The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota

Ilias Lagkouvardos, Rüdiger Pukall, Birte Abt, Bärbel U. Foesel, Jan P. Meier-Kolthoff, Neeraj Kumar, Anne Bresciani, Inés Martínez, Sarah Just, Caroline Ziegler, Sandrine Brugiroux, Debora Garzetti, Mareike Wenning, Thi P N Bui, Jun Wang, Floor Hugenholtz, Caroline M. Plugge, Daniel A. Peterson, Mathias W. Hornef, John F. Baines & 8 others Hauke Smidt, Jens Walter, Karsten Kristiansen, Henrik B. Nielsen, Dirk Haller, Jörg Overmann, Bärbel Stecher, Thomas Clavel

Research output: Contribution to journalArticle

Abstract

Intestinal bacteria influence mammalian physiology, but many types of bacteria are still uncharacterized. Moreover, reference strains of mouse gut bacteria are not easily available, although mouse models are extensively used in medical research. These are major limitations for the investigation of intestinal microbiomes and their interactions with diet and host. It is thus important to study in detail the diversity and functions of gut microbiota members, including those colonizing the mouse intestine. To address these issues, we aimed at establishing the Mouse Intestinal Bacterial Collection (miBC), a public repository of bacterial strains and associated genomes from the mouse gut, and studied host-specificity of colonization and sequence-based relevance of the resource. The collection includes several strains representing novel species, genera and even one family. Genomic analyses showed that certain species are specific to the mouse intestine and that a minimal consortium of 18 strains covered 50-75% of the known functional potential of metagenomes. The present work will sustain future research on microbiota-host interactions in health and disease, as it will facilitate targeted colonization and molecular studies. The resource is available at www.dsmz.de/miBC.

Original languageEnglish (US)
Article number16131
JournalNature Microbiology
Volume1
DOIs
StatePublished - Aug 8 2016

Fingerprint

Bacteria
Intestines
Metagenome
Host Specificity
Microbiota
Gastrointestinal Microbiome
Biomedical Research
Genome
Diet
Health

ASJC Scopus subject areas

  • Microbiology
  • Applied Microbiology and Biotechnology
  • Immunology
  • Microbiology (medical)
  • Cell Biology
  • Genetics

Cite this

The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota. / Lagkouvardos, Ilias; Pukall, Rüdiger; Abt, Birte; Foesel, Bärbel U.; Meier-Kolthoff, Jan P.; Kumar, Neeraj; Bresciani, Anne; Martínez, Inés; Just, Sarah; Ziegler, Caroline; Brugiroux, Sandrine; Garzetti, Debora; Wenning, Mareike; Bui, Thi P N; Wang, Jun; Hugenholtz, Floor; Plugge, Caroline M.; Peterson, Daniel A.; Hornef, Mathias W.; Baines, John F.; Smidt, Hauke; Walter, Jens; Kristiansen, Karsten; Nielsen, Henrik B.; Haller, Dirk; Overmann, Jörg; Stecher, Bärbel; Clavel, Thomas.

In: Nature Microbiology, Vol. 1, 16131, 08.08.2016.

Research output: Contribution to journalArticle

Lagkouvardos, I, Pukall, R, Abt, B, Foesel, BU, Meier-Kolthoff, JP, Kumar, N, Bresciani, A, Martínez, I, Just, S, Ziegler, C, Brugiroux, S, Garzetti, D, Wenning, M, Bui, TPN, Wang, J, Hugenholtz, F, Plugge, CM, Peterson, DA, Hornef, MW, Baines, JF, Smidt, H, Walter, J, Kristiansen, K, Nielsen, HB, Haller, D, Overmann, J, Stecher, B & Clavel, T 2016, 'The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota', Nature Microbiology, vol. 1, 16131. https://doi.org/10.1038/nmicrobiol.2016.131
Lagkouvardos, Ilias ; Pukall, Rüdiger ; Abt, Birte ; Foesel, Bärbel U. ; Meier-Kolthoff, Jan P. ; Kumar, Neeraj ; Bresciani, Anne ; Martínez, Inés ; Just, Sarah ; Ziegler, Caroline ; Brugiroux, Sandrine ; Garzetti, Debora ; Wenning, Mareike ; Bui, Thi P N ; Wang, Jun ; Hugenholtz, Floor ; Plugge, Caroline M. ; Peterson, Daniel A. ; Hornef, Mathias W. ; Baines, John F. ; Smidt, Hauke ; Walter, Jens ; Kristiansen, Karsten ; Nielsen, Henrik B. ; Haller, Dirk ; Overmann, Jörg ; Stecher, Bärbel ; Clavel, Thomas. / The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota. In: Nature Microbiology. 2016 ; Vol. 1.
@article{0e895ffe482644538502597127a2b8d5,
title = "The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota",
abstract = "Intestinal bacteria influence mammalian physiology, but many types of bacteria are still uncharacterized. Moreover, reference strains of mouse gut bacteria are not easily available, although mouse models are extensively used in medical research. These are major limitations for the investigation of intestinal microbiomes and their interactions with diet and host. It is thus important to study in detail the diversity and functions of gut microbiota members, including those colonizing the mouse intestine. To address these issues, we aimed at establishing the Mouse Intestinal Bacterial Collection (miBC), a public repository of bacterial strains and associated genomes from the mouse gut, and studied host-specificity of colonization and sequence-based relevance of the resource. The collection includes several strains representing novel species, genera and even one family. Genomic analyses showed that certain species are specific to the mouse intestine and that a minimal consortium of 18 strains covered 50-75{\%} of the known functional potential of metagenomes. The present work will sustain future research on microbiota-host interactions in health and disease, as it will facilitate targeted colonization and molecular studies. The resource is available at www.dsmz.de/miBC.",
author = "Ilias Lagkouvardos and R{\"u}diger Pukall and Birte Abt and Foesel, {B{\"a}rbel U.} and Meier-Kolthoff, {Jan P.} and Neeraj Kumar and Anne Bresciani and In{\'e}s Mart{\'i}nez and Sarah Just and Caroline Ziegler and Sandrine Brugiroux and Debora Garzetti and Mareike Wenning and Bui, {Thi P N} and Jun Wang and Floor Hugenholtz and Plugge, {Caroline M.} and Peterson, {Daniel A.} and Hornef, {Mathias W.} and Baines, {John F.} and Hauke Smidt and Jens Walter and Karsten Kristiansen and Nielsen, {Henrik B.} and Dirk Haller and J{\"o}rg Overmann and B{\"a}rbel Stecher and Thomas Clavel",
year = "2016",
month = "8",
day = "8",
doi = "10.1038/nmicrobiol.2016.131",
language = "English (US)",
volume = "1",
journal = "Nature Microbiology",
issn = "2058-5276",
publisher = "Nature Publishing Group",

