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Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity
- Alexandra Zhernakova1,2,*,
- Alexander Kurilshikov3,4,†,
- Marc Jan Bonder1,†,
- Ettje F. Tigchelaar1,2,†,
- Melanie Schirmer5,6,
- Tommi Vatanen5,7,
- Zlatan Mujagic2,8,
- Arnau Vich Vila9,
- Gwen Falony10,11,
- Sara Vieira-Silva10,11,
- Jun Wang10,11,
- Floris Imhann9,
- Eelke Brandsma12,
- Soesma A. Jankipersadsing1,
- Marie Joossens10,11,13,
- Maria Carmen Cenit1,14,15,
- Patrick Deelen1,16,
- Morris A. Swertz1,16,
- LifeLines cohort study,
- Rinse K. Weersma9,
- Edith J. M. Feskens2,17,
- Mihai G. Netea18,
- Dirk Gevers5,‡,
- Daisy Jonkers8,
- Lude Franke1,
- Yurii S. Aulchenko4,19,20,21,
- Curtis Huttenhower5,6,
- Jeroen Raes10,11,13,
- Marten H. Hofker12,
- Ramnik J. Xavier5,22,23,24,
- Cisca Wijmenga1,*,§,
- Jingyuan Fu1,12,*,§
- 1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
- 2Top Institute Food and Nutrition, Wageningen, Netherlands.
- 3Institute of Chemical Biology and Fundamental Medicine SB RAS, Novosibirsk, Russia.
- 4Novosibirsk State University, Novosibirsk, Russia.
- 5The Broad Institute of MIT and Harvard, Cambridge, MA, USA.
- 6Department of Biostatistics, Harvard T. H. Chan School of Public Health, Boston, MA, USA.
- 7Department of Computer Science, Aalto University School of Science, Espoo, Finland.
- 8Division of Gastroenterology-Hepatology, Department of Internal Medicine, NUTRIM School of Nutrition and Translational Research in Metabolism, Maastricht University Medical Center, Maastricht, Netherlands.
- 9University of Groningen, University Medical Center Groningen, Department of Gastroenterology and Hepatology, Groningen, Netherlands.
- 10KU Leuven–University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, Leuven, Belgium.
- 11VIB, Center for the Biology of Disease, Leuven, Belgium.
- 12University of Groningen, University Medical Center Groningen, Department of Pediatrics, Groningen, Netherlands.
- 13Vrije Universiteit Brussel, Faculty of Sciences and Bioengineering Sciences, Microbiology Unit, Brussels, Belgium.
- 14Microbial Ecology, Nutrition and Health Research Group, Institute of Agrochemistry and Food Technology, National Research Council (IATA-CSIC), Valencia, Spain.
- 15Department of Pediatrics, Dr. Peset University Hospital, Valencia, Spain.
- 16University of Groningen, University Medical Center Groningen, Genomics Coordination Center, Groningen, Netherlands.
- 17Division of Human Nutrition, Wageningen University, Wageningen, Netherlands.
- 18Department of Internal Medicine and Radboud Center for Infectious Diseases, Radboud University Medical Center, Nijmegen, Netherlands.
- 19Centre for Global Health Research, Usher Institute of Population Health Sciences and Informatics, University of Edinburgh, Teviot Place, Edinburgh EH8 9AG, UK.
- 20PolyOmica, Groningen, Netherlands.
- 21Institute of Cytology and Genetics SB RAS, Novosibirsk, Russia.
- 22Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA, USA.
- 23Gastrointestinal Unit and Center for the Study of Inflammatory Bowel Disease, Massachusetts General Hospital, Boston, MA, USA.
- 24Center for Microbiome Informatics and Therapeutics, Massachusetts Institute of Technology, Cambridge, MA, USA.
- ↵*Corresponding author. Email: a.zhernakova{at}umcg.nl (A.Z.); c.wijmenga{at}umcg.nl (C.W.); j.fu{at}umcg.nl (J.F.)
↵† These authors contributed equally to this work.
§ These authors contributed equally to this work.
↵‡ Present address: Janssen Human Microbiome Institute, Janssen Research and Development, Cambridge, MA, USA.
See allHide authors and affiliations
Science 29 Apr 2016:
Vol. 352, Issue 6285, pp. 565-569
DOI: 10.1126/science.aad3369
Vol. 352, Issue 6285, pp. 565-569
DOI: 10.1126/science.aad3369
Alexandra Zhernakova
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
2Top Institute Food and Nutrition, Wageningen, Netherlands.
Alexander Kurilshikov
3Institute of Chemical Biology and Fundamental Medicine SB RAS, Novosibirsk, Russia.
4Novosibirsk State University, Novosibirsk, Russia.
Marc Jan Bonder
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
Ettje F. Tigchelaar
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
2Top Institute Food and Nutrition, Wageningen, Netherlands.
