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Environmental paleomicrobiology: using DNA preserved in aquatic sediments to its full potential

In‐depth knowledge about spatial and temporal variation in microbial diversity and function is needed for a better understanding of ecological and evolutionary responses to global change. In particular, the study of microbial ancient DNA preserved in sediment archives from lakes and oceans can help...

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Autores principales: Capo, Eric, Monchamp, Marie‐Eve, Coolen, Marco J. L., Domaizon, Isabelle, Armbrecht, Linda, Bertilsson, Stefan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley & Sons, Inc. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9304175/
https://www.ncbi.nlm.nih.gov/pubmed/35049133
http://dx.doi.org/10.1111/1462-2920.15913
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author Capo, Eric
Monchamp, Marie‐Eve
Coolen, Marco J. L.
Domaizon, Isabelle
Armbrecht, Linda
Bertilsson, Stefan
author_facet Capo, Eric
Monchamp, Marie‐Eve
Coolen, Marco J. L.
Domaizon, Isabelle
Armbrecht, Linda
Bertilsson, Stefan
author_sort Capo, Eric
collection PubMed
description In‐depth knowledge about spatial and temporal variation in microbial diversity and function is needed for a better understanding of ecological and evolutionary responses to global change. In particular, the study of microbial ancient DNA preserved in sediment archives from lakes and oceans can help us to evaluate the responses of aquatic microbes in the past and make predictions about future biodiversity change in those ecosystems. Recent advances in molecular genetic methods applied to the analysis of historically deposited DNA in sediments have not only allowed the taxonomic identification of past aquatic microbial communities but also enabled tracing their evolution and adaptation to episodic disturbances and gradual environmental change. Nevertheless, some challenges remain for scientists to take full advantage of the rapidly developing field of paleo‐genetics, including the limited ability to detect rare taxa and reconstruct complete genomes for evolutionary studies. Here, we provide a brief review of some of the recent advances in the field of environmental paleomicrobiology and discuss remaining challenges related to the application of molecular genetic methods to study microbial diversity, ecology, and evolution in sediment archives. We anticipate that, in the near future, environmental paleomicrobiology will shed new light on the processes of microbial genome evolution and microbial ecosystem responses to quaternary environmental changes at an unprecedented level of detail. This information can, for example, aid geological reconstructions of biogeochemical cycles and predict ecosystem responses to environmental perturbations, including in the context of human‐induced global changes.
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spelling pubmed-93041752022-07-28 Environmental paleomicrobiology: using DNA preserved in aquatic sediments to its full potential Capo, Eric Monchamp, Marie‐Eve Coolen, Marco J. L. Domaizon, Isabelle Armbrecht, Linda Bertilsson, Stefan Environ Microbiol Minireviews In‐depth knowledge about spatial and temporal variation in microbial diversity and function is needed for a better understanding of ecological and evolutionary responses to global change. In particular, the study of microbial ancient DNA preserved in sediment archives from lakes and oceans can help us to evaluate the responses of aquatic microbes in the past and make predictions about future biodiversity change in those ecosystems. Recent advances in molecular genetic methods applied to the analysis of historically deposited DNA in sediments have not only allowed the taxonomic identification of past aquatic microbial communities but also enabled tracing their evolution and adaptation to episodic disturbances and gradual environmental change. Nevertheless, some challenges remain for scientists to take full advantage of the rapidly developing field of paleo‐genetics, including the limited ability to detect rare taxa and reconstruct complete genomes for evolutionary studies. Here, we provide a brief review of some of the recent advances in the field of environmental paleomicrobiology and discuss remaining challenges related to the application of molecular genetic methods to study microbial diversity, ecology, and evolution in sediment archives. We anticipate that, in the near future, environmental paleomicrobiology will shed new light on the processes of microbial genome evolution and microbial ecosystem responses to quaternary environmental changes at an unprecedented level of detail. This information can, for example, aid geological reconstructions of biogeochemical cycles and predict ecosystem responses to environmental perturbations, including in the context of human‐induced global changes. John Wiley & Sons, Inc. 2022-02-07 2022-05 /pmc/articles/PMC9304175/ /pubmed/35049133 http://dx.doi.org/10.1111/1462-2920.15913 Text en © 2022 The Authors. Environmental Microbiology published by Society for Applied Microbiology and John Wiley & Sons Ltd. https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc-nd/4.0/ (https://creativecommons.org/licenses/by-nc-nd/4.0/) License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non‐commercial and no modifications or adaptations are made.
spellingShingle Minireviews
Capo, Eric
Monchamp, Marie‐Eve
Coolen, Marco J. L.
Domaizon, Isabelle
Armbrecht, Linda
Bertilsson, Stefan
Environmental paleomicrobiology: using DNA preserved in aquatic sediments to its full potential
title Environmental paleomicrobiology: using DNA preserved in aquatic sediments to its full potential
title_full Environmental paleomicrobiology: using DNA preserved in aquatic sediments to its full potential
title_fullStr Environmental paleomicrobiology: using DNA preserved in aquatic sediments to its full potential
title_full_unstemmed Environmental paleomicrobiology: using DNA preserved in aquatic sediments to its full potential
title_short Environmental paleomicrobiology: using DNA preserved in aquatic sediments to its full potential
title_sort environmental paleomicrobiology: using dna preserved in aquatic sediments to its full potential
topic Minireviews
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9304175/
https://www.ncbi.nlm.nih.gov/pubmed/35049133
http://dx.doi.org/10.1111/1462-2920.15913
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