Ecogenomics of key prokaryotes in the arctic ocean

The Arctic Ocean is a key player in the regulation of climate and at the same time is under increasing pressure as a result of climate change. Predicting the future of this ecosystem requires understanding of the responses of Arctic microorganisms to environmental change, as they are the main driver...

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Main Authors: Royo-Llonch, Marta, Sánchez, Pablo, Ruiz-González, Clara, Salazar, Guillem, Pedrós-Alió, Carlos, Labadie, Karine, Paoli, Lucas, Chaffron, Samuel, Eveillard, Damien, Karsenti, Eric, Sunagawa, Shinichi, Wincker, Patrick, Karp-Boss, Lee, Bowler, Chris, Acinas, Silvia
Other Authors: Laboratoire des Sciences du Numérique de Nantes (LS2N), IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT)-Université de Nantes - UFR des Sciences et des Techniques (UN UFR ST), Université de Nantes (UN)-Université de Nantes (UN)-École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS), Combinatoire et Bioinformatique (COMBI), Université de Nantes (UN)-Université de Nantes (UN)-École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique)
Format: Report
Language:English
Published: HAL CCSD 2020
Subjects:
Online Access:https://hal.archives-ouvertes.fr/hal-02946895
https://hal.archives-ouvertes.fr/hal-02946895/document
https://hal.archives-ouvertes.fr/hal-02946895/file/2020.06.19.156794v1.full.pdf
https://doi.org/10.1101/2020.06.19.156794
id ftccsdartic:oai:HAL:hal-02946895v1
record_format openpolar
institution Open Polar
collection Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe)
op_collection_id ftccsdartic
language English
topic [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
[SDV.EE.ECO]Life Sciences [q-bio]/Ecology
environment/Ecosystems
[SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry
Molecular Biology/Genomics [q-bio.GN]
[SDV.BBM.MN]Life Sciences [q-bio]/Biochemistry
Molecular Biology/Molecular Networks [q-bio.MN]
[SDV.EE.IEO]Life Sciences [q-bio]/Ecology
environment/Symbiosis
[SDE.BE]Environmental Sciences/Biodiversity and Ecology
spellingShingle [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
[SDV.EE.ECO]Life Sciences [q-bio]/Ecology
environment/Ecosystems
[SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry
Molecular Biology/Genomics [q-bio.GN]
[SDV.BBM.MN]Life Sciences [q-bio]/Biochemistry
Molecular Biology/Molecular Networks [q-bio.MN]
[SDV.EE.IEO]Life Sciences [q-bio]/Ecology
environment/Symbiosis
[SDE.BE]Environmental Sciences/Biodiversity and Ecology
Royo-Llonch, Marta
Sánchez, Pablo
Ruiz-González, Clara
Salazar, Guillem
Pedrós-Alió, Carlos
Labadie, Karine
Paoli, Lucas
Chaffron, Samuel
Eveillard, Damien
Karsenti, Eric
Sunagawa, Shinichi
Wincker, Patrick
Karp-Boss, Lee
Bowler, Chris
Acinas, Silvia
Ecogenomics of key prokaryotes in the arctic ocean
topic_facet [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
[SDV.EE.ECO]Life Sciences [q-bio]/Ecology
environment/Ecosystems
[SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry
Molecular Biology/Genomics [q-bio.GN]
[SDV.BBM.MN]Life Sciences [q-bio]/Biochemistry
Molecular Biology/Molecular Networks [q-bio.MN]
[SDV.EE.IEO]Life Sciences [q-bio]/Ecology
environment/Symbiosis
[SDE.BE]Environmental Sciences/Biodiversity and Ecology
description The Arctic Ocean is a key player in the regulation of climate and at the same time is under increasing pressure as a result of climate change. Predicting the future of this ecosystem requires understanding of the responses of Arctic microorganisms to environmental change, as they are the main drivers of global biogeochemical cycles. However, little is known about the ecology and metabolic potential of active Arctic microbes. Here, we reconstructed a total of 3,550 metagenomic bins from 41 seawater metagenomes collected as part of the Tara Oceans expedition, covering five different Arctic Ocean regions as well as the sub-Arctic North Atlantic Ocean and including various depths and different seasons (spring to autumn). Of these bins, 530 could be classified as Metagenome Assembled Genomes (MAGs) and over 75% of them represented novel species. We describe their habitat range and environmental preferences, as well as their metabolic capabilities, building the most comprehensive dataset of uncultured bacterial and archaeal genomes from the Arctic Ocean to date. We found a prevalence of mixotrophs, while chemolithoautotrophs were mostly present in the mesopelagic Arctic Ocean during spring and autumn. Finally, the catalogue of Arctic MAGs was complemented with metagenomes and metatranscriptomes from the global ocean to identify the most active MAGs present exclusively in polar metagenomes. These polar MAGs, which display a range of metabolic strategies, might represent Arctic sentinels of climate change and should be considered in prospective studies of the future state of the Arctic Ocean. The Arctic Ocean is a key player in the regulation of climate and at the same time is under increasing pressure as a result of climate change. Predicting the future of this ecosystem requires understanding of the responses of Arctic microorganisms to environmental change, as they are the main drivers of global biogeochemical cycles. However, little is known about the ecology and metabolic potential of active Arctic microbes. ...
