A Hu sheep genome with the first ovine Y chromosome reveal introgression history after sheep domestication

作     者：Ran Li Peng Yang Ming Li Wenwen Fang Xiangpeng Yue Hojjat Asadollahpour Nanaei Shangquan Gan Duo Du Yudong Cai Xuelei Dai Qimeng Yang Chunna Cao Weidong Deng Sangang He Wenrong Li Runlin Ma Mingjun Liu Yu Jiang Ran Li;Peng Yang;Ming Li;Wenwen Fang;Xiangpeng Yue;Hojjat Asadollahpour Nanaei;Shangquan Gan;Duo Du;Yudong Cai;Xuelei Dai;Qimeng Yang;Chunna Cao;Weidong Deng;Sangang He;Wenrong Li;Runlin Ma;Mingjun Liu;Yu Jiang

作者机构：Key Laboratory ofAnimal GeneticsBreeding and Reproduction of Shaanxi ProvinceCollege of Animal Science and TechnologyNorthwest A&F UniversityYangling 712100China State Key Laboratory of Grassland Agro-ecosystemsKey Laboratory of Grassland Livestock Industry InnovationMinistry of Agriculture and Rural AffairsEngineering Research Center of Grassland IndustryMinistry of EducationCollege of Pastoral Agriculture Science and TechnologyLanzhou UniversityLanzhou 730020China State Key Laboratory of Sheep Genetic Improvement and Healthy ProductionXinjiang Academy of Agricultural and Reclamation SciencesShihezi 832000China Faculty of Animal Science and TechnologyYunan Agricultural UniversityKunming 650201China Key Laboratory of Genetics Breeding and Reproduction of Grass feeding LivestockMinistry of AgricultureAnimal Biotechnology Research InstituteXinjiang Academy of Animal ScienceUrumqi 830026China State Key Laboratory of Molecular Developmental BiologyInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China 

出 版 物：《Science China(Life Sciences)》 (中国科学（生命科学英文版）)

年 卷 期：2021年第64卷第7期

页      面：1116-1130页

核心收录：

学科分类：0710[理学-生物学] 0830[工学-环境科学与工程（可授工学、理学、农学学位）] 0905[农学-畜牧学] 09[农学] 090501[农学-动物遗传育种与繁殖] 

基　　金：supported by the National Natural Science Foundation of China(31822052) the National Thousand Youth Talents Plan,Natural Science Foundation of China(31802027) Natural Science Basic Research Plan in Shaanxi Province of China(2019JQ002)。 

主　　题：Y chromosome sheep paternal lineage introgression de novo assembly 

摘      要：The Y chromosome plays key roles in male fertility and reflects the evolutionary history of paternal lineages.Here,we present a de novo genome assembly of the Hu sheep with the first draft assembly of ovine Y chromosome(o MSY),using nanopore sequencing and Hi-C technologies.The o MSY that we generated spans 10.6 Mb from which 775 Y-SNPs were identified by applying a large panel of whole genome sequences from worldwide sheep and wild Iranian mouflons.Three major paternal lineages(HY1a,HY1b and HY2)were defined across domestic sheep,of which HY2 was newly detected.Surprisingly,HY2 forms a monophyletic clade with the Iranian mouflons and is highly divergent from both HY1a and HY1b.Demographic analysis of Y chromosomes,mitochondrial and nuclear genomes confirmed that HY2 and the maternal counterpart of lineage C represented a distinct wild mouflon population in Iran that diverge from the direct ancestor of domestic sheep,the wild mouflons in Southeastern Anatolia.Our results suggest that wild Iranian mouflons had introgressed into domestic sheep and thereby introduced this Iranian mouflon specific lineage carrying HY2 to both East Asian and Africa sheep populations.