Enterotypes in the landscape of gut microbial community composition

Paul I. Costea; Falk Hildebrand; Arumugam Manimozhiyan; Fredrik Bäckhed; Martin J. Blaser; Frederic D. Bushman; Willem M. De Vos; S. Dusko Ehrlich; Claire M. Fraser; Masahira Hattori; Curtis Huttenhower; Ian B. Jeffery; Dan Knights; James D. Lewis; Ruth E. Ley; Howard Ochman; Paul W. O'Toole; Christopher Quince; David A. Relman; Fergus Shanahan; Shinichi Sunagawa; Jun Wang; George M. Weinstock; Gary D. Wu; Georg Zeller; Liping Zhao; Jeroen Raes; Rob Knight; Peer Bork

doi:10.1038/s41564-017-0072-8

Enterotypes in the landscape of gut microbial community composition

Paul I. Costea, Falk Hildebrand, Arumugam Manimozhiyan, Fredrik Bäckhed, Martin J. Blaser, Frederic D. Bushman, Willem M. De Vos, S. Dusko Ehrlich, Claire M. Fraser, Masahira Hattori, Curtis Huttenhower, Ian B. Jeffery, Dan Knights, James D. Lewis, Ruth E. Ley, Howard Ochman, Paul W. O'Toole, Christopher Quince, David A. Relman, Fergus ShanahanShinichi Sunagawa, Jun Wang, George M. Weinstock, Gary D. Wu, Georg Zeller, Liping Zhao, Jeroen Raes, Rob Knight, Peer Bork

School of Biological Sciences

Research output: Contribution to journal › Article › peer-review

640 Citations (Scopus)

Abstract

Population stratification is a useful approach for a better understanding of complex biological problems in human health and wellbeing. The proposal that such stratification applies to the human gut microbiome, in the form of distinct community composition types termed enterotypes, has been met with both excitement and controversy. In view of accumulated data and re-analyses since the original work, we revisit the concept of enterotypes, discuss different methods of dividing up the landscape of possible microbiome configurations, and put these concepts into functional, ecological and medical contexts. As enterotypes are of use in describing the gut microbial community landscape and may become relevant in clinical practice, we aim to reconcile differing views and encourage a balanced application of the concept.

Original language	English
Pages (from-to)	8-16
Number of pages	9
Journal	Nature Microbiology
Volume	3
Issue number	1
DOIs	https://doi.org/10.1038/s41564-017-0072-8
Publication status	Published - 2017

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Costea, P. I., Hildebrand, F., Manimozhiyan, A., Bäckhed, F., Blaser, M. J., Bushman, F. D., De Vos, W. M., Ehrlich, S. D., Fraser, C. M., Hattori, M., Huttenhower, C., Jeffery, I. B., Knights, D., Lewis, J. D., Ley, R. E., Ochman, H., O'Toole, P. W., Quince, C., Relman, D. A., ... Bork, P. (2017). Enterotypes in the landscape of gut microbial community composition. Nature Microbiology, 3(1), 8-16. https://doi.org/10.1038/s41564-017-0072-8

Costea, Paul I. ; Hildebrand, Falk ; Manimozhiyan, Arumugam ; Bäckhed, Fredrik ; Blaser, Martin J. ; Bushman, Frederic D. ; De Vos, Willem M. ; Ehrlich, S. Dusko ; Fraser, Claire M. ; Hattori, Masahira ; Huttenhower, Curtis ; Jeffery, Ian B. ; Knights, Dan ; Lewis, James D. ; Ley, Ruth E. ; Ochman, Howard ; O'Toole, Paul W. ; Quince, Christopher ; Relman, David A. ; Shanahan, Fergus ; Sunagawa, Shinichi ; Wang, Jun ; Weinstock, George M. ; Wu, Gary D. ; Zeller, Georg ; Zhao, Liping ; Raes, Jeroen ; Knight, Rob ; Bork, Peer. / Enterotypes in the landscape of gut microbial community composition. In: Nature Microbiology. 2017 ; Vol. 3, No. 1. pp. 8-16.

