Codiversification of gut microbiota with humans

Taichi A. Suzuki; J. Liam Fitzstevens; Victor T. Schmidt; Hagay Enav; Kelsey E. Huus; Mirabeau Mbong Ngwese; Anne Grießhammer; Anne Pfleiderer; Bayode R. Adegbite; Jeannot F. Zinsou; Meral Esen; Thirumalaisamy P. Velavan; Ayola A. Adegnika; Le Huu Song; Timothy D. Spector; Amanda L Muehlbauer; Nina Marchi; Hyena Kang; Lisa Maier; Ran Blekhman; Laure Ségurel; Gwang Pyo Ko; Nicholas D. Youngblut; Peter Kremsner; Ruth E. Ley

doi:10.1126/science.abm7759

Codiversification of gut microbiota with humans

Taichi A. Suzuki, J. Liam Fitzstevens, Victor T. Schmidt, Hagay Enav, Kelsey E. Huus, Mirabeau Mbong Ngwese, Anne Grießhammer, Anne Pfleiderer, Bayode R. Adegbite, Jeannot F. Zinsou, Meral Esen, Thirumalaisamy P. Velavan, Ayola A. Adegnika, Le Huu Song, Timothy D. Spector, Amanda L Muehlbauer, Nina Marchi, Hyena Kang, Lisa Maier, Ran BlekhmanLaure Ségurel, Gwang Pyo Ko, Nicholas D. Youngblut, Peter Kremsner, Ruth E. Ley

Ecology, Evolution and Behavior

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

17 Scopus citations

Abstract

The gut microbiomes of human populations worldwide have many core microbial species in common. However, within a species, some strains can show remarkable population specificity. The question is whether such specificity arises from a shared evolutionary history (codiversification) between humans and their microbes. To test for codiversification of host and microbiota, we analyzed paired gut metagenomes and human genomes for 1225 individuals in Europe, Asia, and Africa, including mothers and their children. Between and within countries, a parallel evolutionary history was evident for humans and their gut microbes. Moreover, species displaying the strongest codiversification independently evolved traits characteristic of host dependency, including reduced genomes and oxygen and temperature sensitivity. These findings all point to the importance of understanding the potential role of population-specific microbial strains in microbiome-mediated disease phenotypes.

Original language	English (US)
Pages (from-to)	1328-1332
Number of pages	5
Journal	Science
Volume	377
Issue number	6612
DOIs	https://doi.org/10.1126/science.abm7759
State	Published - Sep 16 2022

Bibliographical note

Funding Information:
We thank T. H. Nguyen, E. Cosgrove, A. Clark, A. Kostic, M. Taylor, Native American tribe officers (M. Bremer, J. Aguilar, J. Charlie, R. Williams, B. Lewis, S. Anton, A. Garcia-Lewis, and B. Bernstein), S. Dauser and members of the Department of Microbiome Science, and four anonymous reviewers. Funding: This work was supported by the Max Planck Society. T.D.S. was funded by the Wellcome Trust, Medical Research Council, European Union, Chronic Disease Research Foundation, Zoe Global Ltd., the National Institute for Health Research-funded BioResource, and the Clinical Research Facility and Biomedical Research Centre based at Guy's and St Thomas' NHS Foundation Trust in partnership with King's College London. L.S. was supported by an Agence Nationale de la Recherche grant (MICROREGAL, ANR-15-CE02-0003). R.B. was supported by NIH grant R35-GM128716.

Publisher Copyright:
Copyright © 2022 The Authors.

