabolic potential and activity of resident bacteria and archaea. We assembled 530 metagenome-assembled genomes (MAGs) to form the Arctic MAGs catalogue comprising 526 species. A total of 441 MAGs belonged to species that have not previously been reported and 299 genomes showed an exclusively polar distribution. Most Arctic MAGs have large genomes and the potential for fast generation times, both of which may enable adaptation to a copiotrophic lifestyle in nutrient-rich waters. We identified 38 habitat generalists and 111 specialists in the Arctic Ocean. We also found a general prevalence of 14 ... |
author2 |
Agencia Estatal de Investigación (España) Ministerio de Ciencia, Innovación y Universidades (España) Centre National de la Recherche Scientifique (France) European Commission European Molecular Biology Laboratory |
format |
Article in Journal/Newspaper |
author |
Royo-Llonch, Marta Sánchez, Pablo Ruiz-González, Clara Salazar, Guillem Pedrós-Alió, Carlos Sebastián, Marta Labadie, Karine Paoli, Lucas Ibarbalz, Federico M. Zinger, Lucie Churcheward, Benjamin Tara Oceans Coordinators Chaffron, Samuel Eveillard, Damien Karsenti, Eric Sunagawa, Shinichi Wincker, Patrick Karp-Boss, Lee Bowler, Chris Acinas, Silvia G. |
spellingShingle |
Royo-Llonch, Marta Sánchez, Pablo Ruiz-González, Clara Salazar, Guillem Pedrós-Alió, Carlos Sebastián, Marta Labadie, Karine Paoli, Lucas Ibarbalz, Federico M. Zinger, Lucie Churcheward, Benjamin Tara Oceans Coordinators Chaffron, Samuel Eveillard, Damien Karsenti, Eric Sunagawa, Shinichi Wincker, Patrick Karp-Boss, Lee Bowler, Chris Acinas, Silvia G. Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean |
author_facet |
Royo-Llonch, Marta Sánchez, Pablo Ruiz-González, Clara Salazar, Guillem Pedrós-Alió, Carlos Sebastián, Marta Labadie, Karine Paoli, Lucas Ibarbalz, Federico M. Zinger, Lucie Churcheward, Benjamin Tara Oceans Coordinators Chaffron, Samuel Eveillard, Damien Karsenti, Eric Sunagawa, Shinichi Wincker, Patrick Karp-Boss, Lee Bowler, Chris Acinas, Silvia G. |
author_sort |
Royo-Llonch, Marta |
title |
Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean |
title_short |
Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean |
title_full |
Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean |
title_fullStr |
Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean |
title_full_unstemmed |
Compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar Arctic Ocean |
title_sort |
compendium of 530 metagenome-assembled bacterial and archaeal genomes from the polar arctic ocean |
publisher |
Nature Publishing Group |
publishDate |
2021 |
url |
http://hdl.handle.net/10261/254760 https://doi.org/10.1038/s41564-021-00979-9 https://doi.org/10.13039/501100004794 https://doi.org/10.13039/100013060 https://doi.org/10.13039/501100000780 https://doi.org/10.13039/501100011033 |
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Arctic Arctic Ocean |
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Arctic Arctic Ocean |
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Arctic Arctic Ocean |
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Arctic Arctic Ocean |
op_relation |
#PLACEHOLDER_PARENT_METADATA_VALUE# info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/CTM2017-87736-R info:eu-repo/grantAgreement/AEI/Plan Estatal de Investigación Científica y Técnica y de Innovación 2017-2020/PID2020-116489RB-I00 https://doi.org/10.1038/s41564-021-00979-9 Sí Nature Microbiology 6: 1561-1574 (2021) CEX2019-000928-S http://hdl.handle.net/10261/254760 doi:10.1038/s41564-021-00979-9 2058-5276 http://dx.doi.org/10.13039/501100004794 http://dx.doi.org/10.13039/100013060 http://dx.doi.org/10.13039/501100000780 http://dx.doi.org/10.13039/501100011033 |
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https://doi.org/10.1038/s41564-021-00979-910.13039/50110000479410.13039/10001306010.13039/50110000078010.13039/501100011033 |
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Nature Microbiology |
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