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A multi-omic cohort as a reference point for promoting a healthy human gut microbiome

Zhuye Jie, Suisha Liang, Qiuxia Ding, Fei Li, Shanmei Tang, Dan Wang, Yuxiang Lin, Peishan Chen, Kaiye Cai, Xuemei Qiu, Qiang Li, Yunli Liao, Dongsheng Zhou, Heng Lian, Yong Zuo, Xiaomin Chen, Weiqiao Rao, Yan Ren, Yuan Wang, Jin Zi, Rong Wang, Hongcheng Zhou, Haorong Lu, Xiaohan Wang, Wei Zhang, Tao Zhang, Liang Xiao, Yang Zong, Weibin Liu, Huanming Yang, Jian Wang, Yong Hou, Xiao Liu, Karsten Kristiansen, Huanzi Zhong, Huijue Jia, Xun Xu
doi: https://doi.org/10.1101/585893
Zhuye Jie
1BGI-Shenzhen, Shenzhen, China
2Shenzhen Key Laboratory of Human Commensal Microorganisms and Health Research, BGI-Shenzhen, Shenzhen, China
3Department of Biology, Ole MaalØes Vej 5, University of Copenhagen, Copenhagen, Denmark
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  • For correspondence: xuxun@genomics.cn jiezhuye@genomics.cn jiahuijue@genomics.cn
Suisha Liang
1BGI-Shenzhen, Shenzhen, China
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Qiuxia Ding
1BGI-Shenzhen, Shenzhen, China
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Fei Li
1BGI-Shenzhen, Shenzhen, China
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Shanmei Tang
1BGI-Shenzhen, Shenzhen, China
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Dan Wang
1BGI-Shenzhen, Shenzhen, China
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Yuxiang Lin
1BGI-Shenzhen, Shenzhen, China
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Peishan Chen
1BGI-Shenzhen, Shenzhen, China
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Kaiye Cai
1BGI-Shenzhen, Shenzhen, China
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Xuemei Qiu
1BGI-Shenzhen, Shenzhen, China
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Qiang Li
1BGI-Shenzhen, Shenzhen, China
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Yunli Liao
1BGI-Shenzhen, Shenzhen, China
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Dongsheng Zhou
1BGI-Shenzhen, Shenzhen, China
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Heng Lian
1BGI-Shenzhen, Shenzhen, China
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Yong Zuo
1BGI-Shenzhen, Shenzhen, China
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Xiaomin Chen
1BGI-Shenzhen, Shenzhen, China
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Weiqiao Rao
1BGI-Shenzhen, Shenzhen, China
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Yan Ren
1BGI-Shenzhen, Shenzhen, China
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Yuan Wang
1BGI-Shenzhen, Shenzhen, China
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Jin Zi
1BGI-Shenzhen, Shenzhen, China
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Rong Wang
1BGI-Shenzhen, Shenzhen, China
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Hongcheng Zhou
4China National Genebank, BGI-Shenzhen, Shenzhen 518120, China
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Haorong Lu
4China National Genebank, BGI-Shenzhen, Shenzhen 518120, China
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Xiaohan Wang
1BGI-Shenzhen, Shenzhen, China
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Wei Zhang
1BGI-Shenzhen, Shenzhen, China
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Tao Zhang
1BGI-Shenzhen, Shenzhen, China
3Department of Biology, Ole MaalØes Vej 5, University of Copenhagen, Copenhagen, Denmark
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Liang Xiao
1BGI-Shenzhen, Shenzhen, China
5Shenzhen Engineering Laboratory of Detection and Intervention of human intestinal microbiome, BGI-Shenzhen, Shenzhen, China.
6BGI-Qingdao, BGI-Shenzhen, Qingdao, 266555, China
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Yang Zong
1BGI-Shenzhen, Shenzhen, China
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Weibin Liu
1BGI-Shenzhen, Shenzhen, China
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Huanming Yang
1BGI-Shenzhen, Shenzhen, China
7James D. Watson Institute of Genome Sciences, Hangzhou, China
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Jian Wang
1BGI-Shenzhen, Shenzhen, China
7James D. Watson Institute of Genome Sciences, Hangzhou, China
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Yong Hou
1BGI-Shenzhen, Shenzhen, China
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Xiao Liu
1BGI-Shenzhen, Shenzhen, China
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Karsten Kristiansen
1BGI-Shenzhen, Shenzhen, China
3Department of Biology, Ole MaalØes Vej 5, University of Copenhagen, Copenhagen, Denmark
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Huanzi Zhong
1BGI-Shenzhen, Shenzhen, China
3Department of Biology, Ole MaalØes Vej 5, University of Copenhagen, Copenhagen, Denmark
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Huijue Jia
1BGI-Shenzhen, Shenzhen, China
2Shenzhen Key Laboratory of Human Commensal Microorganisms and Health Research, BGI-Shenzhen, Shenzhen, China
3Department of Biology, Ole MaalØes Vej 5, University of Copenhagen, Copenhagen, Denmark
8Macau University of Science and Technology, Avenida Wai long, Taipa, Macau, China
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  • For correspondence: xuxun@genomics.cn jiezhuye@genomics.cn jiahuijue@genomics.cn
Xun Xu
1BGI-Shenzhen, Shenzhen, China
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  • For correspondence: xuxun@genomics.cn jiezhuye@genomics.cn jiahuijue@genomics.cn
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Abstract

