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A genome-wide association study (GWAS) for pH value in the meat of Berkshire pigs

한국축산학회지 2021년 63권 1호 p.25 ~ 35
박준, 이상민, 박자연, 나종삼,
소속 상세정보
박준 ( Park Jun ) - Chonbuk National University Department of Animal Biotechnology
이상민 ( Lee Sang-Min ) - Chonbuk National University Department of Animal Biotechnology
박자연 ( Park Ja-Yeon ) - Chonbuk National University Department of Animal Biotechnology
나종삼 ( Na Chong-Sam ) - Chonbuk National University Department of Animal Biotechnology

Abstract


The purpose of this study is to estimate the single nucleotide polymorphism (SNP) effect for pH values affecting Berkshire meat quality. A total of 39,603 SNPs from 1,978 heads after quality control and 882 pH values were used estimate SNP effect by single step genomic best linear unbiased prediction (ssGBLUP) method. The average physical distance between adjacent SNP pairs was 61.7kbp and the number and proportion of SNPs whose minor allele frequency was below 10% were 9,573 and 24.2%, respectively. The average of observed heterozygosity and polymorphic information content was 0.32 ± 0.16 and 0.26 ± 0.11, respectively and the estimate for average linkage disequilibrium was 0.40. The heritability of pH45m and pH24h were 0.10 and 0.15 respectively. SNPs with an absolute value more than 4 standard deviations from the mean were selected as threshold markers, among the selected SNPs, protein-coding genes of pH45m and pH24h were detected in 6 and 4 SNPs, respectively. The distribution of coding genes were detected at pH45m and were detected at pH24h.

키워드

Berkshire; pH value; Heritability; Linkage disequilibrium; Genome-wide assocition study

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