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Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome

Morten Dencker Schostag, Muhammad Zohaib Anwar, Carsten Suhr Jacobsen, Catherine Larose, Timothy M. Vogel, Lorrie Maccario, Samuel Jacquiod, Samuel Faucherre, Anders Priemé
doi: https://doi.org/10.1101/599233
Morten Dencker Schostag
1Center for Permafrost, Department of Geosciences and Natural Resource Management, University of Copenhagen, Øster Voldgade 10, 1350 Copenhagen, Denmark.
2Section of Microbiology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen, Denmark.
3Geochemical Department, Geological Survey of Denmark and Greenland, Øster Voldgade 10, 1350 Copenhagen, Denmark.
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Muhammad Zohaib Anwar
4Department of Environmental Science, Aarhus University, Frederiksborgvej 399, 4000 Roskilde, Denmark.
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Carsten Suhr Jacobsen
1Center for Permafrost, Department of Geosciences and Natural Resource Management, University of Copenhagen, Øster Voldgade 10, 1350 Copenhagen, Denmark.
4Department of Environmental Science, Aarhus University, Frederiksborgvej 399, 4000 Roskilde, Denmark.
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Catherine Larose
5Environmental Microbial Genomics, Laboratoire Ampere, CNRS UMR 5005, Ecole Centrale de Lyon, Université de Lyon, 36 avenue Guy de Collongue, 69134 Ecully cedex, France.
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Timothy M. Vogel
5Environmental Microbial Genomics, Laboratoire Ampere, CNRS UMR 5005, Ecole Centrale de Lyon, Université de Lyon, 36 avenue Guy de Collongue, 69134 Ecully cedex, France.
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Lorrie Maccario
2Section of Microbiology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen, Denmark.
5Environmental Microbial Genomics, Laboratoire Ampere, CNRS UMR 5005, Ecole Centrale de Lyon, Université de Lyon, 36 avenue Guy de Collongue, 69134 Ecully cedex, France.
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Samuel Jacquiod
2Section of Microbiology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen, Denmark.
6Agroécologie, AgroSup Dijon, INRA, Université Bourgogne Franche-Comté, 17 rue Sully, 21000 Dijon, France.
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Samuel Faucherre
1Center for Permafrost, Department of Geosciences and Natural Resource Management, University of Copenhagen, Øster Voldgade 10, 1350 Copenhagen, Denmark.
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Anders Priemé
1Center for Permafrost, Department of Geosciences and Natural Resource Management, University of Copenhagen, Øster Voldgade 10, 1350 Copenhagen, Denmark.
2Section of Microbiology, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen, Denmark.
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  • For correspondence: aprieme@bio.ku.dk
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Abstract

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.

Footnotes

  • Morten Dencker Schostag, msn{at}geus.dk

  • Muhammad Zohaib Anwar, mzanwar{at}envs.au.dk

  • Carsten Suhr Jacobsen, csj{at}envs.au.dk

  • Catherine Larose, catherine.larose{at}ec_lyon.fr

  • Timothy M. Vogel, timothy.vogel{at}ec_lyon.fr

  • Lorrie Maccario, lorrie.maccario{at}bio.ku.dk

  • Samuel Jacquiod, samjqd{at}gmail.com

  • Samuel Faucherre, samuel.faucherre{at}ign.ku.dk

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted April 04, 2019.
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Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome
Morten Dencker Schostag, Muhammad Zohaib Anwar, Carsten Suhr Jacobsen, Catherine Larose, Timothy M. Vogel, Lorrie Maccario, Samuel Jacquiod, Samuel Faucherre, Anders Priemé
bioRxiv 599233; doi: https://doi.org/10.1101/599233
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Transcriptomic responses to warming and cooling of an Arctic tundra soil microbiome
Morten Dencker Schostag, Muhammad Zohaib Anwar, Carsten Suhr Jacobsen, Catherine Larose, Timothy M. Vogel, Lorrie Maccario, Samuel Jacquiod, Samuel Faucherre, Anders Priemé
bioRxiv 599233; doi: https://doi.org/10.1101/599233

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