A catalog of the mouse gut metagenome

Liang Xiao; Qiang Feng; Suisha Liang; Si Brask Sonne; Zhongkui Xia; Xinmin Qiu; Xiaoping Li; Hua Long; Jianfeng Zhang; Dongya Zhang; Chuan Liu; Zhiwei Fang; Joyce Chou; Jacob Glanville; Qin Hao; Dorota Ewa Kotowska; Camilla Colding; Tine Rask Licht; Donghai Wu; Jun Yu; Joseph Jao Yiu Sung; Qiaoyi Liang; Junhua Li; Huijue Jia; Zhou Lan; Valentina Tremaroli; Piotr Dworzynski; Henrik Bjørn Nielsen; Fredrik Bäckhed; Joel Doré; Emmanuelle Le Chatelier; S Dusko Ehrlich; John C Lin; Manimozhiyan Arumugam; Jun Wang; Lise Madsen; Karsten Kristiansen

doi:10.1038/nbt.3353

A catalog of the mouse gut metagenome

Liang Xiao, Qiang Feng, Suisha Liang, Si Brask Sonne, Zhongkui Xia, Xinmin Qiu, Xiaoping Li, Hua Long, Jianfeng Zhang, Dongya Zhang, Chuan Liu, Zhiwei Fang, Joyce Chou, Jacob Glanville, Qin Hao, Dorota Ewa Kotowska, Camilla Colding, Tine Rask Licht, Donghai Wu, Jun YuJoseph Jao Yiu Sung, Qiaoyi Liang, Junhua Li, Huijue Jia, Zhou Lan, Valentina Tremaroli, Piotr Dworzynski, Henrik Bjørn Nielsen, Fredrik Bäckhed, Joel Doré, Emmanuelle Le Chatelier, S Dusko Ehrlich, John C Lin, Manimozhiyan Arumugam, Jun Wang^*, Lise Madsen^*, Karsten Kristiansen^*

^*Corresponding author for this work

Research output: Contribution to journal › Journal article › Research › peer-review

Abstract

We established a catalog of the mouse gut metagenome comprising ∼2.6 million nonredundant genes by sequencing DNA from fecal samples of 184 mice. To secure high microbiome diversity, we used mouse strains of diverse genetic backgrounds, from different providers, kept in different housing laboratories and fed either a low-fat or high-fat diet. Similar to the human gut microbiome, >99% of the cataloged genes are bacterial. We identified 541 metagenomic species and defined a core set of 26 metagenomic species found in 95% of the mice. The mouse gut microbiome is functionally similar to its human counterpart, with 95.2% of its Kyoto Encyclopedia of Genes and Genomes (KEGG) orthologous groups in common. However, only 4.0% of the mouse gut microbial genes were shared (95% identity, 90% coverage) with those of the human gut microbiome. This catalog provides a useful reference for future studies.

Original language	English
Journal	Nature Biotechnology
Volume	33
Issue number	10
Pages (from-to)	1103-1108
ISSN	1087-0156
DOIs	https://doi.org/10.1038/nbt.3353
Publication status	Published - 1. Oct 2015
Externally published	Yes

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@article{9aec81044b2b44acba5f5f8a6c95244a,

title = "A catalog of the mouse gut metagenome",

abstract = "We established a catalog of the mouse gut metagenome comprising ∼2.6 million nonredundant genes by sequencing DNA from fecal samples of 184 mice. To secure high microbiome diversity, we used mouse strains of diverse genetic backgrounds, from different providers, kept in different housing laboratories and fed either a low-fat or high-fat diet. Similar to the human gut microbiome, >99% of the cataloged genes are bacterial. We identified 541 metagenomic species and defined a core set of 26 metagenomic species found in 95% of the mice. The mouse gut microbiome is functionally similar to its human counterpart, with 95.2% of its Kyoto Encyclopedia of Genes and Genomes (KEGG) orthologous groups in common. However, only 4.0% of the mouse gut microbial genes were shared (95% identity, 90% coverage) with those of the human gut microbiome. This catalog provides a useful reference for future studies.",

author = "Liang Xiao and Qiang Feng and Suisha Liang and Sonne, {Si Brask} and Zhongkui Xia and Xinmin Qiu and Xiaoping Li and Hua Long and Jianfeng Zhang and Dongya Zhang and Chuan Liu and Zhiwei Fang and Joyce Chou and Jacob Glanville and Qin Hao and Kotowska, {Dorota Ewa} and Camilla Colding and Licht, {Tine Rask} and Donghai Wu and Jun Yu and Sung, {Joseph Jao Yiu} and Qiaoyi Liang and Junhua Li and Huijue Jia and Zhou Lan and Valentina Tremaroli and Piotr Dworzynski and Nielsen, {Henrik Bj{\o}rn} and Fredrik B{\"a}ckhed and Joel Dor{\'e} and {Le Chatelier}, Emmanuelle and Ehrlich, {S Dusko} and Lin, {John C} and Manimozhiyan Arumugam and Jun Wang and Lise Madsen and Karsten Kristiansen",

