Martinez-Castillero Maria, Then Carlos, Altarriba Juan, Srihi Houssemeddine, López-Carbonell David, Díaz Clara, Martinez Paulino, Hermida Miguel, Varona Luis
Instituto Agroalimentario de Aragón (IA2), Universidad de Zaragoza, 50013 Zaragoza, Spain.
Instituto Nacional de Investigación y Tecnología Agraria (INIA), 28040 Madrid, Spain.
Animals (Basel). 2021 Jun 4;11(6):1682. doi: 10.3390/ani11061682.
The breeding scheme in the Rubia Gallega cattle population is based upon traits measured in farms and slaughterhouses. In recent years, genomic evaluation has been implemented by using a ssGBLUP (single-step Genomic Best Linear Unbiased Prediction). This procedure can reparameterized to perform ssGWAS (single-step Genome Wide Association Studies) by backsolving the SNP (single nucleotide polymorphisms) effects. Therefore, the objective of this study was to identify genomic regions associated with the genetic variability in growth and carcass quality traits. We implemented a ssGBLUP by using a database that included records for Birth Weight (BW-327,350 records-), Weaning Weight (WW-83,818-), Cold Carcass Weight (CCW-91,621-), Fatness (FAT-91,475-) and Conformation (CON-91,609-). The pedigree included 464,373 individuals, 2449 of which were genotyped. After a process of filtering, we ended up using 43,211 SNP markers. We used the GBLUP and SNPBLUP model equivalences to obtain the effects of the SNPs and then calculated the percentage of variance explained by the regions of the genome between 1 Mb. We identified 7 regions of the genome for CCW; 8 regions for BW, WW, FAT and 9 regions for CON, which explained the percentage of variance above 0.5%. Furthermore, a number of the genome regions had pleiotropic effects, located at: BTA1 (131-132 Mb), BTA2 (1-11 Mb), BTA3 (32-33 Mb), BTA6 (36-38 Mb), BTA16 (24-26 Mb), and BTA 21 (56-57 Mb). These regions contain, amongst others, the following candidate genes: , , , , , and .
加利西亚茜草色牛种群的育种计划基于在农场和屠宰场测量的性状。近年来，通过使用单步基因组最佳线性无偏预测（ssGBLUP）实施了基因组评估。该程序可以重新参数化，通过反解单核苷酸多态性（SNP）效应来进行单步全基因组关联研究（ssGWAS）。因此，本研究的目的是确定与生长和胴体品质性状遗传变异相关的基因组区域。我们使用一个数据库实施了ssGBLUP，该数据库包含出生体重（BW - 327,350条记录）、断奶体重（WW - 83,818条）、冷胴体重（CCW - 91,621条）、脂肪含量（FAT - 91,475条）和体型（CON - 91,609条）的记录。系谱包括464,373个个体，其中2449个进行了基因分型。经过筛选过程后，我们最终使用了43,211个SNP标记。我们利用GBLUP和SNPBLUP模型等效性来获得SNP的效应，然后计算1 Mb之间基因组区域解释的方差百分比。我们确定了CCW的7个基因组区域；BW、WW、FAT的8个区域和CON的9个区域，这些区域解释的方差百分比高于0.5%。此外，一些基因组区域具有多效性，位于：牛1号染色体（BTA1，131 - 132 Mb）、牛2号染色体（BTA2，1 - 11 Mb）、牛3号染色体（BTA3，32 - 33 Mb）、牛6号染色体（BTA6，36 - 38 Mb）、牛16号染色体（BTA16，24 - 26 Mb）和牛21号染色体（BTA 21，56 - 57 Mb）。这些区域包含以下候选基因等：……（此处原文未完整列出候选基因名称）
