Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome
Background : Arctic surface soils experience pronounced seasonal changes in temperature and chemistry. However, it is unclear how these changes affect microbial degradation of organic matter, nitrogen cycling and microbial stress responses. We combined measurements of microbiome transcriptional acti...
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ftunivnantes:oai:HAL:hal-02415186v1 2023-05-15T14:55:44+02:00 Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome Dencker, Morten Anwar, Muhammad Zohaib Jacobsen, Carsten Suhr Larose, Catherine Vogel, Timothy M. Maccario, Lorrie Jacquiod, Samuel Faucherre, Samuel Prieme, Anders Ampère, Département Bioingénierie (BioIng) Ampère (AMPERE) École Centrale de Lyon (ECL) Université de Lyon-Université de Lyon-Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon) Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-École Centrale de Lyon (ECL) Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE) 2019-04-01 https://hal.archives-ouvertes.fr/hal-02415186 https://doi.org/10.1101/599233 en eng HAL CCSD info:eu-repo/semantics/altIdentifier/doi/10.1101/599233 hal-02415186 https://hal.archives-ouvertes.fr/hal-02415186 doi:10.1101/599233 BioRxiv https://hal.archives-ouvertes.fr/hal-02415186 2019, ⟨10.1101/599233⟩ [SDV]Life Sciences [q-bio] [SPI]Engineering Sciences [physics] info:eu-repo/semantics/other Other publications 2019 ftunivnantes https://doi.org/10.1101/599233 2022-11-02T01:19:18Z Background : Arctic surface soils experience pronounced seasonal changes in temperature and chemistry. However, it is unclear how these changes affect microbial degradation of organic matter, nitrogen cycling and microbial stress responses. We combined measurements of microbiome transcriptional activity, CO2 production, and pools of carbon and nitrogen to investigate the microbial response to warming in the laboratory, from −10 °C to 2 °C, and subsequent cooling, from 2 °C to −10 °C, of a high Arctic tundra soil from Svalbard, Norway.Results : Gene expression was unaffected by warming from −10 °C to −2 °C and by cooling from −2 °C to −10 °C, while upon freezing (2 °C to −2 °C) a defense response against oxidative stress was observed. Following modest transcriptional changes one day after soil thaw, a more pronounced response was observed after 17 days, involving numerous functions dominated by an upregulation of genes involved in transcription, translation and chaperone activity. Transcripts related to carbohydrate metabolism and degradation of complex polymers (e.g. cellulose, hemicellulose and chitin) were also enhanced following 17 days of soil thaw, which was accompanied by a four-fold increase in CO2 production. In addition, anaerobic ammonium oxidation and turnover of organic nitrogen were upregulated. In contrast, nitrification, denitrification and assimilatory nitrate reduction were downregulated leading to an increase in the concentration of soil inorganic nitrogen.Conclusion : the microorganisms showed negligible response to changes in sub-zero temperatures and a delayed response to thaw, which after 17 days led to upregulation of soil organic matter degradation and enhanced CO2 production, as well as downregulation of key pathways in nitrogen cycling and a concomitant accumulation of inorganic nitrogen available for plants. Other/Unknown Material Arctic Svalbard Tundra Université de Nantes: HAL-UNIV-NANTES Arctic Svalbard |
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Université de Nantes: HAL-UNIV-NANTES |
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ftunivnantes |
language |
English |
topic |
[SDV]Life Sciences [q-bio] [SPI]Engineering Sciences [physics] |
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[SDV]Life Sciences [q-bio] [SPI]Engineering Sciences [physics] Dencker, Morten Anwar, Muhammad Zohaib Jacobsen, Carsten Suhr Larose, Catherine Vogel, Timothy M. Maccario, Lorrie Jacquiod, Samuel Faucherre, Samuel Prieme, Anders Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome |
topic_facet |
[SDV]Life Sciences [q-bio] [SPI]Engineering Sciences [physics] |
description |
Background : Arctic surface soils experience pronounced seasonal changes in temperature and chemistry. However, it is unclear how these changes affect microbial degradation of organic matter, nitrogen cycling and microbial stress responses. We combined measurements of microbiome transcriptional activity, CO2 production, and pools of carbon and nitrogen to investigate the microbial response to warming in the laboratory, from −10 °C to 2 °C, and subsequent cooling, from 2 °C to −10 °C, of a high Arctic tundra soil from Svalbard, Norway.Results : Gene expression was unaffected by warming from −10 °C to −2 °C and by cooling from −2 °C to −10 °C, while upon freezing (2 °C to −2 °C) a defense response against oxidative stress was observed. Following modest transcriptional changes one day after soil thaw, a more pronounced response was observed after 17 days, involving numerous functions dominated by an upregulation of genes involved in transcription, translation and chaperone activity. Transcripts related to carbohydrate metabolism and degradation of complex polymers (e.g. cellulose, hemicellulose and chitin) were also enhanced following 17 days of soil thaw, which was accompanied by a four-fold increase in CO2 production. In addition, anaerobic ammonium oxidation and turnover of organic nitrogen were upregulated. In contrast, nitrification, denitrification and assimilatory nitrate reduction were downregulated leading to an increase in the concentration of soil inorganic nitrogen.Conclusion : the microorganisms showed negligible response to changes in sub-zero temperatures and a delayed response to thaw, which after 17 days led to upregulation of soil organic matter degradation and enhanced CO2 production, as well as downregulation of key pathways in nitrogen cycling and a concomitant accumulation of inorganic nitrogen available for plants. |
author2 |
Ampère, Département Bioingénierie (BioIng) Ampère (AMPERE) École Centrale de Lyon (ECL) Université de Lyon-Université de Lyon-Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon) Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-École Centrale de Lyon (ECL) Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE) |
format |
Other/Unknown Material |
author |
Dencker, Morten Anwar, Muhammad Zohaib Jacobsen, Carsten Suhr Larose, Catherine Vogel, Timothy M. Maccario, Lorrie Jacquiod, Samuel Faucherre, Samuel Prieme, Anders |
author_facet |
Dencker, Morten Anwar, Muhammad Zohaib Jacobsen, Carsten Suhr Larose, Catherine Vogel, Timothy M. Maccario, Lorrie Jacquiod, Samuel Faucherre, Samuel Prieme, Anders |
author_sort |
Dencker, Morten |
title |
Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome |
title_short |
Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome |
title_full |
Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome |
title_fullStr |
Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome |
title_full_unstemmed |
Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome |
title_sort |
transcriptomic responses to warming and cooling of an arctic tundra soil microbiome |
publisher |
HAL CCSD |
publishDate |
2019 |
url |
https://hal.archives-ouvertes.fr/hal-02415186 https://doi.org/10.1101/599233 |
geographic |
Arctic Svalbard |
geographic_facet |
Arctic Svalbard |
genre |
Arctic Svalbard Tundra |
genre_facet |
Arctic Svalbard Tundra |
op_source |
BioRxiv https://hal.archives-ouvertes.fr/hal-02415186 2019, ⟨10.1101/599233⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1101/599233 hal-02415186 https://hal.archives-ouvertes.fr/hal-02415186 doi:10.1101/599233 |
op_doi |
https://doi.org/10.1101/599233 |
_version_ |
1766327753276129280 |