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タイトル: | Biome-specific distribution of Ni-containing carbon monoxide dehydrogenases |
著者: | Inoue, Masao Omae, Kimiho Nakamoto, Issei Kamikawa, Ryoma Yoshida, Takashi https://orcid.org/0000-0002-5257-0617 (unconfirmed) Sako, Yoshihiko |
著者名の別形: | 井上, 真男 中元, 一星 神川, 龍馬 吉田, 天士 左子, 芳彦 |
キーワード: | Carbon monoxide Microbiome Metagenome Carbon monoxide dehydrogenase Phylogeny Protein evolution |
発行日: | Apr-2022 |
出版者: | Springer Nature |
誌名: | Extremophiles |
巻: | 26 |
号: | 1 |
論文番号: | 9 |
抄録: | Ni-containing carbon monoxide dehydrogenase (Ni-CODH) plays an important role in the CO/CO₂-based carbon and energy metabolism of microbiomes. Ni-CODH is classified into distinct phylogenetic clades, A–G, with possibly distinct cellular roles. However, the types of Ni-CODH clade used by organisms in different microbiomes are unknown. Here, we conducted a metagenomic survey of a protein database to determine the relationship between the phylogeny and biome distribution of Ni-CODHs. Clustering and phylogenetic analyses showed that the metagenome assembly-derived Ni-CODH sequences were distributed in ~ 60% Ni-CODH clusters and in all Ni-CODH clades. We also identified a novel Ni-CODH clade, clade H. Biome mapping on the Ni-CODH phylogenetic tree revealed that Ni-CODHs of almost all the clades were found in natural aquatic environmental and engineered samples, whereas those of specific subclades were found only in host-associated samples. These results are comparable with our finding that the diversity in the phylum-level taxonomy of host-associated Ni-CODH owners is statistically different from those of the other biomes. Our findings suggest that while Ni-CODH is a ubiquitous enzyme produced across diverse microbiomes, its distribution in each clade is biased and mainly affected by the distinct composition of microbiomes. |
著作権等: | © The Author(s) 2022 This 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. |
URI: | http://hdl.handle.net/2433/277075 |
DOI(出版社版): | 10.1007/s00792-022-01259-y |
PubMed ID: | 35059858 |
出現コレクション: | 学術雑誌掲載論文等 |
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