author2 Laboratoire des Sciences du Numérique de Nantes (LS2N)
IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique)
Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT)-Université de Nantes - UFR des Sciences et des Techniques (UN UFR ST)
Université de Nantes (UN)-Université de Nantes (UN)-École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS)
Combinatoire et Bioinformatique (COMBI)
Université de Nantes (UN)-Université de Nantes (UN)-École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique)
format Report
author Royo-Llonch, Marta
Sánchez, Pablo
Ruiz-González, Clara
Salazar, Guillem
Pedrós-Alió, Carlos
Labadie, Karine
Paoli, Lucas
Chaffron, Samuel
Eveillard, Damien
Karsenti, Eric
Sunagawa, Shinichi
Wincker, Patrick
Karp-Boss, Lee
Bowler, Chris
Acinas, Silvia
author_facet Royo-Llonch, Marta
Sánchez, Pablo
Ruiz-González, Clara
Salazar, Guillem
Pedrós-Alió, Carlos
Labadie, Karine
Paoli, Lucas
Chaffron, Samuel
Eveillard, Damien
Karsenti, Eric
Sunagawa, Shinichi
Wincker, Patrick
Karp-Boss, Lee
Bowler, Chris
Acinas, Silvia
author_sort Royo-Llonch, Marta
title Ecogenomics of key prokaryotes in the arctic ocean
title_short Ecogenomics of key prokaryotes in the arctic ocean
title_full Ecogenomics of key prokaryotes in the arctic ocean
title_fullStr Ecogenomics of key prokaryotes in the arctic ocean
title_full_unstemmed Ecogenomics of key prokaryotes in the arctic ocean
title_sort ecogenomics of key prokaryotes in the arctic ocean
publisher HAL CCSD
publishDate 2020
url https://hal.archives-ouvertes.fr/hal-02946895
https://hal.archives-ouvertes.fr/hal-02946895/document
https://hal.archives-ouvertes.fr/hal-02946895/file/2020.06.19.156794v1.full.pdf
https://doi.org/10.1101/2020.06.19.156794
geographic Arctic
Arctic Ocean
geographic_facet Arctic
Arctic Ocean
genre Arctic microbes
Arctic
Arctic Ocean
Climate change
North Atlantic
genre_facet Arctic microbes
Arctic
Arctic Ocean
Climate change
North Atlantic
op_source https://hal.archives-ouvertes.fr/hal-02946895
2020
op_relation info:eu-repo/semantics/altIdentifier/doi/10.1101/2020.06.19.156794
hal-02946895
https://hal.archives-ouvertes.fr/hal-02946895
https://hal.archives-ouvertes.fr/hal-02946895/document
https://hal.archives-ouvertes.fr/hal-02946895/file/2020.06.19.156794v1.full.pdf
doi:10.1101/2020.06.19.156794
op_rights info:eu-repo/semantics/OpenAccess
op_doi https://doi.org/10.1101/2020.06.19.156794
_version_ 1766305326409187328
spelling ftccsdartic:oai:HAL:hal-02946895v1 2023-05-15T14:31:47+02:00 Ecogenomics of key prokaryotes in the arctic ocean Royo-Llonch, Marta Sánchez, Pablo Ruiz-González, Clara Salazar, Guillem Pedrós-Alió, Carlos Labadie, Karine Paoli, Lucas Chaffron, Samuel Eveillard, Damien Karsenti, Eric Sunagawa, Shinichi Wincker, Patrick Karp-Boss, Lee Bowler, Chris Acinas, Silvia Laboratoire des Sciences du Numérique de Nantes (LS2N) IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique) Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT)-Université de Nantes - UFR des Sciences et des Techniques (UN UFR ST) Université de Nantes (UN)-Université de Nantes (UN)-École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS) Combinatoire et Bioinformatique (COMBI) Université de Nantes (UN)-Université de Nantes (UN)-École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique) 2020-01-01 https://hal.archives-ouvertes.fr/hal-02946895 