Berkshire종의 근육내 pH값에 대한 유전체연관분석에 관한 연구 = A study on the genome-wide association study (GWAS) for pH values in meat of Berkshire Pig

다국어 초록 (Multilingual Abstract)

The purpose of this study is to investigate the genetic characteristics associated with pH values affecting Berkshire meat quality and to estimate the SNP effect affecting pH traits. The phenotypic data were used by measuring the pH value of 882 pigs the postmortem 45 minutes (pH45m) and 24 hours (pH24h). Genotyped data used Illumina porcine SNP60k v2 Beadchip to collected 61,565 SNPs form 2,037 pigs, and 39,606 SNPs remaining after proceeding Quality Control (QC) work were used for analysis. Using the multiple traits animal model, we estimate the variance component and genetic parameter of the pH value, and using the genotyped data, the average physical distance between adjacent SNP pairs and minor allele frequency (MAF), observed heterozygosity (OHE), polymorphic information content (PIC), and linkage disequilibrium (LD) were estimated, and performed a genome-wide association study (GWAS) to estimate SNP effect. The average and heritability of pH45m and pH24h values were estimated 6.40±0.20 and 5.90±0.12, 0.10 and 0.15 respectively. The average physical distance between adjacent SNP pairs was 61.7kbp and the number and proportion of SNPs whose MAF was below 10% were 9,573 and 24.2%, respectively. The average of OHE and PIC was 0.32± 0.16 and 0.26± 0.11, respectively and the estimate for average linkage disequilibrium () was 0.40. The distribution of coding genes <RFX8, CREG2, TBC1D8, EXOC6B> were detected at pH45m and <C12orf49, LOC106506010, BICC1, ANK3> were detected at pH24h.

목차 (Table of Contents)

• List of Table ⅱ
• List of Figure ⅳ
• Abstract ⅵ
• Ⅰ. 서론 1
• Ⅱ. 연구사 3
• 1. Porcine SNP chip 3
• 가. Illumina 제품군 3
• 나. 제품의 장단점 4
• 2. pH 형질 5
• 3. pH 유전력 6
• 4. GWAS(Genome Wide Association Study) 8
• 5. 유전체 선발 동향 9
• Ⅲ. 재료 및 방법 11
• 1. 공시재료 11
• 가. 유전체 자료 11
• 나. 표현형 자료 11
• 2. 통계적 방법 13
• 가. 통계적 모형 13
• 나. SNP 효과 14
• 다. 연관불평형 15
• 라. 유효집단크기 16
• 마. 이형접합율 및 다형성정보상수 17
• Ⅳ. 결과 및 고찰 19
• 1. 유전적 특성 19
• 2. 연관불평형(Linkage disequilibrium) 24
• 3. 평균능력 29
• 4. 환경효과 29
• 가. 도축일령 29
• 나. 검정단위(도축년도-월)와 성별 32
• 5. 유전모수 32
• 6. GWAS(Genome Wide Association Study) 33
• 가. 유전체관계행렬 33
• 나. SNP effect의 분포 35
• 다. 양적유전자 좌위(QTL) 38
• Ⅴ. 적요 45
• Ⅵ. 참고문헌 48