Association study between gene polymorphisms in PPAR signaling pathway and porcine meat quality traits
- 395 Downloads
There is increasing evidence suggesting that fatty acids biosynthesis and metabolism are regulated by peroxisome proliferator-activated receptors (PPARs), mostly through the PPAR signaling pathway at the transcriptomic level. We hypothesized that the genetic variants of the enzymes in the PPAR signaling pathway may be associated with the traits of porcine meat quality (PMQ). We mined 77 potentially functional single nucleotide polymorphisms in the PPAR signaling pathway of the pig. There were 13 TagSNPs in 13 different genes mapped within the reported pig quantitative trait loci (QTLs) regions related to PMQ based on the Pig QTL database. Based on the association study with ten measured PMQ traits in both the pathway level and the SNP level, we tested eight significantly associated traits with additive effect in the PPAR signaling pathway and explored only one significant TagSNP in gene RXRB, which is directly associated with the trait of skin weight. Moreover, several interactions of TagSNPs were also significantly related to some of PMQ traits. In this large and comprehensive candidate gene set study, we found a modest association of genes and SNPs in the PPAR signaling pathway with PMQ. Further investigation of these gene polymorphisms jointly with fatty acid measures and other genetic factors would help us better understand the regulation mechanisms of PMQ.
KeywordsQuantitative Trait Locus Dominance Effect Quantitative Trait Locus Region Multifactor Dimensionality Reduction Pathway Level
The authors express their gratitude to the members of the Animal Sciences Laboratory of Shanghai Jiao Tong University. This study was supported by the National Natural Science Foundation of China (Grant Nos. 31072003, 3100992, 31101706 and 31272414), National High Technology Research and Development 863 Program of China (Grant 354 Nos. 2008AA101009 and 2006AA10Z1E3), and the National Key Basic Research 973 Program of China (Grant No. 2006CB102102), and the National 948 Project of China (2012-Z26, 2011-G2A).
Conflict of interest
The authors have no conflicts of interest or financial ties to disclose.
- Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J (2004) Bioconductor: open software development for computational biology and bioinformatics. Genome Biol 5:R80PubMedCrossRefGoogle Scholar
- Gilmour AR, Gogel BJ, Cullis BR, Thompson R (2009) ASReml User Guide Release 3.0. Available at http://www.vsni.co.uk/resources/documentation/asreml-user-guide
- Michalik L, Auwerx J, Berger JP, Chatterjee VK, Glass CK, Gonzalez FJ, Grimaldi PA, Kadowaki T, Lazar MA, O’Rahilly S, Palmer CN, Plutzky J, Reddy JK, Spiegelman BM, Staels B, Wahli W (2006) International union of pharmacology. LXI. Peroxisome proliferator-activated receptors. Pharmacol Rev 58:726–741PubMedCrossRefGoogle Scholar
- von Rohr P, Hofer A, Kunzi N (1999) Economic values for meat quality traits in pigs. J Anim Sci 77:2633–2640Google Scholar