Enterotypes of the human gut microbiome

Manimozhiyan Arumugam, Jeroen Raes, Eric Pelletier, Denis Le Paslier, Takuji Yamada, Daniel R. Mende, Gabriel R. Fernandes, Julien Tap, Thomas Bruls, Jean Michel Batto, Marcelo Bertalan, Natalia Borruel, Francesc Casellas, Leyden Fernandez, Laurent Gautier, Torben Hansen, Masahira Hattori, Tetsuya Hayashi, Michiel Kleerebezem, Ken KurokawaMarion Leclerc, Florence Levenez, Chaysavanh Manichanh, H. Bjã̧rn Nielsen, Trine Nielsen, Nicolas Pons, Julie Poulain, Junjie Qin, Thomas Sicheritz-Ponten, Sebastian Tims, David Torrents, Edgardo Ugarte, Erwin G. Zoetendal, Jun Wang, Francisco Guarner, Oluf Pedersen, Willem M. De Vos, Søren Brunak, Joel Doré, Jean Weissenbach, S. Dusko Ehrlich, Peer Bork

Research output: Contribution to journalArticle

2862 Citations (Scopus)

Abstract

Our knowledge of species and functional composition of the human gut microbiome is rapidly increasing, but it is still based on very few cohorts and little is known about variation across the world. By combining 22 newly sequenced faecal metagenomes of individuals from four countries with previously published data sets, here we identify three robust clusters (referred to as enterotypes hereafter) that are not nation or continent specific. We also confirmed the enterotypes in two published, larger cohorts, indicating that intestinal microbiota variation is generally stratified, not continuous. This indicates further the existence of a limited number of well-balanced host-microbial symbiotic states that might respond differently to diet and drug intake. The enterotypes are mostly driven by species composition, but abundant molecular functions are not necessarily provided by abundant species, highlighting the importance of a functional analysis to understand microbial communities. Although individual host properties such as body mass index, age, or gender cannot explain the observed enterotypes, data-driven marker genes or functional modules can be identified for each of these host properties. For example, twelve genes significantly correlate with age and three functional modules with the body mass index, hinting at a diagnostic potential of microbial markers.

Original languageEnglish
Pages (from-to)174-180
Number of pages7
JournalNature
Volume473
Issue number7346
DOIs
Publication statusPublished - 2011 May 12
Externally publishedYes

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digestive system
body mass index
intestinal microorganisms
microbial communities
species diversity
drugs
genetic markers
gender
diet
microbiome
genes

ASJC Scopus subject areas

  • General

Cite this

Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D. R., ... Bork, P. (2011). Enterotypes of the human gut microbiome. Nature, 473(7346), 174-180. https://doi.org/10.1038/nature09944

Enterotypes of the human gut microbiome. / Arumugam, Manimozhiyan; Raes, Jeroen; Pelletier, Eric; Le Paslier, Denis; Yamada, Takuji; Mende, Daniel R.; Fernandes, Gabriel R.; Tap, Julien; Bruls, Thomas; Batto, Jean Michel; Bertalan, Marcelo; Borruel, Natalia; Casellas, Francesc; Fernandez, Leyden; Gautier, Laurent; Hansen, Torben; Hattori, Masahira; Hayashi, Tetsuya; Kleerebezem, Michiel; Kurokawa, Ken; Leclerc, Marion; Levenez, Florence; Manichanh, Chaysavanh; Nielsen, H. Bjã̧rn; Nielsen, Trine; Pons, Nicolas; Poulain, Julie; Qin, Junjie; Sicheritz-Ponten, Thomas; Tims, Sebastian; Torrents, David; Ugarte, Edgardo; Zoetendal, Erwin G.; Wang, Jun; Guarner, Francisco; Pedersen, Oluf; De Vos, Willem M.; Brunak, Søren; Doré, Joel; Weissenbach, Jean; Ehrlich, S. Dusko; Bork, Peer.

In: Nature, Vol. 473, No. 7346, 12.05.2011, p. 174-180.

Research output: Contribution to journalArticle

Arumugam, M, Raes, J, Pelletier, E, Le Paslier, D, Yamada, T, Mende, DR, Fernandes, GR, Tap, J, Bruls, T, Batto, JM, Bertalan, M, Borruel, N, Casellas, F, Fernandez, L, Gautier, L, Hansen, T, Hattori, M, Hayashi, T, Kleerebezem, M, Kurokawa, K, Leclerc, M, Levenez, F, Manichanh, C, Nielsen, HB, Nielsen, T, Pons, N, Poulain, J, Qin, J, Sicheritz-Ponten, T, Tims, S, Torrents, D, Ugarte, E, Zoetendal, EG, Wang, J, Guarner, F, Pedersen, O, De Vos, WM, Brunak, S, Doré, J, Weissenbach, J, Ehrlich, SD & Bork, P 2011, 'Enterotypes of the human gut microbiome', Nature, vol. 473, no. 7346, pp. 174-180. https://doi.org/10.1038/nature09944
Arumugam M, Raes J, Pelletier E, Le Paslier D, Yamada T, Mende DR et al. Enterotypes of the human gut microbiome. Nature. 2011 May 12;473(7346):174-180. https://doi.org/10.1038/nature09944
Arumugam, Manimozhiyan ; Raes, Jeroen ; Pelletier, Eric ; Le Paslier, Denis ; Yamada, Takuji ; Mende, Daniel R. ; Fernandes, Gabriel R. ; Tap, Julien ; Bruls, Thomas ; Batto, Jean Michel ; Bertalan, Marcelo ; Borruel, Natalia ; Casellas, Francesc ; Fernandez, Leyden ; Gautier, Laurent ; Hansen, Torben ; Hattori, Masahira ; Hayashi, Tetsuya ; Kleerebezem, Michiel ; Kurokawa, Ken ; Leclerc, Marion ; Levenez, Florence ; Manichanh, Chaysavanh ; Nielsen, H. Bjã̧rn ; Nielsen, Trine ; Pons, Nicolas ; Poulain, Julie ; Qin, Junjie ; Sicheritz-Ponten, Thomas ; Tims, Sebastian ; Torrents, David ; Ugarte, Edgardo ; Zoetendal, Erwin G. ; Wang, Jun ; Guarner, Francisco ; Pedersen, Oluf ; De Vos, Willem M. ; Brunak, Søren ; Doré, Joel ; Weissenbach, Jean ; Ehrlich, S. Dusko ; Bork, Peer. / Enterotypes of the human gut microbiome. In: Nature. 2011 ; Vol. 473, No. 7346. pp. 174-180.
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