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Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies

BACKGROUND: Soil methanogens participate in complex interactions, which determine the community structures and functions. Studies continue to seek the coexistence patterns of soil methanogens, influencing factors and the contribution to methane (CH(4)) production, which are regulated primarily by sp...

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Autores principales: Li, Dong, Ni, Haowei, Jiao, Shuo, Lu, Yahai, Zhou, Jizhong, Sun, Bo, Liang, Yuting
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7825242/
https://www.ncbi.nlm.nih.gov/pubmed/33482926
http://dx.doi.org/10.1186/s40168-020-00978-8
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author Li, Dong
Ni, Haowei
Jiao, Shuo
Lu, Yahai
Zhou, Jizhong
Sun, Bo
Liang, Yuting
author_facet Li, Dong
Ni, Haowei
Jiao, Shuo
Lu, Yahai
Zhou, Jizhong
Sun, Bo
Liang, Yuting
author_sort Li, Dong
collection PubMed
description BACKGROUND: Soil methanogens participate in complex interactions, which determine the community structures and functions. Studies continue to seek the coexistence patterns of soil methanogens, influencing factors and the contribution to methane (CH(4)) production, which are regulated primarily by species interactions, and the functional significance of these interactions. Here, methane emissions were measured in rice paddies across the Asian continent, and the complex interactions involved in coexistence patterns of methanogenic archaeal communities were represented as pairwise links in co-occurrence networks. RESULTS: The network topological properties, which were positively correlated with mean annual temperature, were the most important predictor of CH(4) emissions among all the biotic and abiotic factors. The methanogenic groups involved in commonly co-occurring links among the 39 local networks contributed most to CH(4) emission (53.3%), much higher than the contribution of methanogenic groups with endemic links (36.8%). The potential keystone taxa, belonging to Methanobacterium, Methanocella, Methanothrix, and Methanosarcina, possessed high linkages with the methane generation functional genes mcrA, fwdB, mtbA, and mtbC. Moreover, the commonly coexisting taxa showed a very different assembly pattern, with ~ 30% determinism and ~ 70% stochasticity. In contrast, a higher proportion of stochasticity (93~99%) characterized the assembly of endemically coexisting taxa. CONCLUSIONS: These results suggest that the coexistence patterns of microbes are closely tied to their functional significance, and the potential importance of common coexistence further imply that complex networks of interactions may contribute more than species diversity to soil functions. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s40168-020-00978-8.
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spelling pubmed-78252422021-01-25 Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies Li, Dong Ni, Haowei Jiao, Shuo Lu, Yahai Zhou, Jizhong Sun, Bo Liang, Yuting Microbiome Research BACKGROUND: Soil methanogens participate in complex interactions, which determine the community structures and functions. Studies continue to seek the coexistence patterns of soil methanogens, influencing factors and the contribution to methane (CH(4)) production, which are regulated primarily by species interactions, and the functional significance of these interactions. Here, methane emissions were measured in rice paddies across the Asian continent, and the complex interactions involved in coexistence patterns of methanogenic archaeal communities were represented as pairwise links in co-occurrence networks. RESULTS: The network topological properties, which were positively correlated with mean annual temperature, were the most important predictor of CH(4) emissions among all the biotic and abiotic factors. The methanogenic groups involved in commonly co-occurring links among the 39 local networks contributed most to CH(4) emission (53.3%), much higher than the contribution of methanogenic groups with endemic links (36.8%). The potential keystone taxa, belonging to Methanobacterium, Methanocella, Methanothrix, and Methanosarcina, possessed high linkages with the methane generation functional genes mcrA, fwdB, mtbA, and mtbC. Moreover, the commonly coexisting taxa showed a very different assembly pattern, with ~ 30% determinism and ~ 70% stochasticity. In contrast, a higher proportion of stochasticity (93~99%) characterized the assembly of endemically coexisting taxa. CONCLUSIONS: These results suggest that the coexistence patterns of microbes are closely tied to their functional significance, and the potential importance of common coexistence further imply that complex networks of interactions may contribute more than species diversity to soil functions. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s40168-020-00978-8. BioMed Central 2021-01-22 /pmc/articles/PMC7825242/ /pubmed/33482926 http://dx.doi.org/10.1186/s40168-020-00978-8 Text en © The Author(s) 2021 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research
Li, Dong
Ni, Haowei
Jiao, Shuo
Lu, Yahai
Zhou, Jizhong
Sun, Bo
Liang, Yuting
Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies
title Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies
title_full Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies
title_fullStr Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies
title_full_unstemmed Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies
title_short Coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies
title_sort coexistence patterns of soil methanogens are closely tied to methane generation and community assembly in rice paddies
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7825242/
https://www.ncbi.nlm.nih.gov/pubmed/33482926
http://dx.doi.org/10.1186/s40168-020-00978-8
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