NWIPB OpenIR
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
发表期刊GENOME BIOLOGY AND EVOLUTION
卷号7期号:8页码:2352-2361
文章类型Article
摘要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.
关键词Cnv Y-chromosomal Snps Mtdna D-loop Parental Origin
WOS标题词Science & Technology ; Life Sciences & Biomedicine
关键词[WOS]GENOME-WIDE SURVEY ; GENETIC DIVERSITY ; HOLSTEIN CATTLE ; ZEBU CATTLE ; EVOLUTION ; SNP ; DOMESTICATION ; MITOCHONDRIAL ; TAURINE ; POLYMORPHISMS
收录类别SCI
语种英语
WOS研究方向Evolutionary Biology ; Genetics & Heredity
WOS类目Evolutionary Biology ; Genetics & Heredity
WOS记录号WOS:000360819300021
引用统计
被引频次:13[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://210.75.249.4/handle/363003/5527
专题中国科学院西北高原生物研究所
作者单位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
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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.
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