PubMed: MeSH publication types

Journal Article

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

Publisher link

10.1126/science.abm7759

Find It

Find It at U of M Libraries

Cite this

Suzuki, T. A., Fitzstevens, J. L., Schmidt, V. T., Enav, H., Huus, K. E., Mbong Ngwese, M., Grießhammer, A., Pfleiderer, A., Adegbite, B. R., Zinsou, J. F., Esen, M., Velavan, T. P., Adegnika, A. A., Song, L. H., Spector, T. D., Muehlbauer, A. L., Marchi, N., Kang, H., Maier, L., ... Ley, R. E. (2022). Codiversification of gut microbiota with humans. Science, 377(6612), 1328-1332. https://doi.org/10.1126/science.abm7759

Suzuki, TA, Fitzstevens, JL, Schmidt, VT, Enav, H, Huus, KE, Mbong Ngwese, M, Grießhammer, A, Pfleiderer, A, Adegbite, BR, Zinsou, JF, Esen, M, Velavan, TP, Adegnika, AA, Song, LH, Spector, TD, Muehlbauer, AL, Marchi, N, Kang, H, Maier, L, Blekhman, R, Ségurel, L, Ko, GP, Youngblut, ND, Kremsner, P & Ley, RE 2022, 'Codiversification of gut microbiota with humans', Science, vol. 377, no. 6612, pp. 1328-1332. https://doi.org/10.1126/science.abm7759

@article{210c1a8103fd48a286af770afff2862d,

title = "Codiversification of gut microbiota with humans",

abstract = "The gut microbiomes of human populations worldwide have many core microbial species in common. However, within a species, some strains can show remarkable population specificity. The question is whether such specificity arises from a shared evolutionary history (codiversification) between humans and their microbes. To test for codiversification of host and microbiota, we analyzed paired gut metagenomes and human genomes for 1225 individuals in Europe, Asia, and Africa, including mothers and their children. Between and within countries, a parallel evolutionary history was evident for humans and their gut microbes. Moreover, species displaying the strongest codiversification independently evolved traits characteristic of host dependency, including reduced genomes and oxygen and temperature sensitivity. These findings all point to the importance of understanding the potential role of population-specific microbial strains in microbiome-mediated disease phenotypes.",

author = "Suzuki, {Taichi A.} and Fitzstevens, {J. Liam} and Schmidt, {Victor T.} and Hagay Enav and Huus, {Kelsey E.} and {Mbong Ngwese}, Mirabeau and Anne Grie{\ss}hammer and Anne Pfleiderer and Adegbite, {Bayode R.} and Zinsou, {Jeannot F.} and Meral Esen and Velavan, {Thirumalaisamy P.} and Adegnika, {Ayola A.} and Song, {Le Huu} and Spector, {Timothy D.} and Muehlbauer, {Amanda L} and Nina Marchi and Hyena Kang and Lisa Maier and Ran Blekhman and Laure S{\'e}gurel and Ko, {Gwang Pyo} and Youngblut, {Nicholas D.} and Peter Kremsner and Ley, {Ruth E.}",

note = "Funding Information: We thank T. H. Nguyen, E. Cosgrove, A. Clark, A. Kostic, M. Taylor, Native American tribe officers (M. Bremer, J. Aguilar, J. Charlie, R. Williams, B. Lewis, S. Anton, A. Garcia-Lewis, and B. Bernstein), S. Dauser and members of the Department of Microbiome Science, and four anonymous reviewers. Funding: This work was supported by the Max Planck Society. T.D.S. was funded by the Wellcome Trust, Medical Research Council, European Union, Chronic Disease Research Foundation, Zoe Global Ltd., the National Institute for Health Research-funded BioResource, and the Clinical Research Facility and Biomedical Research Centre based at Guy's and St Thomas' NHS Foundation Trust in partnership with King's College London. L.S. was supported by an Agence Nationale de la Recherche grant (MICROREGAL, ANR-15-CE02-0003). R.B. was supported by NIH grant R35-GM128716. Publisher Copyright: Copyright {\textcopyright} 2022 The Authors.",

year = "2022",

month = sep,

day = "16",

doi = "10.1126/science.abm7759",

language = "English (US)",

volume = "377",

pages = "1328--1332",

journal = "Science",

issn = "0036-8075",

publisher = "American Association for the Advancement of Science",

number = "6612",

}

TY - JOUR

T1 - Codiversification of gut microbiota with humans

AU - Suzuki, Taichi A.