}

TY - JOUR

T1 - The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota

AU - Lagkouvardos, Ilias

AU - Pukall, Rüdiger

AU - Abt, Birte

AU - Foesel, Bärbel U.

AU - Meier-Kolthoff, Jan P.

AU - Kumar, Neeraj

AU - Bresciani, Anne

AU - Martínez, Inés

AU - Just, Sarah

AU - Ziegler, Caroline

AU - Brugiroux, Sandrine

AU - Garzetti, Debora

AU - Wenning, Mareike

AU - Bui, Thi P N

AU - Wang, Jun

AU - Hugenholtz, Floor

AU - Plugge, Caroline M.

AU - Peterson, Daniel A.

AU - Hornef, Mathias W.

AU - Baines, John F.

AU - Smidt, Hauke

AU - Walter, Jens

AU - Kristiansen, Karsten

AU - Nielsen, Henrik B.

AU - Haller, Dirk

AU - Overmann, Jörg

AU - Stecher, Bärbel

AU - Clavel, Thomas

PY - 2016/8/8

Y1 - 2016/8/8

N2 - Intestinal bacteria influence mammalian physiology, but many types of bacteria are still uncharacterized. Moreover, reference strains of mouse gut bacteria are not easily available, although mouse models are extensively used in medical research. These are major limitations for the investigation of intestinal microbiomes and their interactions with diet and host. It is thus important to study in detail the diversity and functions of gut microbiota members, including those colonizing the mouse intestine. To address these issues, we aimed at establishing the Mouse Intestinal Bacterial Collection (miBC), a public repository of bacterial strains and associated genomes from the mouse gut, and studied host-specificity of colonization and sequence-based relevance of the resource. The collection includes several strains representing novel species, genera and even one family. Genomic analyses showed that certain species are specific to the mouse intestine and that a minimal consortium of 18 strains covered 50-75% of the known functional potential of metagenomes. The present work will sustain future research on microbiota-host interactions in health and disease, as it will facilitate targeted colonization and molecular studies. The resource is available at www.dsmz.de/miBC.

AB - Intestinal bacteria influence mammalian physiology, but many types of bacteria are still uncharacterized. Moreover, reference strains of mouse gut bacteria are not easily available, although mouse models are extensively used in medical research. These are major limitations for the investigation of intestinal microbiomes and their interactions with diet and host. It is thus important to study in detail the diversity and functions of gut microbiota members, including those colonizing the mouse intestine. To address these issues, we aimed at establishing the Mouse Intestinal Bacterial Collection (miBC), a public repository of bacterial strains and associated genomes from the mouse gut, and studied host-specificity of colonization and sequence-based relevance of the resource. The collection includes several strains representing novel species, genera and even one family. Genomic analyses showed that certain species are specific to the mouse intestine and that a minimal consortium of 18 strains covered 50-75% of the known functional potential of metagenomes. The present work will sustain future research on microbiota-host interactions in health and disease, as it will facilitate targeted colonization and molecular studies. The resource is available at www.dsmz.de/miBC.

UR - http://www.scopus.com/inward/record.url?scp=84981341034&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84981341034&partnerID=8YFLogxK

U2 - 10.1038/nmicrobiol.2016.131

DO - 10.1038/nmicrobiol.2016.131

M3 - Article

VL - 1

JO - Nature Microbiology

JF - Nature Microbiology

SN - 2058-5276

M1 - 16131

ER -