Melanie Schirmer
5The Broad Institute of MIT and Harvard, Cambridge, MA, USA.
6Department of Biostatistics, Harvard T. H. Chan School of Public Health, Boston, MA, USA.
Tommi Vatanen
5The Broad Institute of MIT and Harvard, Cambridge, MA, USA.
7Department of Computer Science, Aalto University School of Science, Espoo, Finland.
Zlatan Mujagic
2Top Institute Food and Nutrition, Wageningen, Netherlands.
8Division of Gastroenterology-Hepatology, Department of Internal Medicine, NUTRIM School of Nutrition and Translational Research in Metabolism, Maastricht University Medical Center, Maastricht, Netherlands.
Arnau Vich Vila
9University of Groningen, University Medical Center Groningen, Department of Gastroenterology and Hepatology, Groningen, Netherlands.
Gwen Falony
10KU Leuven–University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, Leuven, Belgium.
11VIB, Center for the Biology of Disease, Leuven, Belgium.
Sara Vieira-Silva
10KU Leuven–University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, Leuven, Belgium.
11VIB, Center for the Biology of Disease, Leuven, Belgium.
Jun Wang
10KU Leuven–University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, Leuven, Belgium.
11VIB, Center for the Biology of Disease, Leuven, Belgium.
Floris Imhann
9University of Groningen, University Medical Center Groningen, Department of Gastroenterology and Hepatology, Groningen, Netherlands.
Eelke Brandsma
12University of Groningen, University Medical Center Groningen, Department of Pediatrics, Groningen, Netherlands.
Soesma A. Jankipersadsing
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
Marie Joossens
10KU Leuven–University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, Leuven, Belgium.
11VIB, Center for the Biology of Disease, Leuven, Belgium.
13Vrije Universiteit Brussel, Faculty of Sciences and Bioengineering Sciences, Microbiology Unit, Brussels, Belgium.
Maria Carmen Cenit
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
14Microbial Ecology, Nutrition and Health Research Group, Institute of Agrochemistry and Food Technology, National Research Council (IATA-CSIC), Valencia, Spain.
15Department of Pediatrics, Dr. Peset University Hospital, Valencia, Spain.
Patrick Deelen
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
16University of Groningen, University Medical Center Groningen, Genomics Coordination Center, Groningen, Netherlands.
Morris A. Swertz
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
16University of Groningen, University Medical Center Groningen, Genomics Coordination Center, Groningen, Netherlands.
Rinse K. Weersma
9University of Groningen, University Medical Center Groningen, Department of Gastroenterology and Hepatology, Groningen, Netherlands.
Edith J. M. Feskens
2Top Institute Food and Nutrition, Wageningen, Netherlands.
17Division of Human Nutrition, Wageningen University, Wageningen, Netherlands.
Mihai G. Netea
18Department of Internal Medicine and Radboud Center for Infectious Diseases, Radboud University Medical Center, Nijmegen, Netherlands.
Dirk Gevers
5The Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Daisy Jonkers
8Division of Gastroenterology-Hepatology, Department of Internal Medicine, NUTRIM School of Nutrition and Translational Research in Metabolism, Maastricht University Medical Center, Maastricht, Netherlands.
Lude Franke
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
Yurii S. Aulchenko
4Novosibirsk State University, Novosibirsk, Russia.
19Centre for Global Health Research, Usher Institute of Population Health Sciences and Informatics, University of Edinburgh, Teviot Place, Edinburgh EH8 9AG, UK.
20PolyOmica, Groningen, Netherlands.
21Institute of Cytology and Genetics SB RAS, Novosibirsk, Russia.
Curtis Huttenhower
5The Broad Institute of MIT and Harvard, Cambridge, MA, USA.
6Department of Biostatistics, Harvard T. H. Chan School of Public Health, Boston, MA, USA.
Jeroen Raes
10KU Leuven–University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, Leuven, Belgium.
11VIB, Center for the Biology of Disease, Leuven, Belgium.
13Vrije Universiteit Brussel, Faculty of Sciences and Bioengineering Sciences, Microbiology Unit, Brussels, Belgium.
Marten H. Hofker
12University of Groningen, University Medical Center Groningen, Department of Pediatrics, Groningen, Netherlands.
Ramnik J. Xavier
5The Broad Institute of MIT and Harvard, Cambridge, MA, USA.
22Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA, USA.
23Gastrointestinal Unit and Center for the Study of Inflammatory Bowel Disease, Massachusetts General Hospital, Boston, MA, USA.
24Center for Microbiome Informatics and Therapeutics, Massachusetts Institute of Technology, Cambridge, MA, USA.
Cisca Wijmenga
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
Jingyuan Fu
1University of Groningen, University Medical Center Groningen, Department of Genetics, Groningen, Netherlands.
12University of Groningen, University Medical Center Groningen, Department of Pediatrics, Groningen, Netherlands.
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