Gut microbial genomes with paired isolates from China signify probiotic and cardiometabolic effects
Author:
Huang Pan, Dong Quanbing, Wang Yifeng, Tian Yunfan, Wang Shunhe, Zhang Chengcheng, Yu Leilei, Tian Fengwei, Gao Xiaoxiang, Guo Hang, Yi Shanrong, Li Mingyang, Liu Yang, Zhang Qingsong, Lu Wenwei, Wang Gang, Yang Bo, Cui Shumao, Hua Dongxu, Wang Xiuchao, Jiao Yuwen, Liu Lu, Deng Qiufeng, Ma Beining, Wu Tingting, Zou Huayiyang, Shi Jing, Zhang Haifeng, Fan Daming, Sheng Yanhui, Zhao Jianxin, Tang Liming, Zhang Hao, Sun Wei, Chen Wei, Kong Xiangqing, Chen LianminORCID, Zhai Qixiao,
Abstract
SUMMARYThe gut microbiome displays significant genetic differences between populations while systematic characterization of the genomic landscape of the gut microbiome in Asia populations remains limited. Here, we present the Chinese gut microbial reference (CGMR) set, comprising 101,060 high quality metagenomic assembled genomes (MAGs) of 3,707 non-redundant species paired with 1,376 live isolates from a national wide collection of 3,234 fecal samples across China. This improved reference set contains 987 novel species compared with existing resources worldwide. By associating MAGs with geographic and phenotypic characteristics, we observed regional-specific coexisting MAGs and MAGs with probiotic and cardiometabolic functionalities. We further conducted mice experiments to confirm the probiotic effects of twoFaecalibacterium intestinalisisolates in alleviating constipation, the cardiometabolic influences of threeBacteroides fragilis_Aisolates in obesity, and the functional potential of isolates from the two new species belonging to the generaParabacteroidesandLactobacillusin host lipids metabolism. Our study not only expands the current microbial genomes with paired isolates but also demonstrates their probiotic and cardiometabolic effects on hosts, contributing to the mechanistic understanding of host-microbe interactions and the translation of microbiome-based personalized therapies.
Publisher
Cold Spring Harbor Laboratory
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