Panoramic Insights into Microevolution and Macroevolution of A Prevotella copri-containing Lineage in Primate Guts  

作　　者：Hao Li Jan P.Meier-Kolthoff Canxin Hu Zhongjie Wang Jun Zhu Wei Zheng Yun Tian Feng Guo 

机构地区：[1]School of Life Sciences,Xiamen University,Xiamen 361102,China [2]Department of Bioinformatics,Leibniz Institute DSMZ–German Collection of Microorganisms and Cell Cultures,D-38124 Braunschweig,Germany [3]Fujian Provincial Universities Key Laboratory of Microbial Resource,Xiamen University,Xiamen 361102,China

出　　处：《Genomics, Proteomics & Bioinformatics》2022年第2期334-349,共16页基因组蛋白质组与生物信息学报（英文版）

基　　金：supported by the National Natural Science Foundation of China(Grant Nos.31670492 and 31500100).

摘　　要：Prevotella copri and its related taxa are widely detected in mammalian gut microbiomes and have been linked with an enterotype in humans.However,their microevolution and macroevolution among hosts are poorly characterized.In this study,extensively collected marker genes and genomes were analyzed to trace their evolutionary history,host specificity,and biogeographic distribution.Investigations based on marker genes and genomes suggest that a P.copri-containing lineage(PCL)harbors diverse species in higher primates.Firstly,P.copri in the human gut consisted of multiple groups exhibiting high genomic divergence and conspicuous but non-strict biogeographic patterns.Most African strains with high genomic divergence from other strains were phylogenetically located at the root of the species,indicating the co-evolutionary history of P.copri and Homo sapiens.Secondly,although long-term co-evolution between PCL and higher primates was revealed,sporadic signals of co-speciation and extensive host jumping of PCL members were suggested among higher primates.Metagenomic and phylogenetic analyses indicated that P.copri and other PCL species found in domesticated mammals had been recently transmitted from humans.Thirdly,strong evidence was found on the extensively horizontal transfer of genes(e.g.,genes encoding carbohydrate-active enzymes)among sympatric P.copri groups and PCL species in the same primate host.Our study provides panoramic insights into the combined effects of vertical and horizontal transmission,as well as potential niche adaptation,on the microevolutionary and macroevolutionary history for an enterotyperepresentative lineage.

关 键 词：Prevotella copri Co-speciation Gut microbiome Host Biogeography 

分 类 号：Q951.3[生物学—动物学]