[논문]돼지 품종의 경제형질 관련 후보유전자의 단일염기 다형성에 관한 연구

김상욱; 이미랑; 강한석; 김선구; 신택순; 이홍구; 전해열; 김관석; 도창희; 최봉환; 김태헌; 조병욱

doi:10.5352/jls.2008.18.6.770

돼지 품종의 경제형질 관련 후보유전자의 단일염기 다형성에 관한 연구
Investigation of Single Nucleotide Polymorphisms in Porcine Candidate Genes for Economic Traits in the Commercial Pig Breed 원문보기

생명과학회지 = Journal of life science, v.18 no.6 = no.98, 2008년, pp.770 - 775

초록
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돼지 2번 염색체의 육질 관련 양적 경제형질에 관한 연구보고가 몇몇 이루어 지고 있다. 양돈업계에서 DNA 기술을 이용한 염색체 정보를 활용하기 위해 본 연구에서는 13개의 후보 유전자에서 생성된 중합효소연쇄반응(PCR) 생성물을 비교 재서열 함으로써 단일염기변이(SNP) 표지들을 개발했다. 11개의 중합효소연쇄반응 생성물에서 296 bp마다 에서 평균 하나의 SNP, 총 34개의 SNP를 발견하였다. 또한 11개의 SNP에 대한 PCR 제한효소길이 절편길이 다형성(RFLP) 분석을 전개한 후, 이를 대한민국 상업돈 4품종 개체군의 유전자형을 분석하는데 활용하였다. 본 연구는 유용한 단일염기변이를 식별하고 돼지 개체군 내 경제적으로 중요한 특성들과 SNP의 연관성을 확인하는 데 그 목적이 있다.

Abstract ▼ AI-Helper

Several studies reported quantitative trait loci (QTL) for meat quality on porcine chromosome 2. For application of the chromosomal information to pig industry through using DNA technology, single nucleotide polymorphism (SNP) markers are developed by comparative re-sequencing of polymerase chain reaction (PCR) products of 13 candidate genes. A total of 34 SNPs were identified in 11 PCR products, an average of one SNP in every 296 bp.PCR restriction fragment length polymorphism (RFLP) assays were developed for 11 SNPs and used to genotype four commercial pig populations in Korea. The SNP markers were used to map candidate genes in QTL and to clarify the relevance of SNP and quantitative traits.

주제어

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문제 정의

These SNPs might have a potential for the fine mapping of the observed QTL region on pig chromosome 2. Therefore, the purpose of this study was to further characterize and implement the SNP for improvement of map resolution and identification of candidate genes to investigate meat quality QTL on SSC₂ in commercial pig populations.

제안 방법

A total of 15 primer pairs were tested for amplification and sequencing of 13 candidate genes (PTH, CSF2, BDNF, LDHA, RPS13, ADM, WT1, FSHB, MYODI IL4f ADRB2 and INSL3). These genes were selected for their known biological roles in skeletal muscle development and metabolisms and probable locations within the QTL region.
SNP markers have high potential for detailed haplotype analysis and applications in association studies to identify the underlying genes responsible for the observed QTL effects. In this study, we report re-identification of SNPs on pig chromosome 2f SNP allelic frequencies between commercial breeds, and meat quality association of SNP alleles.
5, Ann Arbor, MI) was used to assemble the sequences and to identify polymorphism. Polymorphic sites were analyzed for putative restriction fragment length polymorphism (RFLPs) using the NEBcutter program (http://tools.neb. com/NEBcutter2/index.php). Putative RFLPs were performed on individual DNA samples from four different pig breeds which include Duroc, Landrace, Yorkshire and Berkshire.

