Characterization of Phosphoinositide-3-kinase, Class 3 (PIK3C3) Gene and Association Tests with Quantitative Traits in Pigs

Abstract

This study deals with the characterization of porcine PIK3C3 and association tests with quantitative traits. PIK3C3 belongs to the class 3 PI3Ks that participate in the regulation of hepatic glucose output, glycogen synthase, and antilipolysis in typical insulin target cells such as those in the such as liver, muscle system, and fat. On the analysis of full-length mRNA sequence, the length of the PIK3C3 CDS was recorded as 2,664 bps. As well, nucleotide and amino acid identities between human and pig subjects were 92% and 99%, respectively. Five SNPs were detected over 5 exons. We performed genotyping by using a SNP C2604T on exon24 for 145 F 2 animals (from a cross between Korean native boars and Landrace sows) by PCR-RFLP analysis with Hpy8I used to investigate the relationship between growth and fat depot traits. In the total association analysis, which doesn't consider transmission disequilibrium, the SNP showed a significant effect (p<0.05) on body weight and carcass fat at 30 weeks of age as well as a highly significant effect (p<0.01) on back fat. In an additional sib-pair analysis, C allele still showed positive and significant effects (p<0.05) on back fat thickness and carcass fat. Moreover, the effects of C allele on the means of within-family components for carcass fat and back fat were estimated as 2.76 kg and 5.07 mm, respectively. As a result, the SNP of porcine PIK3C3 discovered in this study could be utilized as a possible genetic marker for the selection of pigs that possess low levels of back fat and carcass fat at the slaughter weight. (Asian-Aust.

Association of an SNP marker in exon 24 of a class 3 phosphoinositide‐3‐kinase (PIK3C3) gene with production traits in Duroc pigs

“…The T and C allele frequencies were 32.1% and 67.9%, and the T/T, C/T and C/C allele frequencies were 7.4%, 49.3% and 43.3%, respectively. Kim et al . (2005b) reported that the C allele frequency was 72.5% in 20 Duroc pigs, and there was no difference between their results and those obtained in this study ( χ 2 = 0.374, df = 1, P = 0.541).…”

“…Kim et al . (2005b) sequenced full‐length porcine PIK3C3 complementary DNA (cDNA) and found five single nucleotide polymorphisms (SNPs) (C339G, C1401T, A2058G, A2256G and C2604T; the number indicates the position of the SNP in the PIK3C3 cDNA coding region) between Korean native and Large White pigs.…”

“…NM_001012956) is composed of 109 kbp and 25 exons and has been mapped on SSC6 6q22-23 (Kim et al 2005a) where several quantitative trait loci (QTL) affecting the growth rate, amount of backfat (BF) thickness and other production traits have been identified by many researchers (Óvilo et al 2000Bidanel et al 2001;Sato et al 2003;Yue et al 2003;Zhang et al 2007). Kim et al (2005b) sequenced full-length porcine PIK3C3 complementary DNA (cDNA) and found five single nucleotide polymorphisms (SNPs) (C339G, C1401T, A2058G, A2256G and C2604T; the number indicates the position of the SNP in the PIK3C3 cDNA coding region) between Korean native and Large White pigs. All five SNPs are synonymous substitutions.…”

Evaluation of effects of multiple candidate genes (LEP, LEPR, MC4R, PIK3C3, and VRTN) on production traits in Duroc pigs

“…(), and Kim et al . (), respectively (Table ). To genotype the LEPR polymorphism c.2002C>T in exon14, we developed a novel miss‐match PCR–RFLP method using miss‐match PCR primers (forward on exon 14 and reverse on intron 14) from the S. scrofa Ensembl genomic database (Sscrofa10.2; Ensembl gene ID, NW_003540913).…”

“…In the present study, we selected previously reported polymorphisms of five loci: leptin ( LEP ) at 21.201 Mb on SSC18 in the Ensembl genome browser 70: Sus scrofa comparative genomic database (Sscrofa10.2; http://www.ncbi.nlm.nih.gov/gene/396832), leptin receptor ( LEPR ) on SSC 6 (positional data has not yet been added to Sscrofa10.2), melanocortin 4 receptor ( MC4R ) at 178.553 Mb on SSC1 in Sscrofa10.2 (http://www.ncbi.nlm.nih.gov/gene/397359), class 3 phosphoinositide 3‐kinase ( PIK3C3 ) at 117.948 Mb on SSC 6 in Sscrofa10.2 (http://www.ncbi.nlm.nih.gov/gene/503700), and vertnin ( VRTN ) at 103.458 Mb on SSC7 in Sscrofa10.2 (http://www.ncbi.nlm.nih.gov/gene/100157734), which reportedly have significant effects on pig production traits (Kim et al . , ; Kennes et al . ; Chen et al .…”