@article{5050ae04e5334033a563f076de7123bc,

title = "Enterotypes in the landscape of gut microbial community composition",

abstract = "Population stratification is a useful approach for a better understanding of complex biological problems in human health and wellbeing. The proposal that such stratification applies to the human gut microbiome, in the form of distinct community composition types termed enterotypes, has been met with both excitement and controversy. In view of accumulated data and re-analyses since the original work, we revisit the concept of enterotypes, discuss different methods of dividing up the landscape of possible microbiome configurations, and put these concepts into functional, ecological and medical contexts. As enterotypes are of use in describing the gut microbial community landscape and may become relevant in clinical practice, we aim to reconcile differing views and encourage a balanced application of the concept.",

author = "Costea, {Paul I.} and Falk Hildebrand and Arumugam Manimozhiyan and Fredrik B{\"a}ckhed and Blaser, {Martin J.} and Bushman, {Frederic D.} and {De Vos}, {Willem M.} and Ehrlich, {S. Dusko} and Fraser, {Claire M.} and Masahira Hattori and Curtis Huttenhower and Jeffery, {Ian B.} and Dan Knights and Lewis, {James D.} and Ley, {Ruth E.} and Howard Ochman and O'Toole, {Paul W.} and Christopher Quince and Relman, {David A.} and Fergus Shanahan and Shinichi Sunagawa and Jun Wang and Weinstock, {George M.} and Wu, {Gary D.} and Georg Zeller and Liping Zhao and Jeroen Raes and Rob Knight and Peer Bork",

note = "Funding Information: The authors are grateful to the members of the Bork group at EMBL for discussions and assistance. The research leading to these results has received funding from EMBL, the VIB, the Rega institute for Medical Research, the European Research Council via the CancerBiome project (project reference 268985), MicrobesInside (250172) and the European Community{\textquoteright}s Seventh Framework Programme via the MetaHIT (HEALTH-F4-2007-201052), the METACARDIS project (FP7-HEALTH-2012-INNOVATION-I-305312), the European Union{\textquoteright}s Horizon 2020 research and innovation programme (Marie Sklodowska-Curie grant 600375), Metagenopolis grant ANR-11-DPBS-0001 and the IHMS project (FP7-HEALTH-2010-single-stage-261376). Publisher Copyright: {\textcopyright} 2017 Macmillan Publishers Limited, part of Springer Nature. All rights reserved.",

year = "2017",

doi = "10.1038/s41564-017-0072-8",

language = "English",

volume = "3",

pages = "8--16",

journal = "Nature Microbiology",

issn = "2058-5276",

publisher = "Nature Publishing Group",

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}

Costea, PI, Hildebrand, F, Manimozhiyan, A, Bäckhed, F, Blaser, MJ, Bushman, FD, De Vos, WM, Ehrlich, SD, Fraser, CM, Hattori, M, Huttenhower, C, Jeffery, IB, Knights, D, Lewis, JD, Ley, RE, Ochman, H, O'Toole, PW, Quince, C, Relman, DA, Shanahan, F, Sunagawa, S, Wang, J, Weinstock, GM, Wu, GD, Zeller, G, Zhao, L, Raes, J, Knight, R & Bork, P 2017, 'Enterotypes in the landscape of gut microbial community composition', Nature Microbiology, vol. 3, no. 1, pp. 8-16. https://doi.org/10.1038/s41564-017-0072-8

Enterotypes in the landscape of gut microbial community composition. / Costea, Paul I.; Hildebrand, Falk; Manimozhiyan, Arumugam; Bäckhed, Fredrik; Blaser, Martin J.; Bushman, Frederic D.; De Vos, Willem M.; Ehrlich, S. Dusko; Fraser, Claire M.; Hattori, Masahira; Huttenhower, Curtis; Jeffery, Ian B.; Knights, Dan; Lewis, James D.; Ley, Ruth E.; Ochman, Howard; O'Toole, Paul W.; Quince, Christopher; Relman, David A.; Shanahan, Fergus; Sunagawa, Shinichi; Wang, Jun; Weinstock, George M.; Wu, Gary D.; Zeller, Georg; Zhao, Liping; Raes, Jeroen; Knight, Rob; Bork, Peer.

