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Functional capacities of microbial communities to carry out large scale geochemical processes are maintained during ex situ anaerobic incubation

Mechanisms controlling CO(2) and CH(4) production in wetlands are central to understanding carbon cycling and greenhouse gas exchange. However, the volatility of these respiration products complicates quantifying their rates of production in the field. Attempts to circumvent the challenges through c...

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Autores principales: Wilson, R. M., Zayed, A. A., Crossen, K. B., Woodcroft, B., Tfaily, M. M., Emerson, J., Raab, N., Hodgkins, S. B., Verbeke, B., Tyson, G., Crill, P., Saleska, S., Chanton, J. P., Rich, V. I.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7906461/
https://www.ncbi.nlm.nih.gov/pubmed/33630888
http://dx.doi.org/10.1371/journal.pone.0245857
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author Wilson, R. M.
Zayed, A. A.
Crossen, K. B.
Woodcroft, B.
Tfaily, M. M.
Emerson, J.
Raab, N.
Hodgkins, S. B.
Verbeke, B.
Tyson, G.
Crill, P.
Saleska, S.
Chanton, J. P.
Rich, V. I.
author_facet Wilson, R. M.
Zayed, A. A.
Crossen, K. B.
Woodcroft, B.
Tfaily, M. M.
Emerson, J.
Raab, N.
Hodgkins, S. B.
Verbeke, B.
Tyson, G.
Crill, P.
Saleska, S.
Chanton, J. P.
Rich, V. I.
author_sort Wilson, R. M.
collection PubMed
description Mechanisms controlling CO(2) and CH(4) production in wetlands are central to understanding carbon cycling and greenhouse gas exchange. However, the volatility of these respiration products complicates quantifying their rates of production in the field. Attempts to circumvent the challenges through closed system incubations, from which gases cannot escape, have been used to investigate bulk in situ geochemistry. Efforts towards mapping mechanistic linkages between geochemistry and microbiology have raised concern regarding sampling and incubation-induced perturbations. Microorganisms are impacted by oxygen exposure, increased temperatures and accumulation of metabolic products during handling, storage, and incubation. We probed the extent of these perturbations, and their influence on incubation results, using high-resolution geochemical and microbial gene-based community profiling of anaerobically incubated material from three wetland habitats across a permafrost peatland. We compared the original field samples to the material anaerobically incubated over 50 days. Bulk geochemistry and phylum-level microbiota in incubations largely reflected field observations, but divergence between field and incubations occurred in both geochemistry and lineage-level microbial composition when examined at closer resolution. Despite the changes in representative lineages over time, inferred metabolic function with regards to carbon cycling largely reproduced field results suggesting functional consistency. Habitat differences among the source materials remained the largest driver of variation in geochemical and microbial differences among the samples in both incubations and field results. While incubations may have limited usefulness for identifying specific mechanisms, they remain a viable tool for probing bulk-scale questions related to anaerobic C cycling, including CO(2) and CH(4) dynamics.
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spelling pubmed-79064612021-03-03 Functional capacities of microbial communities to carry out large scale geochemical processes are maintained during ex situ anaerobic incubation Wilson, R. M. Zayed, A. A. Crossen, K. B. Woodcroft, B. Tfaily, M. M. Emerson, J. Raab, N. Hodgkins, S. B. Verbeke, B. Tyson, G. Crill, P. Saleska, S. Chanton, J. P. Rich, V. I. PLoS One Research Article Mechanisms controlling CO(2) and CH(4) production in wetlands are central to understanding carbon cycling and greenhouse gas exchange. However, the volatility of these respiration products complicates quantifying their rates of production in the field. Attempts to circumvent the challenges through closed system incubations, from which gases cannot escape, have been used to investigate bulk in situ geochemistry. Efforts towards mapping mechanistic linkages between geochemistry and microbiology have raised concern regarding sampling and incubation-induced perturbations. Microorganisms are impacted by oxygen exposure, increased temperatures and accumulation of metabolic products during handling, storage, and incubation. We probed the extent of these perturbations, and their influence on incubation results, using high-resolution geochemical and microbial gene-based community profiling of anaerobically incubated material from three wetland habitats across a permafrost peatland. We compared the original field samples to the material anaerobically incubated over 50 days. Bulk geochemistry and phylum-level microbiota in incubations largely reflected field observations, but divergence between field and incubations occurred in both geochemistry and lineage-level microbial composition when examined at closer resolution. Despite the changes in representative lineages over time, inferred metabolic function with regards to carbon cycling largely reproduced field results suggesting functional consistency. Habitat differences among the source materials remained the largest driver of variation in geochemical and microbial differences among the samples in both incubations and field results. While incubations may have limited usefulness for identifying specific mechanisms, they remain a viable tool for probing bulk-scale questions related to anaerobic C cycling, including CO(2) and CH(4) dynamics. Public Library of Science 2021-02-25 /pmc/articles/PMC7906461/ /pubmed/33630888 http://dx.doi.org/10.1371/journal.pone.0245857 Text en © 2021 Wilson et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
Wilson, R. M.
Zayed, A. A.
Crossen, K. B.
Woodcroft, B.
Tfaily, M. M.
Emerson, J.
Raab, N.
Hodgkins, S. B.
Verbeke, B.
Tyson, G.
Crill, P.
Saleska, S.
Chanton, J. P.
Rich, V. I.
Functional capacities of microbial communities to carry out large scale geochemical processes are maintained during ex situ anaerobic incubation
title Functional capacities of microbial communities to carry out large scale geochemical processes are maintained during ex situ anaerobic incubation
title_full Functional capacities of microbial communities to carry out large scale geochemical processes are maintained during ex situ anaerobic incubation
title_fullStr Functional capacities of microbial communities to carry out large scale geochemical processes are maintained during ex situ anaerobic incubation
title_full_unstemmed Functional capacities of microbial communities to carry out large scale geochemical processes are maintained during ex situ anaerobic incubation
title_short Functional capacities of microbial communities to carry out large scale geochemical processes are maintained during ex situ anaerobic incubation
title_sort functional capacities of microbial communities to carry out large scale geochemical processes are maintained during ex situ anaerobic incubation
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7906461/
https://www.ncbi.nlm.nih.gov/pubmed/33630888
http://dx.doi.org/10.1371/journal.pone.0245857
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