Weighted single-step genome-wide association study (WssGWAS) to reveal new candidate genes for productive traits of Landrace pig in Korea

IF 2.7 3区农林科学 Q1 AGRICULTURE, DAIRY & ANIMAL SCIENCE

Journal of Animal Science and Technology Pub Date : 2023-10-04 DOI:10.5187/jast.2023.e104

Jun Park, Chong-Sam Na

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引用次数: 1

Abstract

The objective of this study was to identify genomic regions and candidate genes associated with productive traits using a total of 37,099 productive records and 6,683 SNP data obtained from five Great-Grand-Parents (GGP) farms in Landrace. The estimated of heritabilities for days to 105kg (AGE), average daily gain (ADG), backfat thickness (BF), and eye muscle area (EMA) were 0.49, 0.49, 0.56, and 0.23, respectively. We identified a genetic window that explained 2.05-2.34% for each trait of the total genetic variance. We observed a clear partitioning of the four traits into two groups, and the most significant genomic region for AGE and ADG were located on the SSC 1, while BF and EMA were located on SSC 2. We conducted Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG), which revealed results in three biological processes, four cellular component, three molecular function, and six KEGG pathway. Significant SNPs can be used as markers for quantitative trait loci (QTL) investigation and genomic selection (GS) for productive traits in Landrace pig.

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加权单步全基因组关联研究(WssGWAS)揭示韩国长白猪生产性状的新候选基因

本研究的目的是利用来自长白洲五个曾祖父母(GGP)农场的37,099个生产记录和6,683个SNP数据，确定与生产性状相关的基因组区域和候选基因。日龄至105kg、平均日增重(ADG)、背膘厚度(BF)和眼肌面积(EMA)的遗传力分别为0.49、0.49、0.56和0.23。我们确定了一个遗传窗口，解释2.05-2.34%的总遗传变异的每个性状。我们观察到4个性状明显分为两组，AGE和ADG最显著的基因组区域位于ssc1，而BF和EMA位于ssc2。我们进行了基因本体(GO)和京都基因与基因组百科全书(KEGG)，揭示了三个生物过程的结果，四个细胞成分，三个分子功能和六个KEGG途径。显著snp可作为长白猪数量性状位点(QTL)研究和生产性状基因组选择(GS)的标记。

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来源期刊

Journal of Animal Science and Technology Agricultural and Biological Sciences-Food Science

CiteScore

4.50

自引率

8.70%

发文量

审稿时长

7 weeks

期刊介绍： Journal of Animal Science and Technology (J. Anim. Sci. Technol. or JAST) is a peer-reviewed, open access journal publishing original research, review articles and notes in all fields of animal science. Topics covered by the journal include: genetics and breeding, physiology, nutrition of monogastric animals, nutrition of ruminants, animal products (milk, meat, eggs and their by-products) and their processing, grasslands and roughages, livestock environment, animal biotechnology, animal behavior and welfare. Articles generally report research involving beef cattle, dairy cattle, pigs, companion animals, goats, horses, and sheep. However, studies involving other farm animals, aquatic and wildlife species, and laboratory animal species that address fundamental questions related to livestock and companion animal biology will also be considered for publication. The Journal of Animal Science and Technology (J. Anim. Technol. or JAST) has been the official journal of The Korean Society of Animal Science and Technology (KSAST) since 2000, formerly known as The Korean Journal of Animal Sciences (launched in 1956).