Knowledge Management System of Northwest Institute of Plateau Biology, CAS
| Impact of Parental Bos taurus and Bos indicus Origins on Copy Number Variation in Traditional Chinese Cattle Breeds | |
| Zhang, Liangzhi1,2; Jia, Shangang1; Plath, Martin1; Huang, Yongzhen1; Li, Congjun3; Lei, Chuzhao1; Zhao, Xin1; Chen, Hong1 | |
| 2015-08-01 | |
| Source Publication | GENOME BIOLOGY AND EVOLUTION
 |
| Volume | 7Issue:8Pages:2352-2361 |
| Subtype | Article |
| Abstract | Copy number variation (CNV) is an important component of genomic structural variation and plays a role not only in evolutionary diversification but also in domestication. Chinese cattle were derived from Bos taurus and Bos indicus, and several breeds presumably are of hybrid origin, but the evolution of CNV regions (CNVRs) has not yet been examined in this context. Here, we of CNVRs, mtDNA D-loop sequence variation, and Y-chromosomal single nucleotide polymorphisms to assess the impact of maternal and paternal B. taurus and B. indicus origins on the distribution of CNVRs in 24 Chinese domesticated bulls. We discovered 470 genome-wide CNVRs, only 72 of which were shared by all three Y-lineages (B. taurus: Y-1, Y-2; B. indicus: Y-3), whereas 265 were shared by inferred taurine or indicine paternal lineages, and 228 when considering their maternal taurine or indicine origins. Phylogenetic analysis uncovered eight taurine/indicine hybrids, and principal component analysis on CNVs corroborated genomic exchange during hybridization. The distribution patterns of CNVRs tended to be lineage-specific, and correlation analysis revealed significant positive or negative co-occurrences of CNVRs across lineages. Our study suggests that CNVs in Chinese cattle partly result from selective breeding during domestication, but also from hybridization and introgression.; Copy number variation (CNV) is an important component of genomic structural variation and plays a role not only in evolutionary diversification but also in domestication. Chinese cattle were derived from Bos taurus and Bos indicus, and several breeds presumably are of hybrid origin, but the evolution of CNV regions (CNVRs) has not yet been examined in this context. Here, we of CNVRs, mtDNA D-loop sequence variation, and Y-chromosomal single nucleotide polymorphisms to assess the impact of maternal and paternal B. taurus and B. indicus origins on the distribution of CNVRs in 24 Chinese domesticated bulls. We discovered 470 genome-wide CNVRs, only 72 of which were shared by all three Y-lineages (B. taurus: Y-1, Y-2; B. indicus: Y-3), whereas 265 were shared by inferred taurine or indicine paternal lineages, and 228 when considering their maternal taurine or indicine origins. Phylogenetic analysis uncovered eight taurine/indicine hybrids, and principal component analysis on CNVs corroborated genomic exchange during hybridization. The distribution patterns of CNVRs tended to be lineage-specific, and correlation analysis revealed significant positive or negative co-occurrences of CNVRs across lineages. Our study suggests that CNVs in Chinese cattle partly result from selective breeding during domestication, but also from hybridization and introgression. |
| Keyword | Cnv Y-chromosomal Snps Mtdna D-loop Parental Origin |
| WOS Headings | Science & Technology ; Life Sciences & Biomedicine |
| WOS Keyword | GENOME-WIDE SURVEY ; GENETIC DIVERSITY ; HOLSTEIN CATTLE ; ZEBU CATTLE ; EVOLUTION ; SNP ; DOMESTICATION ; MITOCHONDRIAL ; TAURINE ; POLYMORPHISMS |
| Indexed By | SCI |
| Language | 英语 |
| WOS Research Area | Evolutionary Biology ; Genetics & Heredity |
| WOS Subject | Evolutionary Biology ; Genetics & Heredity |
| WOS ID | WOS:000360819300021 |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://210.75.249.4/handle/363003/5527 |
| Collection | 中国科学院西北高原生物研究所 |
| Affiliation | 1.Northwest A&F Univ, Coll Anim Sci & Technol, Shaanxi Key Lab Mol Biol Agr, Yangling, Shaanxi, Peoples R China 2.Chinese Acad Sci, Northwest Inst Plateau Biol, Key Lab Adaptat & Evolut Plateau Biota, Beijing 100864, Peoples R China 3.USDA ARS, Bovine Funct Genom Lab, Beltsville, MD USA |
| Recommended Citation GB/T 7714 | Zhang, Liangzhi,Jia, Shangang,Plath, Martin,et al. Impact of Parental Bos taurus and Bos indicus Origins on Copy Number Variation in Traditional Chinese Cattle Breeds[J]. GENOME BIOLOGY AND EVOLUTION,2015,7(8):2352-2361. |
| APA | Zhang, Liangzhi.,Jia, Shangang.,Plath, Martin.,Huang, Yongzhen.,Li, Congjun.,...&Chen, Hong.(2015).Impact of Parental Bos taurus and Bos indicus Origins on Copy Number Variation in Traditional Chinese Cattle Breeds.GENOME BIOLOGY AND EVOLUTION,7(8),2352-2361. |
| MLA | Zhang, Liangzhi,et al."Impact of Parental Bos taurus and Bos indicus Origins on Copy Number Variation in Traditional Chinese Cattle Breeds".GENOME BIOLOGY AND EVOLUTION 7.8(2015):2352-2361. |
| Files in This Item: | Download All | |||||
| File Name/Size | DocType | Version | Access | License | ||
| Zhang-2015-Impact of（656KB） | 开放获取 | CC BY-NC-SA | View Download | |||
Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.
Edit Comment