AU - Fitzstevens, J. Liam

AU - Schmidt, Victor T.

AU - Enav, Hagay

AU - Huus, Kelsey E.

AU - Mbong Ngwese, Mirabeau

AU - Grießhammer, Anne

AU - Pfleiderer, Anne

AU - Adegbite, Bayode R.

AU - Zinsou, Jeannot F.

AU - Esen, Meral

AU - Velavan, Thirumalaisamy P.

AU - Adegnika, Ayola A.

AU - Song, Le Huu

AU - Spector, Timothy D.

AU - Muehlbauer, Amanda L

AU - Marchi, Nina

AU - Kang, Hyena

AU - Maier, Lisa

AU - Blekhman, Ran

AU - Ségurel, Laure

AU - Ko, Gwang Pyo

AU - Youngblut, Nicholas D.

AU - Kremsner, Peter

AU - Ley, Ruth E.

N1 - Funding Information: We thank T. H. Nguyen, E. Cosgrove, A. Clark, A. Kostic, M. Taylor, Native American tribe officers (M. Bremer, J. Aguilar, J. Charlie, R. Williams, B. Lewis, S. Anton, A. Garcia-Lewis, and B. Bernstein), S. Dauser and members of the Department of Microbiome Science, and four anonymous reviewers. Funding: This work was supported by the Max Planck Society. T.D.S. was funded by the Wellcome Trust, Medical Research Council, European Union, Chronic Disease Research Foundation, Zoe Global Ltd., the National Institute for Health Research-funded BioResource, and the Clinical Research Facility and Biomedical Research Centre based at Guy's and St Thomas' NHS Foundation Trust in partnership with King's College London. L.S. was supported by an Agence Nationale de la Recherche grant (MICROREGAL, ANR-15-CE02-0003). R.B. was supported by NIH grant R35-GM128716. Publisher Copyright: Copyright © 2022 The Authors.

PY - 2022/9/16

Y1 - 2022/9/16

N2 - The gut microbiomes of human populations worldwide have many core microbial species in common. However, within a species, some strains can show remarkable population specificity. The question is whether such specificity arises from a shared evolutionary history (codiversification) between humans and their microbes. To test for codiversification of host and microbiota, we analyzed paired gut metagenomes and human genomes for 1225 individuals in Europe, Asia, and Africa, including mothers and their children. Between and within countries, a parallel evolutionary history was evident for humans and their gut microbes. Moreover, species displaying the strongest codiversification independently evolved traits characteristic of host dependency, including reduced genomes and oxygen and temperature sensitivity. These findings all point to the importance of understanding the potential role of population-specific microbial strains in microbiome-mediated disease phenotypes.

AB - The gut microbiomes of human populations worldwide have many core microbial species in common. However, within a species, some strains can show remarkable population specificity. The question is whether such specificity arises from a shared evolutionary history (codiversification) between humans and their microbes. To test for codiversification of host and microbiota, we analyzed paired gut metagenomes and human genomes for 1225 individuals in Europe, Asia, and Africa, including mothers and their children. Between and within countries, a parallel evolutionary history was evident for humans and their gut microbes. Moreover, species displaying the strongest codiversification independently evolved traits characteristic of host dependency, including reduced genomes and oxygen and temperature sensitivity. These findings all point to the importance of understanding the potential role of population-specific microbial strains in microbiome-mediated disease phenotypes.

UR - http://www.scopus.com/inward/record.url?scp=85137880646&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85137880646&partnerID=8YFLogxK

U2 - 10.1126/science.abm7759

DO - 10.1126/science.abm7759

M3 - Article

C2 - 36108023

AN - SCOPUS:85137880646

SN - 0036-8075

VL - 377

SP - 1328

EP - 1332

JO - Science

JF - Science

IS - 6612

ER -

Codiversification of gut microbiota with humans

Abstract

Bibliographical note

PubMed: MeSH publication types

UN SDGs

Publisher link

Find It

Other files and links

Fingerprint

Cite this