华大基因团队:1520个人肠道单细菌参考基因组,助力菌群研究

创作:李丹宜 审核:李丹宜 03月01日
用培养组学分离>6000个人粪便菌株,得到1520个高质量单菌基因组草图(338个种),构成可培养基因组参考(CGR)数据集;
包括人肠道的主要细菌门和属,含至少264个新参考基因组,有不少低丰度菌,丰富了现有参考基因组,提高了宏基因组学分析的分辨率(读段比对率和SNP分析等);
对CGR的功能注释加深了对肠道菌功能的认知;
对38种重要菌的泛基因组分析,揭示不同菌门的泛基因组开合趋势和在各自核心和非核心基因组上功能富集的差异。
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Nature Biotechnology [IF:31.864]

1,520 reference genomes from cultivated human gut bacteria enable functional microbiome analyses

来自培养的人肠道细菌的1520个参考基因组,促进功能微生物组分析

10.1038/s41587-018-0008-8

02-04, Article

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Reference genomes are essential for metagenomic analyses and functional characterization of the human gut microbiota. We present the Culturable Genome Reference (CGR), a collection of 1,520 nonredundant, high-quality draft genomes generated from >6,000 bacteria cultivated from fecal samples of healthy humans. Of the 1,520 genomes, which were chosen to cover all major bacterial phyla and genera in the human gut, 264 are not represented in existing reference genome catalogs. We show that this increase in the number of reference bacterial genomes improves the rate of mapping metagenomic sequencing reads from 50% to >70%, enabling higher-resolution descriptions of the human gut microbiome. We use the CGR genomes to annotate functions of 338 bacterial species, showing the utility of this resource for functional studies. We also carry out a pan-genome analysis of 38 important human gut species, which reveals the diversity and specificity of functional enrichment between their core and dispensable genomes.

First Authors:
Yuanqiang Zou,Wenbin Xue,Guangwen Luo,Ziqing Deng,Panpan Qin

Correspondence Authors:
Junhua Li,Huijue Jia,Liang Xiao

All Authors:
Yuanqiang Zou,Wenbin Xue,Guangwen Luo,Ziqing Deng,Panpan Qin,Ruijin Guo,Haipeng Sun,Yan Xia,Suisha Liang,Ying Dai,Daiwei Wan,Rongrong Jiang,Lili Su,Qiang Feng,Zhuye Jie,Tongkun Guo,Zhongkui Xia,Chuan Liu,Jinghong Yu,Yuxiang Lin,Shanmei Tang,Guicheng Huo,Xun Xu,Yong Hou,Xin Liu,Jian Wang,Huanming Yang,Karsten Kristiansen,Junhua Li,Huijue Jia,Liang Xiao