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The human gut archaeome: identification of diverse haloarchaea in Korean subjects

BACKGROUND: Archaea are one of the least-studied members of the gut-dwelling autochthonous microbiota. Few studies have reported the dominance of methanogens in the archaeal microbiome (archaeome) of the human gut, although limited information regarding the diversity and abundance of other archaeal...

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Autores principales: Kim, Joon Yong, Whon, Tae Woong, Lim, Mi Young, Kim, Yeon Bee, Kim, Namhee, Kwon, Min-Sung, Kim, Juseok, Lee, Se Hee, Choi, Hak-Jong, Nam, In-Hyun, Chung, Won-Hyong, Kim, Jung-Ha, Bae, Jin-Woo, Roh, Seong Woon, Nam, Young-Do
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7409454/
https://www.ncbi.nlm.nih.gov/pubmed/32753050
http://dx.doi.org/10.1186/s40168-020-00894-x
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author Kim, Joon Yong
Whon, Tae Woong
Lim, Mi Young
Kim, Yeon Bee
Kim, Namhee
Kwon, Min-Sung
Kim, Juseok
Lee, Se Hee
Choi, Hak-Jong
Nam, In-Hyun
Chung, Won-Hyong
Kim, Jung-Ha
Bae, Jin-Woo
Roh, Seong Woon
Nam, Young-Do
author_facet Kim, Joon Yong
Whon, Tae Woong
Lim, Mi Young
Kim, Yeon Bee
Kim, Namhee
Kwon, Min-Sung
Kim, Juseok
Lee, Se Hee
Choi, Hak-Jong
Nam, In-Hyun
Chung, Won-Hyong
Kim, Jung-Ha
Bae, Jin-Woo
Roh, Seong Woon
Nam, Young-Do
author_sort Kim, Joon Yong
collection PubMed
description BACKGROUND: Archaea are one of the least-studied members of the gut-dwelling autochthonous microbiota. Few studies have reported the dominance of methanogens in the archaeal microbiome (archaeome) of the human gut, although limited information regarding the diversity and abundance of other archaeal phylotypes is available. RESULTS: We surveyed the archaeome of faecal samples collected from 897 East Asian subjects living in South Korea. In total, 42.47% faecal samples were positive for archaeal colonisation; these were subsequently subjected to archaeal 16S rRNA gene deep sequencing and real-time quantitative polymerase chain reaction-based abundance estimation. The mean archaeal relative abundance was 10.24 ± 4.58% of the total bacterial and archaeal abundance. We observed extensive colonisation of haloarchaea (95.54%) in the archaea-positive faecal samples, with 9.63% mean relative abundance in archaeal communities. Haloarchaea were relatively more abundant than methanogens in some samples. The presence of haloarchaea was also verified by fluorescence in situ hybridisation analysis. Owing to large inter-individual variations, we categorised the human gut archaeome into four archaeal enterotypes. CONCLUSIONS: The study demonstrated that the human gut archaeome is indigenous, responsive, and functional, expanding our understanding of the archaeal signature in the gut of human individuals.
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spelling pubmed-74094542020-08-07 The human gut archaeome: identification of diverse haloarchaea in Korean subjects Kim, Joon Yong Whon, Tae Woong Lim, Mi Young Kim, Yeon Bee Kim, Namhee Kwon, Min-Sung Kim, Juseok Lee, Se Hee Choi, Hak-Jong Nam, In-Hyun Chung, Won-Hyong Kim, Jung-Ha Bae, Jin-Woo Roh, Seong Woon Nam, Young-Do Microbiome Research BACKGROUND: Archaea are one of the least-studied members of the gut-dwelling autochthonous microbiota. Few studies have reported the dominance of methanogens in the archaeal microbiome (archaeome) of the human gut, although limited information regarding the diversity and abundance of other archaeal phylotypes is available. RESULTS: We surveyed the archaeome of faecal samples collected from 897 East Asian subjects living in South Korea. In total, 42.47% faecal samples were positive for archaeal colonisation; these were subsequently subjected to archaeal 16S rRNA gene deep sequencing and real-time quantitative polymerase chain reaction-based abundance estimation. The mean archaeal relative abundance was 10.24 ± 4.58% of the total bacterial and archaeal abundance. We observed extensive colonisation of haloarchaea (95.54%) in the archaea-positive faecal samples, with 9.63% mean relative abundance in archaeal communities. Haloarchaea were relatively more abundant than methanogens in some samples. The presence of haloarchaea was also verified by fluorescence in situ hybridisation analysis. Owing to large inter-individual variations, we categorised the human gut archaeome into four archaeal enterotypes. CONCLUSIONS: The study demonstrated that the human gut archaeome is indigenous, responsive, and functional, expanding our understanding of the archaeal signature in the gut of human individuals. BioMed Central 2020-08-04 /pmc/articles/PMC7409454/ /pubmed/32753050 http://dx.doi.org/10.1186/s40168-020-00894-x Text en © The Author(s) 2020 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
Kim, Joon Yong
Whon, Tae Woong
Lim, Mi Young
Kim, Yeon Bee
Kim, Namhee
Kwon, Min-Sung
Kim, Juseok
Lee, Se Hee
Choi, Hak-Jong
Nam, In-Hyun
Chung, Won-Hyong
Kim, Jung-Ha
Bae, Jin-Woo
Roh, Seong Woon
Nam, Young-Do
The human gut archaeome: identification of diverse haloarchaea in Korean subjects
title The human gut archaeome: identification of diverse haloarchaea in Korean subjects
title_full The human gut archaeome: identification of diverse haloarchaea in Korean subjects
title_fullStr The human gut archaeome: identification of diverse haloarchaea in Korean subjects
title_full_unstemmed The human gut archaeome: identification of diverse haloarchaea in Korean subjects
title_short The human gut archaeome: identification of diverse haloarchaea in Korean subjects
title_sort human gut archaeome: identification of diverse haloarchaea in korean subjects
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7409454/
https://www.ncbi.nlm.nih.gov/pubmed/32753050
http://dx.doi.org/10.1186/s40168-020-00894-x
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