https://hal.archives-ouvertes.fr/hal-02946895/document https://hal.archives-ouvertes.fr/hal-02946895/file/2020.06.19.156794v1.full.pdf https://doi.org/10.1101/2020.06.19.156794 en eng HAL CCSD info:eu-repo/semantics/altIdentifier/doi/10.1101/2020.06.19.156794 hal-02946895 https://hal.archives-ouvertes.fr/hal-02946895 https://hal.archives-ouvertes.fr/hal-02946895/document https://hal.archives-ouvertes.fr/hal-02946895/file/2020.06.19.156794v1.full.pdf doi:10.1101/2020.06.19.156794 info:eu-repo/semantics/OpenAccess https://hal.archives-ouvertes.fr/hal-02946895 2020 [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] [SDV.EE.ECO]Life Sciences [q-bio]/Ecology environment/Ecosystems [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry Molecular Biology/Genomics [q-bio.GN] [SDV.BBM.MN]Life Sciences [q-bio]/Biochemistry Molecular Biology/Molecular Networks [q-bio.MN] [SDV.EE.IEO]Life Sciences [q-bio]/Ecology environment/Symbiosis [SDE.BE]Environmental Sciences/Biodiversity and Ecology info:eu-repo/semantics/preprint Preprints, Working Papers, . 2020 ftccsdartic https://doi.org/10.1101/2020.06.19.156794 2021-11-07T00:24:26Z The Arctic Ocean is a key player in the regulation of climate and at the same time is under increasing pressure as a result of climate change. Predicting the future of this ecosystem requires understanding of the responses of Arctic microorganisms to environmental change, as they are the main drivers of global biogeochemical cycles. However, little is known about the ecology and metabolic potential of active Arctic microbes. Here, we reconstructed a total of 3,550 metagenomic bins from 41 seawater metagenomes collected as part of the Tara Oceans expedition, covering five different Arctic Ocean regions as well as the sub-Arctic North Atlantic Ocean and including various depths and different seasons (spring to autumn). Of these bins, 530 could be classified as Metagenome Assembled Genomes (MAGs) and over 75% of them represented novel species. We describe their habitat range and environmental preferences, as well as their metabolic capabilities, building the most comprehensive dataset of uncultured bacterial and archaeal genomes from the Arctic Ocean to date. We found a prevalence of mixotrophs, while chemolithoautotrophs were mostly present in the mesopelagic Arctic Ocean during spring and autumn. Finally, the catalogue of Arctic MAGs was complemented with metagenomes and metatranscriptomes from the global ocean to identify the most active MAGs present exclusively in polar metagenomes. These polar MAGs, which display a range of metabolic strategies, might represent Arctic sentinels of climate change and should be considered in prospective studies of the future state of the Arctic Ocean. The Arctic Ocean is a key player in the regulation of climate and at the same time is under increasing pressure as a result of climate change. Predicting the future of this ecosystem requires understanding of the responses of Arctic microorganisms to environmental change, as they are the main drivers of global biogeochemical cycles. However, little is known about the ecology and metabolic potential of active Arctic microbes. ... Report Arctic microbes Arctic Arctic Ocean Climate change North Atlantic Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) Arctic Arctic Ocean