Telomere-to-telomere genome assembly of a male goat reveals variants associated with cashmere traits
文献类型： 外文期刊
作者： Wu, Hui 1 ; Luo, Ling-Yun 1 ; Zhang, Ya-Hui 1 ; Zhang, Chong-Yan 5 ; Huang, Jia-Hui 1 ; Mo, Dong-Xin 1 ; Zhao, Li-Ming 6 ; Wang, Zhi-Xin 5 ; Wang, Yi-Chuan 5 ; He-Hua, Eer 7 ; Bai, Wen-Lin 8 ; Han, Di 9 ; Dou, Xing-Tang 10 ; Ren, Yan-Ling 11 ; Dingkao, Renqing 12 ; Chen, Hai-Liang 13 ; Ye, Yong 14 ; Du, Hai-Dong 14 ; Zhao, Zhan-Qiang 14 ; Wang, Xi-Jun 15 ; Jia, Shan-Gang 16 ; Liu, Zhi-Hong 5 ; Li, Meng-Hua 1 ;
作者机构： 1.China Agr Univ, Frontiers Sci Ctr Mol Design Breeding MOE, Beijing 100193, Peoples R China
2.China Agr Univ, State Key Lab Anim Biotech Breeding, Beijing 100193, Peoples R China
3.China Agr Univ, Coll Anim Sci & Technol, Beijing 100193, Peoples R China
4.Chinese Acad Agr Sci, Northern Agr & Livestock Husb Tech Innovat Ctr, Hohhot, Peoples R China
5.Inner Mongolia Agr Univ, Coll Anim Sci, Hohhot, Peoples R China
6.Lanzhou Univ, Coll Pastoral Agr Sci & Technol, State Key Lab Herbage Improvement & Grassland Agro, Lanzhou 730020, Peoples R China
7.NingXia Acad Agr & Forestry Sci, Inst Anim Sci, Yinchuan, Peoples R China
8.Shenyang Agr Univ, Coll Anim Sci & Vet Med, Shenyang, Peoples R China
9.Petrochina Liaoyang Petrochem Co, Liaoyang Liaoning 111003, Peoples R China
10.Liaoning Prov Liaoning Cashmere Goat Original Bree, Liaoyang, Peoples R China
11.Shandong Binzhou Anim Sci & Vet Med Acad, Binzhou, Peoples R China
12.Gannan Inst Anim Husb Sci, Hezuo, Peoples R China
13.Beijing Lvyeqingchuan Zoo Co Ltd, Beijing, Peoples R China
14.Zhongwei Goat Breeding Ctr Ningxia Prov, Zhongwei, Peoples R China
15.Jining Life Sci Ctr, Jining, Peoples R China
16.China Agr Univ, Coll Grassland Sci & Technol, Beijing, Peoples R China
期刊名称：NATURE COMMUNICATIONS （ 影响因子：15.7； 五年影响因子：17.2 ）
ISSN：
年卷期： 2024 年 15 卷 1 期
页码：
收录情况： SCI
摘要： A complete goat (Capra hircus) reference genome enhances analyses of genetic variation, thus providing insights into domestication and selection in goats and related species. Here, we assemble a telomere-to-telomere (T2T) gap-free genome (2.86 Gb) from a cashmere goat (T2T-goat1.0), including a Y chromosome of 20.96 Mb. With a base accuracy of >99.999%, T2T-goat1.0 corrects numerous genome-wide structural and base errors in previous assemblies and adds 288.5 Mb of previously unresolved regions and 446 newly assembled genes to the reference genome. We sequence the genomes of five representative goat breeds for PacBio reads, and use T2T-goat1.0 as a reference to identify a total of 63,417 structural variations (SVs) with up to 4711 (7.42%) in the previously unresolved regions. T2T-goat1.0 was applied in population analyses of global wild and domestic goats, which revealed 32,419 SVs and 25,397,794 SNPs, including 870 SVs and 545,026 SNPs in the previously unresolved regions. Also, our analyses reveal a set of selective variants and genes associated with domestication (e.g., NKG2D and ABCC4) and cashmere traits (e.g., ABCC4 and ASIP).
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