Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA, National Engineering Laboratory for Animal Breeding, Beijing Engineering Technology Research Center of Raw Milk Quality and Safety Control, College of Animal Science and Technology, China Agricultural University, No. 4 Yuanmingyuan West Road, Haidian District, Beijing 100193, PR China.
Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA, National Engineering Laboratory for Animal Breeding, Beijing Engineering Technology Research Center of Raw Milk Quality and Safety Control, College of Animal Science and Technology, China Agricultural University, No. 4 Yuanmingyuan West Road, Haidian District, Beijing 100193, PR China; Beijing Xiangzhong Biotechnology Co. LTD, No. 1 Nongda South Road, Haidian District, Beijing 100080, PR China.
Animal. 2021 Jan;15(1):100066. doi: 10.1016/j.animal.2020.100066. Epub 2020 Dec 9.
Crossbreeding is an essential way of improving herd performance. However, frequent parentage record errors appear, which results in the lower accuracy of genetic parameter estimation and genetic evaluation. This study aims to build a single nucleotide polymorphism (SNP) panel with sufficient power for parentage testing in the crossbred population of Simmental and Holstein cattle. The direct sequencing technique in PCR products of pooling DNA along with matrix-assisted laser desorption/ionization time-of-flight MS method for genotyping the individuals was applied. A panel comprising 50 highly informative SNPs for parentage analysis was developed in the crossbred population. The average minor allele frequency for SNPs was 0.43, and the cumulative probability of exclusion for single-parent and both-parent inference met 0.99797 and 0.999999, respectively. The maker-set for parentage verification was then used in a group of 81 trios with aid of the likelihood-based parentage-assignment program of Cervus software. Reconfirmation with on-farm records showed that this 50-SNP system could provide sufficient and reliable information for parentage testing with the parental errors for mother-offspring and sire-offspring being 8.6 and 18.5%, respectively. In conclusion, a set of low-cost and efficient SNPs for the paternity testing in the Simmental and Holstein crossbred population are provided.
杂交是提高牛群性能的重要方法。然而，频繁出现亲子关系记录错误，导致遗传参数估计和遗传评估的准确性降低。本研究旨在为西门塔尔牛和荷斯坦牛杂交群体的亲子关系测试构建一个具有足够效力的单核苷酸多态性 (SNP) 面板。应用了聚合 DNA 的 PCR 产物直接测序技术和基质辅助激光解吸/电离飞行时间 MS 方法进行个体的基因分型。在杂交群体中开发了一个包含 50 个高度信息性 SNP 的亲子分析面板。SNP 的平均次要等位基因频率为 0.43，单亲和双亲推断的累积排除概率分别达到 0.99797 和 0.999999。然后，使用基于可能性的 Cervus 软件的亲子分配程序，在一组 81 个三亲体中使用标记组进行亲子关系验证。与农场记录的重新确认表明，这个 50-SNP 系统可以为亲子关系测试提供足够和可靠的信息，母-子和父-子的亲子关系错误率分别为 8.6%和 18.5%。总之，提供了一套用于西门塔尔牛和荷斯坦牛杂交群体的低成本、高效的亲子关系测试 SNP。
