Mekonnen Kefala Taye, Lee Dong-Hui, Cho Young-Gyu, Son Ah-Yeong, Seo Kang-Seok
Department of Animal Science and Technology, Sunchon National University, Suncheon 57922, Republic of Korea.
Department of Animal Science, College of Agriculture and Environmental Science, Arsi University, Asella P.O. Box 193, Ethiopia.
Animals (Basel). 2024 Sep 9;14(17):2621. doi: 10.3390/ani14172621.
The purpose of this study was to estimate the homozygosity distribution and compute genomic and conventional inbreeding coefficients in three genetically diverse pig breed populations. The genomic and pedigree data of Duroc (1586), Landrace (2256), and Yorkshire (3646) were analyzed. We estimated and compared various genomic and pedigree inbreeding coefficients using different models and approaches. A total of 709,384 ROH segments in Duroc, 816,898 in Landrace, and 1,401,781 in Yorkshire, with average lengths of 53.59 Mb, 56.21 Mb, and 53.46 Mb, respectively, were identified. Relatively, the Yorkshire breed had the shortest ROH segments, whereas the Landrace breed had the longest mean ROH segments. chromosome 1 (SSC1) had the highest chromosomal coverage by ROH across all breeds. Across breeds, an absolute correlation (1.0) was seen between F total and F, showing that short ROH were the primary contributors to overall F values. The overall association between genomic and conventional inbreeding was weak, with values ranging from 0.058 to 0.140. In contrast, total genomic inbreeding (F) and ROH classes showed a strong association, ranging from 0.663 to 1.00, across the genotypes. The results of genomic and conventional inbreeding estimates improve our understanding of the genetic diversity among genotypes.
本研究的目的是估计三个遗传背景不同的猪品种群体的纯合性分布，并计算基因组和传统近亲繁殖系数。分析了杜洛克猪（1586头）、长白猪（2256头）和大白猪（3646头）的基因组和系谱数据。我们使用不同的模型和方法估计并比较了各种基因组和系谱近亲繁殖系数。在杜洛克猪中总共鉴定出709,384个连续纯合区域（ROH）片段，长白猪中有816,898个，大白猪中有1,401,781个，平均长度分别为53.59 Mb、56.21 Mb和53.46 Mb。相对而言，大白猪品种的ROH片段最短，而长白猪品种的平均ROH片段最长。1号染色体（SSC1）在所有品种中被ROH覆盖的染色体区域比例最高。在所有品种中，总F值（F total）和F值之间存在绝对相关性（1.0），表明短ROH是总体F值的主要贡献者。基因组近亲繁殖和传统近亲繁殖之间的总体关联较弱，值在0.058至0.140之间。相比之下，总基因组近亲繁殖（F）和ROH类别在不同基因型之间显示出很强的相关性，范围从0.663到1.00。基因组和传统近亲繁殖估计的结果有助于我们更好地理解不同基因型之间的遗传多样性。
