An expanded gene catalog of the mouse gut metagenome
An expanded gene catalog of the mouse gut metagenome
Abstract High-quality and comprehensive reference gene catalogs are essential for metagenomic research. The rather low diversity of samples used to construct existing catalogs of mouse gut metagenomes limits the size and numbers of identified genes in existing catalogs. We therefore established an expanded gene catalog of genes in the mouse gut metagenomes (EMGC) containing >5.8 million genes by integrating 88 newly sequenced samples, 86 mouse-gut-related bacterial genomes and 3 existing gene catalogs. EMGC increases the number on non-redundant genes by more than one million genes compared to the so far most extensive catalog. More than 50% of the genes in EMGC were taxonomically assigned and 30% were functionally annotated. 902 Metagenomic species (MGS) assigned to 122 taxa are identified based on the EMGC. The EMGC-based analysis of samples from groups of mice originating from different animal providers, housing laboratories and genetic strains substantiated that diet is a major contributor to differences in composition and functional potential of the gut microbiota irrespective of differences in environment and genetic background. We envisage that EMGC will serve as an efficient and resource-saving reference dataset for future metagenomic studies in mice.
Li Minli、Ren Huahui、Li Xiaoping、Han Mo、Kristiansen Karsten、Xiao Liang、Zou Yuanqiang、Madsen Lise、Zhu Jiahui、Zhong Huanzi
School of Biological Science and Medical Engineering, Southeast University||State key laboratory of Bioelectronics, Southeast UniversityBGI-Shenzhen||Laboratory of Genomics and Molecular Biomedicine, Department of Biology, University of CopenhagenBGI-Shenzhen||Laboratory of Genomics and Molecular Biomedicine, Department of Biology, University of CopenhagenBGI-Shenzhen||Laboratory of Genomics and Molecular Biomedicine, Department of Biology, University of CopenhagenBGI-Shenzhen||Laboratory of Genomics and Molecular Biomedicine, Department of Biology, University of Copenhagen||Qingdao-Europe Advanced Institute for Life SciencesBGI-Shenzhen||Qingdao-Europe Advanced Institute for Life Sciences||Shenzhen Engineering Laboratory of Detection and Intervention of Human Intestinal MicrobiomeBGI-Shenzhen||Laboratory of Genomics and Molecular Biomedicine, Department of Biology, University of CopenhagenBGI-Shenzhen||Laboratory of Genomics and Molecular Biomedicine, Department of Biology, University of Copenhagen||Institute of Marine ResearchSchool of Biological Science and Medical Engineering, Southeast University||State key laboratory of Bioelectronics, Southeast University||BGI-ShenzhenBGI-Shenzhen||Laboratory of Genomics and Molecular Biomedicine, Department of Biology, University of Copenhagen
微生物学生物科学研究方法、生物科学研究技术分子生物学
Li Minli,Ren Huahui,Li Xiaoping,Han Mo,Kristiansen Karsten,Xiao Liang,Zou Yuanqiang,Madsen Lise,Zhu Jiahui,Zhong Huanzi.An expanded gene catalog of the mouse gut metagenome[EB/OL].(2025-03-28)[2025-04-29].https://www.biorxiv.org/content/10.1101/2020.09.16.299339.点此复制
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