数字农科院2.0

Whole-Genome Resequencing of Worldwide Wild and Domestic Sheep Elucidates Genetic Diversity, Introgression, and Agronomically Important Loci

文献类型： 外文期刊

作者： Feng Hua Lv;Yin Hong Cao;Guang Jian Liu;Ling Yun Luo;Ran Lu;Ming Jun Liu;Wen Rong Li;Ping Zhou;Xin Hua Wang;Min Shen;Lei Gao;Jing Quan Yang;Hua Yang;Yong Lin Yang;Chang Bin Liu;Peng Cheng Wan;Yun Sheng Zhang;Wen Hui Pi;Yan Ling Ren;Zhi Qiang Shen;Feng Wang;Yu Tao Wang;Jin Quan Li;Hosein Salehian-Dehkordi;Eer Hehua;Yong Gang Liu;Jian Fei Chen;Jian Kui Wang;Xue Mei Deng;Ali Esmailizadeh;Mostafa Dehghani-Qanatqestani;Hadi Charati;Maryam Nosrati;Ondřej Štěpánek;Hossam E. Rushdi;Ingrid Olsaker;Ino Curik;Neena A. Gorkhali;Samuel R. Paiva;Alexandre R. Caetano;Elena Ciani;Marcel Amills;Christina Weimann;Georg Erhardt;Agraw Amane;Joram M. Mwacharo;Jian Lin Han;Olivier Hanotte;Kathiravan Periasamy;Anna M. Johansson;Jón H. Hallsson;Juha Kantanen;David W. Coltman;Michael W. Bruford;Johannes A. Lenstra;Meng Hua Li

作者机构：

关键词： adaptive introgression;agronomic traits;genetic diversity;genetic selection;migration;whole-genome sequences

期刊名称： Molecular biology and evolution

ISSN： 1537-1719

年卷期： 2022 年 39 卷 2 期

页码：

收录情况： JCR（2021版）

摘要： Domestic sheep and their wild relatives harbor substantial genetic variants that can form the backbone of molecular breeding, but their genome landscapes remain understudied. Here, we present a comprehensive genome resource for wild ovine species, landraces and improved breeds of domestic sheep, comprising high-coverage (∼16.10×) whole genomes of 810 samples from 7 wild species and 158 diverse domestic populations. We detected, in total, ∼121.2 million single nucleotide polymorphisms, ∼61 million of which are novel. Some display significant (P < 0.001) differences in frequency between wild and domestic species, or are private to continent-wide or individual sheep populations. Retained or introgressed wild gene variants in domestic populations have contributed to local adaptation, such as the variation in the HBB associated with plateau adaptation. We identified novel and previously reported targets of selection on morphological and agronomic traits such as stature, horn, tail configuration, and wool fineness. We explored the genetic basis of wool fineness and unveiled a novel mutation (chr25: T7,068,586C) in the 3'-UTR of IRF2BP2 as plausible causal variant for fleece fiber diameter. We reconstructed prehistorical migrations from the Near Eastern domestication center to South-and-Southeast Asia and found two main waves of migrations across the Eurasian Steppe and the Iranian Plateau in the Early and Late Bronze Ages. Our findings refine our understanding of genome variation as shaped by continental migrations, introgression, adaptation, and selection of sheep.

分类号：

  • 相关文献

[1]Genetic variability and population structure of ethiopian sesame (Sesamum indicum l.) germplasm assessed through phenotypic traits and simple sequence repeats markers. Desawi Hdru Teklu,Hussein Shimelis,Abush Tesfaye,Jacob Mashilo,Xiurong Zhang,Yanxin Zhang,Komivi Dossa,Admire Isaac Tichafa Shayanowako. 2021

[2]Genetic diversity of grain yield traits and identification of a grain weight gene SiTGW6 in foxtail millet. Hui Zhang,Sha Tang,Honglu Wang,Yannan Wang,Hui Zhi,Bin Liu,Renliang Zhang,Qian Ma,Guanqing Jia,Baili Feng,Xianmin Diao. 2024

[3]Reconstructing the origin and dispersal patterns of village chickens across East Africa: Insights from autosomal markers. Mwacharo, J. M.,Hanotte, O.,Nomura, K.,Hanada, H.,Amano, T.,Han, J. L.,Han, J. L..

[4]Amplified fragment length polymorphism analysis of Mythimna separata (Lepidoptera : Noctuidae) geographic and melanie laboratory populations in China. Luo, Li-Zhi,Zhang, Lei.

[5]堆形艾美耳球虫巨噬细胞移动抑制因子克隆和表达. 阎晓菲,韩红玉,黄兵,岳城,赵其平,姜连连,董辉,卞庆松,张建哲. 2009

[6]Development and characterization of simple sequence repeat markers providing genome-wide coverage and high resolution in maize. Xu, Jie,Liu, Ling,Chen, Churun,Rong, Tingzhao,Zhou, Shufeng,Wu, Fengkai,Wang, Jing,Cao, Moju,Lu, Yanli,Xu, Jie,Liu, Ling,Chen, Churun,Rong, Tingzhao,Zhou, Shufeng,Wu, Fengkai,Wang, Jing,Cao, Moju,Lu, Yanli,Xu, Yunbi,Xu, Yunbi,Ali, Farhan,Ali, Farhan,Liu, Yaxi.

