Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life

Tommi Vatanen, Damian R. Plichta, Juhi Somani, Philipp C. Muench, Timothy D. Arthur, Andrew Brantley Hall, Sabine Rudolf, Edward J. Oakeley, Xiaobo Ke, Rachel A. Young, Henry J. Haiser, Raivo Kolde, Moran Yassour, Kristiina Luopajärvi, Heli Siljander, Suvi M. Virtanen, Jorma Ilonen, Raivo Uibo, Vallo Tillmann, Sergei Mokurov & 8 others Natalya Dorshakova, Jeffrey A. Porter, Alice C. McHardy, Harri Lahdesmaki, Hera Vlamakis, Curtis Huttenhower, Mikael Knip, Ramnik J. Xavier

Research output: Contribution to journalArticleScientificpeer-review

Original languageEnglish
JournalNature Microbiology
Volume4
Issue number3
Pages (from-to)470-479
Number of pages10
ISSN2058-5276
DOIs
Publication statusPublished - Mar 2019
MoE publication typeA1 Journal article-refereed

Fields of Science

  • BACTERIAL TRANSMISSION
  • READ ALIGNMENT
  • BODY SITES
  • AUTOIMMUNITY
  • DYNAMICS
  • ACCURATE
  • REVEALS
  • BIFIDOBACTERIA
  • ASSOCIATION
  • INSIGHTS
  • 3111 Biomedicine
  • 1183 Plant biology, microbiology, virology
  • 3123 Gynaecology and paediatrics

Cite this

Vatanen, T., Plichta, D. R., Somani, J., Muench, P. C., Arthur, T. D., Hall, A. B., ... Xavier, R. J. (2019). Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life. Nature Microbiology, 4(3), 470-479. https://doi.org/10.1038/s41564-018-0321-5
Vatanen, Tommi ; Plichta, Damian R. ; Somani, Juhi ; Muench, Philipp C. ; Arthur, Timothy D. ; Hall, Andrew Brantley ; Rudolf, Sabine ; Oakeley, Edward J. ; Ke, Xiaobo ; Young, Rachel A. ; Haiser, Henry J. ; Kolde, Raivo ; Yassour, Moran ; Luopajärvi, Kristiina ; Siljander, Heli ; Virtanen, Suvi M. ; Ilonen, Jorma ; Uibo, Raivo ; Tillmann, Vallo ; Mokurov, Sergei ; Dorshakova, Natalya ; Porter, Jeffrey A. ; McHardy, Alice C. ; Lahdesmaki, Harri ; Vlamakis, Hera ; Huttenhower, Curtis ; Knip, Mikael ; Xavier, Ramnik J. / Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life. In: Nature Microbiology. 2019 ; Vol. 4, No. 3. pp. 470-479.
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title = "Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life",
keywords = "BACTERIAL TRANSMISSION, READ ALIGNMENT, BODY SITES, AUTOIMMUNITY, DYNAMICS, ACCURATE, REVEALS, BIFIDOBACTERIA, ASSOCIATION, INSIGHTS, 3111 Biomedicine, 1183 Plant biology, microbiology, virology, 3123 Gynaecology and paediatrics",
author = "Tommi Vatanen and Plichta, {Damian R.} and Juhi Somani and Muench, {Philipp C.} and Arthur, {Timothy D.} and Hall, {Andrew Brantley} and Sabine Rudolf and Oakeley, {Edward J.} and Xiaobo Ke and Young, {Rachel A.} and Haiser, {Henry J.} and Raivo Kolde and Moran Yassour and Kristiina Luopaj{\"a}rvi and Heli Siljander and Virtanen, {Suvi M.} and Jorma Ilonen and Raivo Uibo and Vallo Tillmann and Sergei Mokurov and Natalya Dorshakova and Porter, {Jeffrey A.} and McHardy, {Alice C.} and Harri Lahdesmaki and Hera Vlamakis and Curtis Huttenhower and Mikael Knip and Xavier, {Ramnik J.}",
year = "2019",
month = "3",
doi = "10.1038/s41564-018-0321-5",
language = "English",
volume = "4",
pages = "470--479",
journal = "Nature Microbiology",
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Vatanen, T, Plichta, DR, Somani, J, Muench, PC, Arthur, TD, Hall, AB, Rudolf, S, Oakeley, EJ, Ke, X, Young, RA, Haiser, HJ, Kolde, R, Yassour, M, Luopajärvi, K, Siljander, H, Virtanen, SM, Ilonen, J, Uibo, R, Tillmann, V, Mokurov, S, Dorshakova, N, Porter, JA, McHardy, AC, Lahdesmaki, H, Vlamakis, H, Huttenhower, C, Knip, M & Xavier, RJ 2019, 'Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life' Nature Microbiology, vol. 4, no. 3, pp. 470-479. https://doi.org/10.1038/s41564-018-0321-5

Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life. / Vatanen, Tommi; Plichta, Damian R.; Somani, Juhi; Muench, Philipp C.; Arthur, Timothy D.; Hall, Andrew Brantley; Rudolf, Sabine; Oakeley, Edward J.; Ke, Xiaobo; Young, Rachel A.; Haiser, Henry J.; Kolde, Raivo; Yassour, Moran; Luopajärvi, Kristiina; Siljander, Heli; Virtanen, Suvi M.; Ilonen, Jorma; Uibo, Raivo; Tillmann, Vallo; Mokurov, Sergei; Dorshakova, Natalya; Porter, Jeffrey A.; McHardy, Alice C.; Lahdesmaki, Harri; Vlamakis, Hera; Huttenhower, Curtis; Knip, Mikael; Xavier, Ramnik J.

In: Nature Microbiology, Vol. 4, No. 3, 03.2019, p. 470-479.

Research output: Contribution to journalArticleScientificpeer-review

TY - JOUR

T1 - Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life

AU - Vatanen, Tommi

AU - Plichta, Damian R.

AU - Somani, Juhi

AU - Muench, Philipp C.

AU - Arthur, Timothy D.

AU - Hall, Andrew Brantley

AU - Rudolf, Sabine

AU - Oakeley, Edward J.

AU - Ke, Xiaobo

AU - Young, Rachel A.

AU - Haiser, Henry J.

AU - Kolde, Raivo

AU - Yassour, Moran

AU - Luopajärvi, Kristiina

AU - Siljander, Heli

AU - Virtanen, Suvi M.

AU - Ilonen, Jorma

AU - Uibo, Raivo

AU - Tillmann, Vallo

AU - Mokurov, Sergei

AU - Dorshakova, Natalya

AU - Porter, Jeffrey A.

AU - McHardy, Alice C.

AU - Lahdesmaki, Harri

AU - Vlamakis, Hera

AU - Huttenhower, Curtis

AU - Knip, Mikael

AU - Xavier, Ramnik J.

PY - 2019/3

Y1 - 2019/3

KW - BACTERIAL TRANSMISSION

KW - READ ALIGNMENT

KW - BODY SITES

KW - AUTOIMMUNITY

KW - DYNAMICS

KW - ACCURATE

KW - REVEALS

KW - BIFIDOBACTERIA

KW - ASSOCIATION

KW - INSIGHTS

KW - 3111 Biomedicine

KW - 1183 Plant biology, microbiology, virology

KW - 3123 Gynaecology and paediatrics

U2 - 10.1038/s41564-018-0321-5

DO - 10.1038/s41564-018-0321-5

M3 - Article

VL - 4

SP - 470

EP - 479

JO - Nature Microbiology

JF - Nature Microbiology

SN - 2058-5276

IS - 3

ER -