대상 데이터

Experimental animals which consisted of Durocz Landracez Yorkshire and Berkshire were admitted and bred in laboratory of Korea Swine Association (KSA) from January 2006 to May 2007. Phenotypic data of these animals which included daily gain, feed conversion ratioz back fat thickness and lean percentage, were measured and collected until body weight reached to 90 kg from 30 kg.
Phenotypic data of these animals which included daily gain, feed conversion ratioz back fat thickness and lean percentage, were measured and collected until body weight reached to 90 kg from 30 kg. Sequencing DNA panel for SNP detection consisted of two individuals each from four commercial breeds in Korea, such as Berkshire, Durocz Yorkshire and Landrace.
amplicons. Ten animals from four different commercial pig breeds representing Duroc, Yorkshire, Landrace and Berkshire were sequenced for the 15 primer sets. A total of 29 SNPs were detected in the 11 primer sets (Table 3).

데이터처리

In order to estimate the effects of SNP genotypes on economic traits of Korean commercial pig breeds, General Linear Model (GLM) analysis was performed using SAS 9.1 Package/PC with parameters of breeds and SNP genotypes. To determine possible effects of SNP genotypes

이론/모형

A total of 29 SNPs were detected in the 11 primer sets (Table 3). A total of 11 SNPs were used to determine allelic frequencies of SNP among commercial pig populations using RFLP methods. Jungerius [3] et al.

성능/효과

05). Accordingly, the experimental results of this study confirmed that the genotype of these 2 candidate genes had more or less significant effects on daily weight gain, feed conversion ratio,back fat thickness and lean percentage which were all measured in KSA laboratory. So if they are applied to screening index equation to measure the performances of swine, two SNP genotypes will be useful in accurate identification of superior swine.
Of 11 SNPs tested for allelic distribution/ 9 SNPs were fixed in at least one commercial population. Based on the information available in this study, it was suggested that Duroc and Berkshire pigs might be sharing a higher genomic similarity than Yorkshire or Landrace pigs on pig chromosome 2.
So if they are applied to screening index equation to measure the performances of swine, two SNP genotypes will be useful in accurate identification of superior swine. In conclusion, comparative re-sequencing of 15 PCR products has identified 34 SNP markers which might be important for commercial pork production in Korea. More work is necessary with more genes and animals to utilize the DNA marker information on SSC₂ for superior pork production, and the identified SNPs from this study would be a primary step for the identifying individual pigs with high pork quality as well as determining origin of the pig breed in commercial populations
found 62 SNPs. The SNP density difference between the two data sets was largely due to three STSs (BV079398, BV079400 and BV079389). Jungerius [이 et al.

참고문헌 (12)

Fahrenkrug, S. c.,P. L.G. A. Rohrer and J. W. Keele. 2002. Single nucleotide polymorphism (SNP) discovery in porcine expressed genes. Animal Genetics 33, 186-195

상세보기
Fujii, L K Otsu, F. Zorzato, L. S. de, V. K Khanna, J. E. Weiler, P. J. O'Brien and D. H MacLennan. 1991. Identification of a mutation in porcine ryanodine receptor associated with malignant hyperthermia. Science 253, 448-451

상세보기
Jungerius, B. J., A. P. Rattink, R. P. Crooijmans, J. J. Poel, B. A. Oost, M. F. Pas and M. A. Groenen. 2003. Development of a single nucleotide polymorphism map of porcine chromosome 2. Anim. Genet. 34, 429-437

상세보기
Kim, J. J., M. F. Rothschild, J. Beever, S. Rodriguez-Zas and J. C. Dekkers. 2005. Joint analysis of two breed cross populations in pigs to improve detection and characterization of quantitative trait loci. J. Anim. Sci. .83, 1229-1240

상세보기
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상세보기
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상세보기
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상세보기
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상세보기
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상세보기
Van, W. H. J., B. Dibbits, E. E. Baron, A. D. Brings, B. Harlizius, M. A. Groenen, E. F. Knol and H. Bovenhuis. 2006. Identification of quantitative trait loci for carcass composition and pork quality traits in a commercial finishing cross. J. Anim. Sci. 84, 789-799

상세보기
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