More than a decade of gut microbiome studies have a common goal for human health. As most of the disease studies sample the elderly or the middle-aged, a reference cohort for young individuals has been lacking. It is also not clear what other omics data need to be measured to better understand the gut microbiome. Here we present high-depth metagenomic shotgun sequencing data for the fecal microbiome together with other omics data in a cohort of 2,183 adults, and observe a number of vitamins, hormones, amino acids and trace elements to correlate with the gut microbiome and cluster with T cell receptors. Associations with physical fitness, sleeping habits and dairy consumption are identified in this large multi-omic cohort. Many of the associations are validated in an additional cohort of 1,404 individuals. Our comprehensive data are poised to advise future study designs to better understand and manage our gut microbiome both in population and in mechanistic investigations.

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Posted November 08, 2019.
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A multi-omic cohort as a reference point for promoting a healthy human gut microbiome
Zhuye Jie, Suisha Liang, Qiuxia Ding, Fei Li, Shanmei Tang, Dan Wang, Yuxiang Lin, Peishan Chen, Kaiye Cai, Xuemei Qiu, Qiang Li, Yunli Liao, Dongsheng Zhou, Heng Lian, Yong Zuo, Xiaomin Chen, Weiqiao Rao, Yan Ren, Yuan Wang, Jin Zi, Rong Wang, Hongcheng Zhou, Haorong Lu, Xiaohan Wang, Wei Zhang, Tao Zhang, Liang Xiao, Yang Zong, Weibin Liu, Huanming Yang, Jian Wang, Yong Hou, Xiao Liu, Karsten Kristiansen, Huanzi Zhong, Huijue Jia, Xun Xu
bioRxiv 585893; doi: https://doi.org/10.1101/585893
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A multi-omic cohort as a reference point for promoting a healthy human gut microbiome
Zhuye Jie, Suisha Liang, Qiuxia Ding, Fei Li, Shanmei Tang, Dan Wang, Yuxiang Lin, Peishan Chen, Kaiye Cai, Xuemei Qiu, Qiang Li, Yunli Liao, Dongsheng Zhou, Heng Lian, Yong Zuo, Xiaomin Chen, Weiqiao Rao, Yan Ren, Yuan Wang, Jin Zi, Rong Wang, Hongcheng Zhou, Haorong Lu, Xiaohan Wang, Wei Zhang, Tao Zhang, Liang Xiao, Yang Zong, Weibin Liu, Huanming Yang, Jian Wang, Yong Hou, Xiao Liu, Karsten Kristiansen, Huanzi Zhong, Huijue Jia, Xun Xu
bioRxiv 585893; doi: https://doi.org/10.1101/585893

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