[7]A genome-wide microsatellite polymorphism database for the Indica and Japonica rice. Zhang, Zhonghua,Deng, Yajun,Tan, Jun,Hu, Songnian,Yu, Jun,Xue, Qingzhong. 2007

[8]Dynamics of Verticillium dahliae race 1 population under managed agricultural ecosystems. Jie Yin Chen,Dan Dan Zhang,Jin Qun Huang,Ran Li,Dan Wang,Jian Song,Krishna D. Puri,Lin Yang,Zhi Qiang Kong,Bang Zhuo Tong,Jun Jiao Li,Yu Shan Huang,Ivan Simko,Steven J. Klosterman,Xiao Feng Dai,Krishna V. Subbarao. 2021

[9]Interploidy Introgression Shaped Adaptation during the Origin and Domestication History of Brassica napus. Tianpeng Wang,Aalt D.J. van Dijk,Johan Bucher,Jianli Liang,Jian Wu,Guusje Bonnema,Xiaowu Wang. 2023

[10]Editorial: Multi-omics strategies to analyze complex agronomic traits in plants. Lin Chen,Guo Fei Tan. 2023

[11]Evolutionary genomics of climatic adaptation and resilience to climate change in alfalfa. Fan Zhang,Ruicai Long,Zhiyao Ma,Hua Xiao,Xiaodong Xu,Zhongjie Liu,Chunxue Wei,Yiwen Wang,Yanling Peng,Xuanwen Yang,Xiaoya Shi,Shuo Cao,Mingna Li,Ming Xu,Fei He,Xueqian Jiang,Tiejun Zhang,Zhen Wang,Xianran Li,Long Xi Yu,Junmei Kang,Zhiwu Zhang,Yongfeng Zhou,Qingchuan Yang. 2024

[12]Evolution and legacy of East Asian aurochs. Hou, Jiawen,Guan, Xiwen,Xia, Xiaoting,Lyu, Yang,Liu, Xin,Mazei, Yuri,Xie, Ping,Chang, Fengqin,Zhang, Xiaonan,Chen, Jialei,Li, Xinyi,Zhang, Fengwei,Jin, Liangliang,Luo, Xiaoyu,Sinding, Mikkel-Holger S.,Sun, Xin,Achilli, Alessandro,Migliore, Nicola Rambaldi,Zhang, Dongju,Lenstra, Johannes A.,Han, Jianlin,Fu, Qiaomei,Liu, Xinyi,Zhang, Xiaoming,Chen, Ningbo,Lei, Chuzhao,Zhang, Hucai. 2024

[13]A Feature Engineering Method for Whole-Genome DNA Sequence with Nucleotide Resolution. Ting Wang,Yunpeng Cui,Tan Sun,Huan Li,Chao Wang,Ying Hou,Mo Wang,Li Chen,Jinming Wu. 2025

[14]The Effect Of Alternate Wetting A.nd Severe Drying Irrigation O n Grain Yield And Water Use Efficiency Of Indica-Japonica Hybrid Rice (Oryza Satival.). Chen, Tingting,Chen, Song,Zhang, Xiufu,Wang, Dangying,Xu, Chunmei,Chu, Guang. 2018

[15]Phenotypic characterization and genetic dissection of nine agronomic traits in Tokachi nagaha and its derived cultivars in soybean (Glycine max (L.) Merr.). Liu, Zhangxiong,Li, Huihui,Li, Yinghui,Guan, Rongxia,Guo, Yong,Chang, Ruzhen,Qiu, Li-Juan,Fan, Xuhong,Wang, Shuming,Huang, Wen,Yang, Jiyu,Wen, Zixiang,Wang, Dechun,Chen, Pengyin.

[16]Genetic discovery for oil production and quality in sesame. Zhang, Yanxin,Wang, Linhai,Li, Donghua,Zhu, Xiaodong,Zhu, Xiaofeng,Gao, Yuan,Zhang, Xiurong,Liu, Kunyan,Feng, Qi,Zhao, Yan,Zhao, Qiang,Li, Wenjun,Fan, Danlin,Lu, Yiqi,Zhou, Congcong,Zhu, Chuanrang,Tian, Qilin,Wen, Ziruo,Weng, Qijun,Han, Bin,Huang, Xuehui,Zhang, Xianmei,Liu, Lifeng,Tang, Xiumei,Zhong, Ruichun.

[17]Characterization of a Novel Chlorophyll-Deficient Mutant Mt6172 in Wheat. Guo Hui-jun,Liu Qing-chang,Guo Hui-jun,Zhao Hong-bing,Zhao Lin-shu,Gu Jia-yu,Zhao Shi-rong,Li Jun-hui,Liu Lu-xiang. 2012

[18]Effects of the Vrn-D1b allele associated with facultative growth habit on agronomic traits in common wheat. Meng, Ling-zhi,Liu, Hong-wei,Yang, Li,Li, Hong-jie,Zhang, Hong-jun,Zhou, Yang,Mai, Chun-yan,Yu, Li-qiang.

[19]QTL mapping for agronomic traits using multi-parent advanced generation inter-cross (MAGIC) populations derived from diverse elite indica rice lines. Meng, Lijun,Zhao, Xiangqian,Ponce, Kimberly,Ye, Guoyou,Leung, Hei,Meng, Lijun.

[20]Quantitative trait loci underlying the development of seed composition in soybean (Glycine max L. Merr.). Li, Wenbin,Sun, Desheng,Du, Yuping,Chen, Qingshan,Zhang, Zhongchen,Qiu, Lijuan,Sun, Genlou.

作者其他论文 更多>>