In: Nature Microbiology, Vol. 3, No. 1, 2017, p. 8-16.

Research output: Contribution to journal › Article › peer-review

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T1 - Enterotypes in the landscape of gut microbial community composition

AU - Costea, Paul I.

AU - Hildebrand, Falk

AU - Manimozhiyan, Arumugam

AU - Bäckhed, Fredrik

AU - Blaser, Martin J.

AU - Bushman, Frederic D.

AU - De Vos, Willem M.

AU - Ehrlich, S. Dusko

AU - Fraser, Claire M.

AU - Hattori, Masahira

AU - Huttenhower, Curtis

AU - Jeffery, Ian B.

AU - Knights, Dan

AU - Lewis, James D.

AU - Ley, Ruth E.

AU - Ochman, Howard

AU - O'Toole, Paul W.

AU - Quince, Christopher

AU - Relman, David A.

AU - Shanahan, Fergus

AU - Sunagawa, Shinichi

AU - Wang, Jun

AU - Weinstock, George M.

AU - Wu, Gary D.

AU - Zeller, Georg

AU - Zhao, Liping

AU - Raes, Jeroen

AU - Knight, Rob

AU - Bork, Peer

N1 - Funding Information: The authors are grateful to the members of the Bork group at EMBL for discussions and assistance. The research leading to these results has received funding from EMBL, the VIB, the Rega institute for Medical Research, the European Research Council via the CancerBiome project (project reference 268985), MicrobesInside (250172) and the European Community’s Seventh Framework Programme via the MetaHIT (HEALTH-F4-2007-201052), the METACARDIS project (FP7-HEALTH-2012-INNOVATION-I-305312), the European Union’s Horizon 2020 research and innovation programme (Marie Sklodowska-Curie grant 600375), Metagenopolis grant ANR-11-DPBS-0001 and the IHMS project (FP7-HEALTH-2010-single-stage-261376). Publisher Copyright: © 2017 Macmillan Publishers Limited, part of Springer Nature. All rights reserved.

PY - 2017

Y1 - 2017

N2 - Population stratification is a useful approach for a better understanding of complex biological problems in human health and wellbeing. The proposal that such stratification applies to the human gut microbiome, in the form of distinct community composition types termed enterotypes, has been met with both excitement and controversy. In view of accumulated data and re-analyses since the original work, we revisit the concept of enterotypes, discuss different methods of dividing up the landscape of possible microbiome configurations, and put these concepts into functional, ecological and medical contexts. As enterotypes are of use in describing the gut microbial community landscape and may become relevant in clinical practice, we aim to reconcile differing views and encourage a balanced application of the concept.

AB - Population stratification is a useful approach for a better understanding of complex biological problems in human health and wellbeing. The proposal that such stratification applies to the human gut microbiome, in the form of distinct community composition types termed enterotypes, has been met with both excitement and controversy. In view of accumulated data and re-analyses since the original work, we revisit the concept of enterotypes, discuss different methods of dividing up the landscape of possible microbiome configurations, and put these concepts into functional, ecological and medical contexts. As enterotypes are of use in describing the gut microbial community landscape and may become relevant in clinical practice, we aim to reconcile differing views and encourage a balanced application of the concept.

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U2 - 10.1038/s41564-017-0072-8

DO - 10.1038/s41564-017-0072-8

M3 - Article

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AN - SCOPUS:85038558113

VL - 3

SP - 8

EP - 16

JO - Nature Microbiology

JF - Nature Microbiology

SN - 2058-5276

IS - 1

ER -

Enterotypes in the landscape of gut microbial community composition

Abstract

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