A Hu sheep genome with the first ovine Y chromosome reveal introgression history after sheep domestication
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Hu sheep genome with the first ovine Y chromosome reveal introgression history after sheep domestication 1†
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Ran Li , Peng Yang , Ming Li , Wenwen Fang , Xiangpeng Yue , 1 3 1 1 1 Hojjat Asadollahpour Nanaei , Shangquan Gan , Duo Du , Yudong Cai , Xuelei Dai , 1 1 4 5 5 6 Qimeng Yang , Chunna Cao , Weidong Deng , Sangang He , Wenrong Li , Runlin Ma , 5 1* Mingjun Liu & Yu Jiang 1
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Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling 712100, China; State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture and Rural Affairs, Engineering Research Center of Grassland Industry, Ministry of Education, College of Pastoral Agriculture Science and
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Technology, Lanzhou University, Lanzhou 730020, China; State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences,
Shihezi 832000, China; Faculty of Animal Science and Technology, Yunan Agricultural University, Kunming 650201, China; 5 Key Laboratory of Genetics Breeding and Reproduction of Grass feeding Livestock, Ministry of Agriculture, Animal Biotechnology Research Institute, Xinjiang Academy of Animal Science, Urumqi 830026, China; 6 State Key Laboratory of Molecular Developmental Biology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China 4
Received July 4, 2020; accepted August 25, 2020; published online September 24, 2020
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 (oMSY), using nanopore sequencing and Hi-C technologies. The oMSY 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. Y chromosome, sheep, paternal lineage, introgression, de novo assembly Citation:
Li, R., Yang, P., Li, M., Fang, W., Yue, X., Nanaei, H.A., Gan, S., Du, D., Cai, Y., Dai, X., et al. (2020). A Hu sheep genome with the first ovine Y chromosome reveal introgression
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