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Analysis of metagenome-assembled genomes from the mouse gut microbiota reveals distinctive strain-level characteristics

By Shenghui Li, Siyi Zhang, Bo Li, Shanshan Sha, Jian Kang, Peng Li, Aiqin Zhang, Qianru Ji, Qingbo Lv, Xiao-Xuan Zhang, Hongbo Ni, Xiuyan Han, Miao Xu, Guangyang Wang, Wenzhe Zhang, Yuanyuan Sun, Roujia Xu, Yi Xin, Qiulong Yan, Yufang Ma

Posted 31 Jan 2020
bioRxiv DOI: 10.1101/2020.01.29.926196

The laboratorial mouse harbors a unique gut microbiota with potential value for human microbiota-associated studies. Mouse gut microbiota has been explored at the genus and species levels, but features rarely been showed at the strain level. The identification of 833,051 and 658,438 nonredundant genes of faeces and gut content samples from the laboratorial C57/BL mice showed over half of these genes were newly found compared to the previous mouse gut microbial gene catalogue. Metagenome-assembled genomes (MAGs) was used to reconstruct 46 nonredundant MAGs belonging to uncultured specieses. These MAGs included members across all phyla in mouse gut (i.e. Firmicutes, Bacteroidetes, Proteobacteria, Deferribacteres, Verrucomicrobia, and Tenericutes) and allowed a strain-level delineating of the mouse gut microbiota. Comparison of MAGs with human gut colonies revealed distinctive genomic and functional characteristics of mouse's Bacteroidetes and Firmicutes strains. Genomic characteristics of rare phyla in mouse gut microbiota were demonstrated by MAG approach, including strains of Mucispirillum schaedleri , Parasutterella excrementihominis , Helicobacter typhlonius , and Akkermansia muciniphila .

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