全基因组关联分析揭示了雄性杜洛克猪群体中的新生产性状基因。

Genome Wide Association Analysis Reveals New Production Trait Genes in a Male Duroc Population.

作者信息

Wang Kejun, Liu Dewu, Hernandez-Sanchez Jules, Chen Jie, Liu Chengkun, Wu Zhenfang, Fang Meiying, Li Ning

机构信息

Department of Animal Genetics and Breeding, National Engineering Laboratory for Animal Breeding, MOA Laboratory of Animal Genetics and Breeding, College of Animal Science and Technology, China Agricultural University, Beijing, 100193, People's Republic of China.

Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou, Guangdong, 510642, People's Republic of China.

出版信息

PLoS One. 2015 Sep 29;10(9):e0139207. doi: 10.1371/journal.pone.0139207. eCollection 2015.

In this study, 796 male Duroc pigs were used to identify genomic regions controlling growth traits. Three production traits were studied: food conversion ratio, days to 100 KG, and average daily gain, using a panel of 39,436 single nucleotide polymorphisms. In total, we detected 11 genome-wide and 162 chromosome-wide single nucleotide polymorphism trait associations. The Gene ontology analysis identified 14 candidate genes close to significant single nucleotide polymorphisms, with growth-related functions: six for days to 100 KG (WT1, FBXO3, DOCK7, PPP3CA, AGPAT9, and NKX6-1), seven for food conversion ratio (MAP2, TBX15, IVL, ARL15, CPS1, VWC2L, and VAV3), and one for average daily gain (COL27A1). Gene ontology analysis indicated that most of the candidate genes are involved in muscle, fat, bone or nervous system development, nutrient absorption, and metabolism, which are all either directly or indirectly related to growth traits in pigs. Additionally, we found four haplotype blocks composed of suggestive single nucleotide polymorphisms located in the growth trait-related quantitative trait loci and further narrowed down the ranges, the largest of which decreased by ~60 Mb. Hence, our results could be used to improve pig production traits by increasing the frequency of favorable alleles via artificial selection.

在本研究中，796头雄性杜洛克猪被用于鉴定控制生长性状的基因组区域。研究了三个生产性状：饲料转化率、达100千克体重所需天数和平均日增重，使用了一组39436个单核苷酸多态性。总共，我们检测到11个全基因组和162个染色体范围的单核苷酸多态性性状关联。基因本体分析确定了14个靠近显著单核苷酸多态性的候选基因，具有与生长相关的功能：6个与达100千克体重所需天数有关（WT1、FBXO3、DOCK7、PPP3CA、AGPAT9和NKX6-1），7个与饲料转化率有关（MAP2、TBX15、IVL、ARL15、CPS1、VWC2L和VAV3），1个与平均日增重有关（COL27A1）。基因本体分析表明，大多数候选基因参与肌肉、脂肪、骨骼或神经系统发育、营养吸收和代谢，这些都直接或间接地与猪的生长性状相关。此外，我们发现四个由位于生长性状相关数量性状位点的暗示性单核苷酸多态性组成的单倍型块，并进一步缩小了范围，其中最大的一个减少了约60兆碱基对。因此，我们的结果可用于通过人工选择增加有利等位基因的频率来改善猪的生产性状。