PDF(Pubmed)
Abstract：
Copy number variation (CNV) serves as a significant source of genetic diversity in mammals and exerts substantial effects on various complex traits. Pingliang red cattle, an outstanding indigenous resource in China, possess remarkable breeding value attributed to their tender meat and superior marbling quality. However, the genetic mechanisms influencing carcass and meat quality traits in Pingliang red cattle are not well understood. We generated a comprehensive genome-wide CNV map for Pingliang red cattle using the GGP Bovine 100K SNP chip. A total of 755 copy number variable regions (CNVRs) spanning 81.03 Mb were identified, accounting for approximately 3.24% of the bovine autosomal genome. Among these, we discovered 270 potentially breed-specific CNVRs in Pingliang red cattle, including 143 gains, 73 losses, and 54 mixed events. Functional annotation analysis revealed significant associations between these specific CNVRs and important traits such as carcass and meat quality, reproduction, exterior traits, growth traits, and health traits. Additionally, our network and transcriptome analysis highlighted CACNA2D1, CYLD, UBXN2B, TG, NADK, and ITGA9 as promising candidate genes associated with carcass weight and intramuscular fat deposition. The current study presents a genome-wide CNV map in Pingliang red cattle, highlighting breed-specific CNVRs, and transcriptome findings provide valuable insights into the underlying genetic characteristics of Pingliang red cattle. These results offer potential avenues for enhancing meat quality through a targeted breeding program.
摘要：
拷贝数变异（CNV）是哺乳动物遗传多样性的重要来源，并对各种复杂性状产生重大影响。平凉红牛,中国优秀的本土资源，具有显着的育种价值归因于其嫩肉和优越的大理石花纹品质。然而,影响平凉红牛car体和肉质性状的遗传机制尚不清楚。我们使用GGP牛100KSNP芯片生成了平凉红牛的全基因组CNV图谱。总共鉴定了755个拷贝数可变区（CNVR），跨越81.03Mb，约占牛常染色体基因组的3.24%。其中,我们在平凉红牛中发现了270个潜在的品种特异性CNVRs，包括143个收益，73损失，和54个混合事件。功能注释分析揭示了这些特定的CNVRs与重要性状（如car体和肉质）之间的显着关联。繁殖，外部特征，生长性状，和健康特征。此外,我们的网络和转录组分析强调了CACNA2D1，CYLD，UBXN2B,TG,NADK,和ITGA9是与car体重量和肌内脂肪沉积相关的有希望的候选基因。目前的研究提出了平凉红牛的全基因组CNV图谱，突出特定品种的CNVRs，和转录组发现为平凉红牛的潜在遗传特征提供了有价值的见解。这些结果为通过有针对性的育种计划提高肉类质量提供了潜在的途径。
