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M-GWAS for the Gut Microbiome in Chinese Adults Illuminates on Complex Diseases

32 Pages Posted: 7 May 2019 Sneak Peek Status: Review Complete

See all articles by Xiaomin Liu

Xiaomin Liu

Beijing Genomics Institute (BGI)

Shanmei Tang

Beijing Genomics Institute (BGI)

Huanzi Zhong

Beijing Genomics Institute (BGI)

Xin Tong

Beijing Genomics Institute (BGI)

Zhuye Jie

Beijing Genomics Institute (BGI)

Qiuxia Ding

Beijing Genomics Institute (BGI)

Dan Wang

Beijing Genomics Institute (BGI)

Ruidong Guo

Beijing Genomics Institute (BGI)

Liang Xiao

Beijing Genomics Institute (BGI)

Xun Xu

Beijing Genomics Institute (BGI)

Huanming Yang

Beijing Genomics Institute (BGI)

Jian Wang

Beijing Genomics Institute (BGI)

Yang Zong

Beijing Genomics Institute (BGI)

Xiao Liu

Beijing Genomics Institute (BGI)

Yong Zhang

Beijing Genomics Institute (BGI)

Susanne Brix

Technical University of Denmar - Center for Biological Sequence Analysis

Karsten Kristiansen

Beijing Genomics Institute (BGI)

Yong Hou

Beijing Genomics Institute (BGI)

Huijue Jia

Beijing Genomics Institute (BGI); Beijing Genomics Institute (BGI) - Shenzhen Key Laboratory of Human Commensal Microorganisms and Health Research

Tao Zhang

Beijing Genomics Institute (BGI); Beijing Genomics Institute (BGI) - China National Genebank; University of Copenhagen - Department of Biology

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Abstract

Genetic influences on the gut microbiome have been reported, yet, doubts remain as to the significance of genetic associations. Here, we provide shotgun data for whole genome and whole metagenome from a Chinese cohort, identifying more than 20% genetic contribution to the gut microbiota. Using common variants-, rare variants- and copy number variations (CNVs)-based association analyses, we identified abundant genome-microbiome association especially in metabolic, neurological and immunological functions. The enterotype may have a genetic attribute, with the top 2 loci explaining 11% of the Prevotella-Bacteroides variances. Gender stratification led to the identification of differential associations between sexes. Genetically encoded responses to ectopic presence of oral bacteria in the gut appear to be a common theme in MWAS studies. Our M-GWAS (Microbiome genome-wide association studies) unequivocally illustrates that neither microbiome nor GWAS studies could overlook one another in our quest for a better understanding of human health and diseases.

Keywords: whole genome, metagenome, gut microbiome, M-GWAS, gender stratification

Suggested Citation

Liu, Xiaomin and Tang, Shanmei and Zhong, Huanzi and Tong, Xin and Jie, Zhuye and Ding, Qiuxia and Wang, Dan and Guo, Ruidong and Xiao, Liang and Xu, Xun and Yang, Huanming and Wang, Jian and Zong, Yang and Liu, Xiao and Zhang, Yong and Brix, Susanne and Kristiansen, Karsten and Hou, Yong and Jia, Huijue and Zhang, Tao, M-GWAS for the Gut Microbiome in Chinese Adults Illuminates on Complex Diseases (May 7, 2019). CELL-D-19-01165. Available at SSRN: https://ssrn.com/abstract=3383800 or http://dx.doi.org/10.2139/ssrn.3383800
This is a paper under consideration at Cell Press and has not been peer-reviewed.

Xiaomin Liu

Beijing Genomics Institute (BGI)

Shenzhen, 518083
China

Shanmei Tang

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Huanzi Zhong

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Xin Tong

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Zhuye Jie

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Qiuxia Ding

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Dan Wang

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Ruidong Guo

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Liang Xiao

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Xun Xu

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Huanming Yang

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Jian Wang

Beijing Genomics Institute (BGI) ( email )

Shenzhen, Guangdong 518083
China

Yang Zong

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Xiao Liu

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Yong Zhang

Beijing Genomics Institute (BGI)

Shenzhen, Guangdong 518083
China

Susanne Brix

Technical University of Denmar - Center for Biological Sequence Analysis ( email )

Søltofts Plads
Building 221
Kongens Lyngby, DK-2800
Denmark

Karsten Kristiansen

Beijing Genomics Institute (BGI) ( email )

Shenzhen, Guangdong 518083
China

Yong Hou

Beijing Genomics Institute (BGI) ( email )

Shenzhen, Guangdong 518083
China

Huijue Jia (Contact Author)

Beijing Genomics Institute (BGI) ( email )

Shenzhen, Guangdong 518083
China

Beijing Genomics Institute (BGI) - Shenzhen Key Laboratory of Human Commensal Microorganisms and Health Research ( email )

Shenzhen, 518083
China

Tao Zhang

Beijing Genomics Institute (BGI) ( email )

Shenzhen, Guangdong 518083
China

Beijing Genomics Institute (BGI) - China National Genebank ( email )

Shenzhen
China

University of Copenhagen - Department of Biology ( email )

Ole Maaløes Vej 5
Copenhagen, DK-2200
Denmark

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