Publications (24) View all
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Article: QTL analysis of back fat thickness and carcass pH in an F₂ intercross between Landrace and Korean native pigs.
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ABSTRACT: In this study, we conducted a genome-wide linkage analysis to identify the quantitative trait loci (QTL) that influence back fat thickness and carcass pH in an F(2) intercross between Landrace and Korean native pigs. Eight phenotypes related with back fat thickness and carcass pH were measured in more than 960 F(2) progeny. All experimental animals were subjected to genotypic analysis using 173 microsatellite markers located throughout the pig genome. The GridQTL program, based on the least squares regression model, was used to perform the QTL analysis. We identified 22 genome-wide significant QTL in 9 chromosomal regions (SSC1, 2, 5, 6, 7, 8, 12, 15, and 16) and 29 suggestive QTL in 16 chromosomal regions (SSC2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 14, 15, 16, 17, 18, and X). On SSC5, we detected a QTL affecting back fat thickness that accounted for 4.8 % of the phenotypic variance, which was the highest test statistic (F-ratio = 50.3 under the additive model, nominal P value = 2.5 × 10(-12)) observed in this study. Additionally, we showed that there were significant QTL on SSC16 affecting carcass pH traits. In conclusion, the QTL identified in this study together with associated positional candidate genes could play an important role in determining the genetic structure underlying the variation of back fat thickness and carcass pH in pigs.Molecular Biology Reports 06/2012; 39(8):8327-33. · 2.93 Impact Factor -
Article: Characterization of the European type of maternal lineage evident in extant Jeju native pigs
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ABSTRACT: Using a partial D-loop sequence of mtDNA, an intensive analysis was conducted of the maternal lineages of Jeju native pigs (JNPs) from Korea. In total, 100 mtDNA sequences were obtained from Asian wild boars (AWBs), European wild boars (EWBs), Asian domestic pigs (ADPs), European domestic pigs (EDPs), and JNPs and were used for phylogeny and network analyses. Two distinct JNP groups — one (JNPA) in the Asian cluster and the other (JNPE) in the European cluster — were identified in the estimated phylogenetic tree and network. The maternal lineage of JNPE was the closest to that of EWB and a clear haplogroup was identified that shared an identical haplotype (hap04) among 15 individuals of JNPE and 2 individuals of EWB. A Landrace and an EWB shared hap03 with a JNPE. EWB, Landrace, Large White, and Duroc formed two clear haplogroups with JNPE in a parsimonious median-joining network analysis, suggesting that an obvious maternal contribution of EDP has occurred in JNPE in recent years. A pair-wise mismatch analysis also indicated that JNPE may have experienced a sudden population expansion, suggesting a more recent establishment compared with the gradual population expansion of JNPA. The JNPE group therefore should be further evaluated in order to decide whether this group should be culled or accepted into further programs for maintenance of the JNP population as a pure breed. KeywordsJeju native pig–Maternal lineage–Phylogeny–Network–Mismatch analysisGenes & genomics 04/2012; 33(2):111-117. · 0.44 Impact Factor -
Article: Effects of POU1F1 and GH1 genotypes on carcass traits in Hanwoo cattle
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ABSTRACT: Growth hormone and pituitary specific transcription factor-1 are expressed in the pituitary gland and play critical roles in the development and growth of mammals. Genetic polymorphisms of GH1 and POU1F1 genes were investigated using PCR-RFLP and tested for statistical associations with meat quality traits in Hanwoo cattle. Three genotypes were found for each gene in a population of Hanwoo steers reared for beef production. No meat quality traits were significantly associated with the GH1 genotypes. Animals with the GH1 Leu/Leu genotype had heavier weights and higher marbling scores, but statistical significance was not detected. Backfat thickness was associated with POU1F1 genotypes. Backfat of POU1F1 G/G homozygotes was thicker than that of other genotypes (p < 0.05). Other carcass traits, including weight at slaughter, carcass weight, carcass yield ratio, eye muscle area, marbling score, meat color, and fat color were statistically insignificant in POU1F1 genotypes (p > 0.05). These findings suggest that the POU1F1 G/G genotype may contribute to improving body weights and backfat in Hanwoo steers using sire-based predictions. Keywords GH1 - POU1F1 -Polymorphism-Backfat-HanwooGenes & genomics 04/2012; 32(2):105-109. · 0.44 Impact Factor -
Article: QTL analysis of white blood cell, platelet and red blood cell-related traits in an F2 intercross between Landrace and Korean native pigs.
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ABSTRACT: Haematological traits play important roles in disease resistance and defence functions. The objective of this study was to locate quantitative trait loci (QTL) and the associated positional candidate genes influencing haematological traits in an F(2) intercross between Landrace and Korean native pigs. Eight blood-related traits (six erythrocyte traits, one leucocyte trait and one platelet trait) were measured in 816 F(2) progeny. All experimental animals were genotyped with 173 informative microsatellite markers located throughout the pig genome. We report that nine chromosomes harboured QTL for the baseline blood parameters: genomic regions on SSC 1, 4, 5, 6, 8, 9, 11, 13 and 17. Eight of twenty identified QTL reached genome-wide significance. In addition, we evaluated the KIT locus, an obvious candidate gene locus affecting variation in blood-related traits. Using dense single nucleotide polymorphism marker data on SSC 8 and the marker-assisted association test, the strong association of the KIT locus with blood phenotypes was confirmed. In conclusion, our study identified both previously reported and novel QTL affecting baseline haematological parameters in pigs. Additionally, the positional candidate genes identified here could play an important role in elucidating the genetic architecture of haematological phenotype variation in swine and in humans.Animal Genetics 12/2011; 42(6):621-6. · 2.40 Impact Factor -
Article: Novel alternative splicing by exon skipping in KIT associated with whole-body roan in an intercrossed population of Landrace and Korean Native pigs.
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ABSTRACT: The KIT locus has been suggested to be a strong candidate region linked with whole-body roan in the F(2) population produced by intercrosses between Landrace and Korean Native pigs. In this manuscript, we report the finding of a novel alternative splicing event in the porcine KIT gene that results in the skipping of exon 5 in the I(Rn) allele. KIT mRNAs that lack exon 5 were identified in the large intestine and skin, suggesting that the mechanism responsible for the skipping of exon 5 may be tissue specific. A U(26) repeat in intron 5 showed complete linkage (LOD = 11.8) with the roan phenotype and absolute association with the black phenotype of the Korean Native pig (KNP) population samples, inferring that the repeat pattern may alter the complementary base-pairing-mediated looping-out of introns 4 and 5, which may mediate the exon 5-skipping event. Although the sample size in our study was relatively small, we speculate that the R3 allele containing the U(26) repeat is a causative element for the roan phenotype via alternative control of the exon skipping in our roan pedigree.Animal Genetics 08/2011; 42(4):451-5. · 2.40 Impact Factor