year = "2015",

month = oct,

day = "1",

doi = "10.1038/nbt.3353",

language = "English",

volume = "33",

pages = "1103--1108",

journal = "Nature Biotechnology",

issn = "1087-0156",

publisher = "Nature Research",

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Xiao, L, Feng, Q, Liang, S, Sonne, SB, Xia, Z, Qiu, X, Li, X, Long, H, Zhang, J, Zhang, D, Liu, C, Fang, Z, Chou, J, Glanville, J, Hao, Q, Kotowska, DE, Colding, C, Licht, TR, Wu, D, Yu, J, Sung, JJY, Liang, Q, Li, J, Jia, H, Lan, Z, Tremaroli, V, Dworzynski, P, Nielsen, HB, Bäckhed, F, Doré, J, Le Chatelier, E, Ehrlich, SD, Lin, JC, Arumugam, M, Wang, J, Madsen, L & Kristiansen, K 2015, 'A catalog of the mouse gut metagenome', Nature Biotechnology, vol. 33, no. 10, pp. 1103-1108. https://doi.org/10.1038/nbt.3353

TY - JOUR

T1 - A catalog of the mouse gut metagenome

AU - Xiao, Liang

AU - Feng, Qiang

AU - Liang, Suisha

AU - Sonne, Si Brask

AU - Xia, Zhongkui

AU - Qiu, Xinmin

AU - Li, Xiaoping

AU - Long, Hua

AU - Zhang, Jianfeng

AU - Zhang, Dongya

AU - Liu, Chuan

AU - Fang, Zhiwei

AU - Chou, Joyce

AU - Glanville, Jacob

AU - Hao, Qin

AU - Kotowska, Dorota Ewa

AU - Colding, Camilla

AU - Licht, Tine Rask

AU - Wu, Donghai

AU - Yu, Jun

AU - Sung, Joseph Jao Yiu

AU - Liang, Qiaoyi

AU - Li, Junhua

AU - Jia, Huijue

AU - Lan, Zhou

AU - Tremaroli, Valentina

AU - Dworzynski, Piotr

AU - Nielsen, Henrik Bjørn

AU - Bäckhed, Fredrik

AU - Doré, Joel

AU - Le Chatelier, Emmanuelle

AU - Ehrlich, S Dusko

AU - Lin, John C

AU - Arumugam, Manimozhiyan

AU - Wang, Jun

AU - Madsen, Lise

AU - Kristiansen, Karsten

PY - 2015/10/1

Y1 - 2015/10/1

N2 - We established a catalog of the mouse gut metagenome comprising ∼2.6 million nonredundant genes by sequencing DNA from fecal samples of 184 mice. To secure high microbiome diversity, we used mouse strains of diverse genetic backgrounds, from different providers, kept in different housing laboratories and fed either a low-fat or high-fat diet. Similar to the human gut microbiome, >99% of the cataloged genes are bacterial. We identified 541 metagenomic species and defined a core set of 26 metagenomic species found in 95% of the mice. The mouse gut microbiome is functionally similar to its human counterpart, with 95.2% of its Kyoto Encyclopedia of Genes and Genomes (KEGG) orthologous groups in common. However, only 4.0% of the mouse gut microbial genes were shared (95% identity, 90% coverage) with those of the human gut microbiome. This catalog provides a useful reference for future studies.

AB - We established a catalog of the mouse gut metagenome comprising ∼2.6 million nonredundant genes by sequencing DNA from fecal samples of 184 mice. To secure high microbiome diversity, we used mouse strains of diverse genetic backgrounds, from different providers, kept in different housing laboratories and fed either a low-fat or high-fat diet. Similar to the human gut microbiome, >99% of the cataloged genes are bacterial. We identified 541 metagenomic species and defined a core set of 26 metagenomic species found in 95% of the mice. The mouse gut microbiome is functionally similar to its human counterpart, with 95.2% of its Kyoto Encyclopedia of Genes and Genomes (KEGG) orthologous groups in common. However, only 4.0% of the mouse gut microbial genes were shared (95% identity, 90% coverage) with those of the human gut microbiome. This catalog provides a useful reference for future studies.

U2 - 10.1038/nbt.3353

DO - 10.1038/nbt.3353

M3 - Journal article

SN - 1087-0156

VL - 33

SP - 1103

EP - 1108

JO - Nature Biotechnology

JF - Nature Biotechnology

IS - 10

ER -

A catalog of the mouse gut metagenome

Abstract

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