猪RXRB基因SNPs检测及其与生长育肥和繁殖性状的关联分析

doi:10.11843/j.issn.0366-6964.2021.03.004

Abstract

Abstract: The study aimed to identify the polymorphism of RXRB gene, screen SNPs significantly associated with growth, fattening and reproductive traits, and provide novel genetic markers for the genetic improvement of pigs. In this study, the blood genomic DNA of 962 healthy Large White pigs (459 American Large White pigs and 503 French Large White pigs) were sampled. The SNPs of RXRB gene were detected by direct sequencing, and PCR-RFLP methods and used to perform the genetic polymorphism analysis. The mixed linear model (Mixed) in SAS 8.0 software was used to analyze the association between the SNPs of RXRB gene and phenotypic traits. The Haploview 4.2 software was used to analyze the linkage disequilibrium of the SNPs. The results showed that a total of 10 SNPs were detected in the two strains of Large White pigs, of which there were 5 SNPs in the American Large White pigs and 5 SNPs in the French Large White pigs. According to the result of χ² test, the 10 SNPs were all under the Hardy-Weinberg equilibrium status (P>0.05). The results of association analysis showed that rs340542491, rs330162688 and rs326226767 were significantly associated with days at 100 kg body weight (P<0.05). The rs340542491, rs330162688, rs336609453 and rs332169586 were significantly associated with backfat thickness (P<0.05). The rs340542491, rs325538588, rs691889709 and rs323107853 were significantly associated with birth weight (P<0.05). For body length, only the individuals with genotype GA at rs324141460 were significantly larger than those with GG genotype (P<0.05). The rs325538588 and rs80789331 were significantly associated with the loin muscle area (P<0.05). The rs340542491 and rs330162688 were extremely significantly associated with number of left nipples (P<0.01). The rs324141460 was extremely significantly associated with number of left and right nipples (P<0.01). The rs336609453 and rs332169586 were significantly associated with the number of right nipples (P<0.05). The results of linkage disequilibrium analysis showed that rs326226767-rs325538588 was in a strong linkage disequilibrium status (D'=0.96, r²=0.91>0.33), rs330162688-rs324141460 was in a fully linkage status (D'=1), and rs324141460-rs340542491 was in a fully linked status (D'=1) in American Large White pigs. The results of association analysis of haplotype combinations were consistent with the results of the association analysis of single SNP; they were extremely significant (P<0.01) or significant (P<0.05) associated with days at 100 kg body weight, backfat thickness, birth weight and the number of nipples. In French Large White pigs, rs691889709-rs323107853 was in a fully linkage status (D'=1, r²=1). The associations between haplotype combinations and the body length, number of nipples reached extremely significant (P<0.01) or significant (P<0.05) levels. The results suggest that the 10 SNPs of RXRB gene can be used as molecular markers for pig breeding improvement, and provide the basis for the in-depth study of the function of RXRB.

Key words: RXRB, association analysis, linkage disequilibrium, haplotype, growth and fattening, reproduction traits, pig

CLC Number:

S828.2

PENG Yaxin, LIU Jun, ZHAO Shiyu, XU Zaiyan, ZUO Bo. Detection of SNPs in Porcine RXRB Gene and Their Association Analysis with Growth, Fattening and Reproduction Traits[J]. Acta Veterinaria et Zootechnica Sinica, 2021, 52(3): 596-609.

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Detection of SNPs in Porcine RXRB Gene and Their Association Analysis with Growth, Fattening and Reproduction Traits

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