Richness of human gut microbiome correlates with metabolic markers

Emmanuelle Le Chatelier, Trine Nielsen, Junjie Qin, Edi Prifti, Falk Hildebrand, Gwen Falony, Mathieu Almeida, Manimozhiyan Arumugam, Jean-Michel Batto, Sean Kennedy, Pierre Leonard, Junhua Li, Kristoffer Burgdorf, Niels Grarup, Torben Jørgensen, Ivan Brandslund, Henrik Bjørn Nielsen, Agnieszka S. Juncker, Marcelo Bertalan, Florence Levenez, Nicolas Pons, Simon Rasmussen, Shinichi Sunagawa, Julien Tap, Sebastian Tims, Erwin G. Zoetendal, Søren Brunak, Karine Clément, Joël Doré, Michiel Kleerebezem, Karsten Kristiansen, Pierre Renault, Thomas Sicheritz-Ponten, Willem M. de Vos, Jean-Daniel Zucker, Jeroen Raes, Torben Hansen, Peer Bork (), Jun Wang (), S. Dusko Ehrlich () and Oluf Pedersen ()
Additional contact information
Emmanuelle Le Chatelier: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Trine Nielsen: The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, DK-2200 Copenhagen, Denmark
Junjie Qin: BGI-Shenzhen
Edi Prifti: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Falk Hildebrand: VIB, Pleinlaan 2, 1050 Brussels, Belgium
Gwen Falony: VIB, Pleinlaan 2, 1050 Brussels, Belgium
Mathieu Almeida: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Manimozhiyan Arumugam: The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, DK-2200 Copenhagen, Denmark
Jean-Michel Batto: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Sean Kennedy: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Pierre Leonard: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Junhua Li: BGI-Shenzhen
Kristoffer Burgdorf: The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, DK-2200 Copenhagen, Denmark
Niels Grarup: The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, DK-2200 Copenhagen, Denmark
Torben Jørgensen: Research Centre for Prevention and Health, Glostrup University Hospital, DK-2900 Glostrup, Denmark
Ivan Brandslund: Vejle Hospital, DK-7100 Vejle, Denmark
Henrik Bjørn Nielsen: Center for Biological Sequence Analysis & Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Kongens Lyngby, Denmark
Agnieszka S. Juncker: Center for Biological Sequence Analysis & Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Kongens Lyngby, Denmark
Marcelo Bertalan: Center for Biological Sequence Analysis & Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Kongens Lyngby, Denmark
Florence Levenez: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Nicolas Pons: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Simon Rasmussen: Center for Biological Sequence Analysis & Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Kongens Lyngby, Denmark
Shinichi Sunagawa: European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany
Julien Tap: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Sebastian Tims: Laboratory of Microbiology, Wageningen University, 6710BA Ede, The Netherlands
Erwin G. Zoetendal: Laboratory of Microbiology, Wageningen University, 6710BA Ede, The Netherlands
Søren Brunak: Center for Biological Sequence Analysis & Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Kongens Lyngby, Denmark
Karine Clément: Institut National de la Santé et de la Recherche Médicale, U 872, Nutriomique, Équipe 7, Centre de Recherches des Cordeliers, 75006 Paris, France
Joël Doré: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Michiel Kleerebezem: Laboratory of Microbiology, Wageningen University, 6710BA Ede, The Netherlands
Karsten Kristiansen: Ole Maaløes Vej 5, University of Copenhagen, DK-2200 Copenhagen, Denmark
Pierre Renault: INRA, Institut National de la Recherche Agronomique, UMR 14121 MICALIS, 78350 Jouy en Josas, France
Thomas Sicheritz-Ponten: Center for Biological Sequence Analysis & Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Kongens Lyngby, Denmark
Willem M. de Vos: Laboratory of Microbiology, Wageningen University, 6710BA Ede, The Netherlands
Jean-Daniel Zucker: Institut National de la Santé et de la Recherche Médicale, U 872, Nutriomique, Équipe 7, Centre de Recherches des Cordeliers, 75006 Paris, France
Jeroen Raes: VIB, Pleinlaan 2, 1050 Brussels, Belgium
Torben Hansen: The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, DK-2200 Copenhagen, Denmark
Peer Bork: European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany
Jun Wang: BGI-Shenzhen
S. Dusko Ehrlich: INRA, Institut National de la Recherche Agronomique, US1367 Metagenopolis, 78350 Jouy en Josas, France
Oluf Pedersen: The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, DK-2200 Copenhagen, Denmark

Nature, 2013, vol. 500, issue 7464, 541-546

Abstract: Abstract We are facing a global metabolic health crisis provoked by an obesity epidemic. Here we report the human gut microbial composition in a population sample of 123 non-obese and 169 obese Danish individuals. We find two groups of individuals that differ by the number of gut microbial genes and thus gut bacterial richness. They contain known and previously unknown bacterial species at different proportions; individuals with a low bacterial richness (23% of the population) are characterized by more marked overall adiposity, insulin resistance and dyslipidaemia and a more pronounced inflammatory phenotype when compared with high bacterial richness individuals. The obese individuals among the lower bacterial richness group also gain more weight over time. Only a few bacterial species are sufficient to distinguish between individuals with high and low bacterial richness, and even between lean and obese participants. Our classifications based on variation in the gut microbiome identify subsets of individuals in the general white adult population who may be at increased risk of progressing to adiposity-associated co-morbidities.

Date: 2013
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DOI: 10.1038/nature12506

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