韩国合成猪品种,Woori-Heukdon(WRH;F3),是通过将亲本品种(韩国本地猪[KNP]和韩国杜洛克[DUC])与其杂交种群(F1和F2)杂交而开发的。这项全基因组研究使用IlluminaPorcineSNP60BeadChip评估了总共2,074头猪,其中包括杂交和亲本种群。在对初始数据集进行质量控制之后,我们进行了人口结构,遗传多样性,和纯合性(ROH)分析的运行。种群结构分析表明,根据杂交方案中的世代阶段,杂交种群受到亲本品种的遗传影响。此外,主成分分析显示WRH的分散簇,这可能反映出在前一个育种小组中引入了一个新的育种小组。预期杂合性值,用于评估遗传多样性,WRH分别为.365、.349、.336、.330和.211,F2,F1,DUC,和KNP,分别。基于ROH的近交系数在KNP中最高(.409),其次是WRH(.186),DUC(.178),F2(.107),和F1(.035)。此外,短ROH的频率根据交叉阶段(从F1到WRH)而降低。或者,中长ROH频率增加,这表明最近在F2和WRH的近亲繁殖。此外,WRH中可能从其亲本品种遗传的ROH岛的基因注释揭示了几个可能与适应有关的有趣的候选基因,肉质,生产,和猪的繁殖特性。
A Korean synthetic pig breed, Woori-Heukdon (WRH; F3), was developed by crossing parental breeds (Korean native pig [KNP] and Korean Duroc [DUC]) with their crossbred populations (F1 and F2). This study in genome-wide assessed a total of 2,074 pigs which include the crossbred and the parental populations using the Illumina PorcineSNP60 BeadChip. After quality control of the initial datasets, we performed population structure, genetic diversity, and runs of homozygosity (ROH) analyses. Population structure analyses showed that crossbred populations were genetically influenced by the parental breeds according to their generation stage in the crossbreeding scheme. Moreover, principal component analysis showed the dispersed cluster of WRH, which might reflect introducing a new breeding group into the previous one. Expected heterozygosity values, which were used to assess genetic diversity, were .365, .349, .336, .330, and .211 for WRH, F2, F1, DUC, and KNP, respectively. The inbreeding coefficient based on ROH was the highest in KNP (.409), followed by WRH (.186), DUC (.178), F2 (.107), and F1 (.035). Moreover, the frequency of short ROH decreased according to the crossing stage (from F1 to WRH). Alternatively, the frequency of medium and long ROH increased, which indicated recent inbreeding in F2 and WRH. Furthermore, gene annotation of the ROH islands in WRH that might be inherited from their parental breeds revealed several interesting candidate genes that may be associated with adaptation, meat quality, production, and reproduction traits in pigs.