Xiao Zhanjun, Li Yuchao, Yang Li, Cui Mingyan, Wang Zicheng, Sun Wenqiang, Wang Jie, Chen Shiyi, Lai Songjia, Jia Xianbo
Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China.
College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 610000, China.
Animals (Basel). 2024 Jul 18;14(14):2096. doi: 10.3390/ani14142096.
The application of heterosis can not only effectively improve the disease resistance and meat quality of livestock, but also significantly enhance the reproduction and growth of livestock and poultry. We conducted genome-wide association studies using data from F2 crossbred meat rabbits to screen out candidate genes with significant dominant effects associated with economic trait variation. High-throughput sequencing technology was used to obtain SNPs covering the whole genome to evaluate the homozygosity of the population genome, and analyze the number, length, frequency, and distribution of ROHs in the population. Candidate genes related to economic traits of meat rabbits were searched based on high-frequency ROH regions. After quality control filtering of genotype data, 380 F2 crossbred rabbits were identified with 78,579 SNPs and 42,018 ROHs on the autosomes. The fitting of the Logistic growth curve model showed that 49-day-old rabbits were a growth inflection point. Then, through genome-wide association studies, 10 SNP loci and seven growth trait candidate genes were found to be significantly related to body weight in meat rabbits at 84 days of age. In addition, we revealed the functional roles and locations of 20 candidate genes in the high-frequency ROH region associated with economic traits in meat rabbits. This study identified potential genes associated with growth and development in the high-frequency ROH region of meat rabbits. In this study, the identified candidate genes can be used as molecular markers for assisted selection in meat rabbits. At the same time, the inbreeding situation based on ROH assessment can provide reference for breeding and breeding preservation of meat rabbits.
杂种优势的应用不仅可以有效提高家畜的抗病能力和肉质，还能显著增强畜禽的繁殖能力和生长性能。我们利用F2杂交肉兔的数据进行全基因组关联研究，以筛选出与经济性状变异相关的具有显著显性效应的候选基因。采用高通量测序技术获取覆盖全基因组的单核苷酸多态性（SNP），以评估群体基因组的纯合性，并分析群体中纯合片段（ROH）的数量、长度、频率和分布。基于高频ROH区域搜索与肉兔经济性状相关的候选基因。对基因型数据进行质量控制过滤后，在常染色体上鉴定出380只F2杂交兔，包含78,579个SNP和42,018个ROH。Logistic生长曲线模型拟合显示，49日龄的兔子是一个生长转折点。然后，通过全基因组关联研究，发现10个SNP位点和7个生长性状候选基因与84日龄肉兔的体重显著相关。此外，我们揭示了20个候选基因在与肉兔经济性状相关的高频ROH区域中的功能作用和位置。本研究在肉兔高频ROH区域鉴定出与生长发育相关的潜在基因。在本研究中，鉴定出的候选基因可作为肉兔辅助选择的分子标记。同时，基于ROH评估的近交情况可为肉兔的育种和保种提供参考。
