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Metagenomic Insight into Environmentally Challenged Methane-Fed Microbial Communities
In this study, we aimed to investigate, through high-resolution metagenomics and metatranscriptomics, the composition and the trajectories of microbial communities originating from a natural sample, fed exclusively with methane, over 14 weeks of laboratory incubation. This study builds on our prior...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7589939/ https://www.ncbi.nlm.nih.gov/pubmed/33092280 http://dx.doi.org/10.3390/microorganisms8101614 |
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author | Zheng, Yue Wang, Huan Yu, Zheng Haroon, Fauzi Hernández, Maria E. Chistoserdova, Ludmila |
author_facet | Zheng, Yue Wang, Huan Yu, Zheng Haroon, Fauzi Hernández, Maria E. Chistoserdova, Ludmila |
author_sort | Zheng, Yue |
collection | PubMed |
description | In this study, we aimed to investigate, through high-resolution metagenomics and metatranscriptomics, the composition and the trajectories of microbial communities originating from a natural sample, fed exclusively with methane, over 14 weeks of laboratory incubation. This study builds on our prior data, suggesting that multiple functional guilds feed on methane, likely through guild-to-guild carbon transfer, and potentially through intraguild and intraspecies interactions. We observed that, under two simulated dioxygen partial pressures—low versus high—community trajectories were different, with considerable variability among the replicates. In all microcosms, four major functional guilds were prominently present, representing Methylococcaceae (the true methanotrophs), Methylophilaceae (the nonmethanotrophic methylotrophs), Burkholderiales, and Bacteroidetes. Additional functional guilds were detected in multiple samples, such as members of Opitutae, as well as the predatory species, suggesting additional complexity for methane-oxidizing communities. Metatranscriptomic analysis suggested simultaneous expression of the two alternative types of methanol dehydrogenases in both Methylococcaceae and Methylophilaceae, while high expression of the oxidative/nitrosative stress response genes suggested competition for dioxygen among the community members. The transcriptomic analysis further suggested that Burkholderiales likely feed on acetate that is produced by Methylococcaceae under hypoxic conditions, while Bacteroidetes likely feed on biopolymers produced by both Methylococcaceae and Methylophilaceae. |
format | Online Article Text |
id | pubmed-7589939 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-75899392020-10-29 Metagenomic Insight into Environmentally Challenged Methane-Fed Microbial Communities Zheng, Yue Wang, Huan Yu, Zheng Haroon, Fauzi Hernández, Maria E. Chistoserdova, Ludmila Microorganisms Article In this study, we aimed to investigate, through high-resolution metagenomics and metatranscriptomics, the composition and the trajectories of microbial communities originating from a natural sample, fed exclusively with methane, over 14 weeks of laboratory incubation. This study builds on our prior data, suggesting that multiple functional guilds feed on methane, likely through guild-to-guild carbon transfer, and potentially through intraguild and intraspecies interactions. We observed that, under two simulated dioxygen partial pressures—low versus high—community trajectories were different, with considerable variability among the replicates. In all microcosms, four major functional guilds were prominently present, representing Methylococcaceae (the true methanotrophs), Methylophilaceae (the nonmethanotrophic methylotrophs), Burkholderiales, and Bacteroidetes. Additional functional guilds were detected in multiple samples, such as members of Opitutae, as well as the predatory species, suggesting additional complexity for methane-oxidizing communities. Metatranscriptomic analysis suggested simultaneous expression of the two alternative types of methanol dehydrogenases in both Methylococcaceae and Methylophilaceae, while high expression of the oxidative/nitrosative stress response genes suggested competition for dioxygen among the community members. The transcriptomic analysis further suggested that Burkholderiales likely feed on acetate that is produced by Methylococcaceae under hypoxic conditions, while Bacteroidetes likely feed on biopolymers produced by both Methylococcaceae and Methylophilaceae. MDPI 2020-10-20 /pmc/articles/PMC7589939/ /pubmed/33092280 http://dx.doi.org/10.3390/microorganisms8101614 Text en © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Zheng, Yue Wang, Huan Yu, Zheng Haroon, Fauzi Hernández, Maria E. Chistoserdova, Ludmila Metagenomic Insight into Environmentally Challenged Methane-Fed Microbial Communities |
title | Metagenomic Insight into Environmentally Challenged Methane-Fed Microbial Communities |
title_full | Metagenomic Insight into Environmentally Challenged Methane-Fed Microbial Communities |
title_fullStr | Metagenomic Insight into Environmentally Challenged Methane-Fed Microbial Communities |
title_full_unstemmed | Metagenomic Insight into Environmentally Challenged Methane-Fed Microbial Communities |
title_short | Metagenomic Insight into Environmentally Challenged Methane-Fed Microbial Communities |
title_sort | metagenomic insight into environmentally challenged methane-fed microbial communities |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7589939/ https://www.ncbi.nlm.nih.gov/pubmed/33092280 http://dx.doi.org/10.3390/microorganisms8101614 |
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