A metagenome-wide association study of gut microbiota in type 2 diabetes
Junjie Qin
(1)
,
Yingrui Li
(1)
,
Zhiming Cai
(2)
,
Shenghui Li
(1)
,
Jianfeng Zhu
(1)
,
Fan Zhang
(3)
,
Suisha Liang
(1)
,
Wenwei Zhang
(1)
,
Yuanlin Guan
(1)
,
Dongqian Shen
(1)
,
Yangqing Peng
(1)
,
Dongya Zhang
(1)
,
Zhuye Jie
(1)
,
Wenxian Wu
(1)
,
Youwen Qin
(1)
,
Wenbin Xue
(1)
,
Junhua Li
(1)
,
Lingchuan Han
(3)
,
Donghui Lu
(3)
,
Peixian Wu
(3)
,
Yali Dai
(3)
,
Xiaojuan Sun
(3)
,
Zesong Li
(2)
,
Aifa Tang
(2)
,
Shilong Zhong
(2)
,
Xiaoping Li
(4)
,
Weineng Chen
(1)
,
Ran Xu
(1)
,
Mingbang Wang
(1)
,
Qiang Feng
(1)
,
Meihua Gong
(1)
,
Jing Yu
(1)
,
Yanyan Zhang
(1)
,
Ming Zhang
(1)
,
Torben Hansen
(5)
,
Gaston Sanchez
(6, 7)
,
Jeroen Raes
(8, 9)
,
Gwen Falony
(8, 9)
,
Shujiro Okuda
(8, 9)
,
Mathieu Almeida
(10)
,
Emmanuelle Le Chatelier
(11)
,
Pierre Renault
(10)
,
Nicolas Pons
(11)
,
Jean-Michel Batto
(10)
,
Zhaoxi Zhang
(1)
,
Hua Chen
(1)
,
Ruifu Yang
(1, 12)
,
Weimou Zheng
(1)
,
Songgang Li
(1)
,
Huanming Yang
(1)
,
Jian Wang
(1)
,
S. Dusko Ehrlich
(13)
,
Rasmus Nielsen
(6, 7)
,
Oluf Pedersen
(5, 14, 15, 16)
,
Karsten Kristiansen
(1, 17)
,
Jun Wang
(1, 5, 17)
1
BGI -
Beijing Genomics Institute [Shenzhen]
2 Affiliated Hosp 1, Shenzhen Peoples Hosp 2
3 Shenzhen Hosp
4 Guangdong Gen Hosp, Med Res Ctr
5 CBMR - Novo Nordisk Foundation Center for Basic Metabolic Research
6 Dept Integrat Biol
7 Dept Stat
8 Dept Biol Struct
9 Dept Appl Biol Sci DBIT
10 MICALIS - MICrobiologie de l'ALImentation au Service de la Santé
11 MetaGenoPolis
12 State Key Lab Pathogen & Biosecur
13 INRA - Institut National de la Recherche Agronomique
14 Department of Biomedical Sciences [Copenhagen]
15 Fac Hlth Sci
16 Hagedorn Research Institute
17 Department of Biology [Copenhagen]
2 Affiliated Hosp 1, Shenzhen Peoples Hosp 2
3 Shenzhen Hosp
4 Guangdong Gen Hosp, Med Res Ctr
5 CBMR - Novo Nordisk Foundation Center for Basic Metabolic Research
6 Dept Integrat Biol
7 Dept Stat
8 Dept Biol Struct
9 Dept Appl Biol Sci DBIT
10 MICALIS - MICrobiologie de l'ALImentation au Service de la Santé
11 MetaGenoPolis
12 State Key Lab Pathogen & Biosecur
13 INRA - Institut National de la Recherche Agronomique
14 Department of Biomedical Sciences [Copenhagen]
15 Fac Hlth Sci
16 Hagedorn Research Institute
17 Department of Biology [Copenhagen]
Junhua Li
- Fonction : Auteur
- PersonId : 770145
- ORCID : 0000-0001-6784-1873
Torben Hansen
- Fonction : Auteur
- PersonId : 758676
- ORCID : 0000-0001-8748-3831
Emmanuelle Le Chatelier
- Fonction : Auteur
- PersonId : 737756
- IdHAL : emmanuelle-le-chatelier
- ORCID : 0000-0002-2724-0536
Hua Chen
- Fonction : Auteur
- PersonId : 774561
- ORCID : 0000-0002-9829-6561
Ruifu Yang
- Fonction : Auteur
Oluf Pedersen
- Fonction : Auteur
- PersonId : 1070332
Karsten Kristiansen
- Fonction : Auteur
- PersonId : 757952
- ORCID : 0000-0002-6024-0917
Jun Wang
- Fonction : Auteur
- PersonId : 881572
Résumé
Assessment and characterization of gut microbiota has become a major research area in human disease, including type 2 diabetes, the most prevalent endocrine disease worldwide. To carry out analysis on gut microbial content in patients with type 2 diabetes, we developed a protocol for a metagenome-wide association study (MGWAS) and undertook a two-stage MGWAS based on deep shotgun sequencing of the gut microbial DNA from 345 Chinese individuals. We identified and validated approximately 60,000 type-2-diabetes-associated markers and established the concept of a metagenomic linkage group, enabling taxonomic species-level analyses. MGWAS analysis showed that patients with type 2 diabetes were characterized by a moderate degree of gut microbial dysbiosis, a decrease in the abundance of some universal butyrate-producing bacteria and an increase in various opportunistic pathogens, as well as an enrichment of other microbial functions conferring sulphate reduction and oxidative stress resistance. An analysis of 23 additional individuals demonstrated that these gut microbial markers might be useful for classifying type 2 diabetes.