Test for positional candidate genes for�body composition on�pig
chromosome�6

A highly significant quantitative trait locus (QTL) on pig chromosome 6, affecting intramuscular fat (IMF), has previously been detected by our group and others. Two genes of positional and biological interest, the small heterodimer partner (SHP; NR0B2) and the heart fatty acid binding protein (FABP3; H-FABP), were investigated for meat quality traits and IMF respectively. SHP was partially sequenced (GenBank: DQ002896 and DQ002897) and mapped to the QTL region on porcine chromosome 6, affecting IMF. The map shows no recombination between SHP and FABP3, which was previously mapped to the same QTL region. Twelve single nucleotide polymorphisms were detected in the sequenced region of SHP gene. Haplotype information was used to investigate association between genetic variation and different meat quality traits. SHP haplotype combinations were found to have significant effect on connective tissue. However, further studies are needed to evaluate this possible association more effectively. The FABP3 is involved in fatty acid transport and has been studied as a candidate gene for IMF by several research groups. In our study, FABP3 genotypes were confirmed to be significantly associated with IMF in pigs. The average content of IMF in our population was 1.6%, which may indicate that the FABP3 polymorphism explains as much as 30-35% of the variation in IMF in our pig cross-population.

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“…2001; Urban et al. 2002; Òvilo et al. 2002), and conclude that FABP3 does not include the causal mutation.…”

Section: Discussionmentioning

confidence: 99%

Investigation of two candidate genes for meat quality traits in a quantitative trait locus region on SSC6: the porcine short heterodimer partner and heart fatty acid binding protein genes

Árnyasi

Grindflek

Jávor

et al. 2006

J Animal Breeding Genetics

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“…This approach has been widely used to detect effects associated with different mutations (Gerbens et al. 2000; Ovilo et al. 2002).…”

Section: Introductionmentioning

confidence: 99%

A simulation study on the detection of causal mutations from F₂ experiments

Varona

Gomez‐Raya

Rauw

et al. 2005

J Animal Breeding Genetics

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A simulation study has been performed to evaluate the power and the rate of false positives for the detection of causal mutations under two different models of analysis. We used an F2 design generated from an F0 population of five sires of line 1 and 40 dams of line 2 to produce an F1 population of 10 sires and 80 dams. Two different locations of the causal mutation and several frequencies of the mutations in the parental populations were considered. The first model included only the genetic configuration of the mutation, while the second model also included the probability of line origin given the neutral markers. Both models performed well when the mutation at the candidate gene was the causal mutation, although a greater power was obtained using the first model, because of its relative simplicity compared to the second one. However, when the candidate gene mutation was a neutral mutation, the second model presented a lower rate of false positives than the first. Moreover, in some cases the second model allowed distinction between the neutral and the causal mutation. The F2 design has a great power to detect quantitative trait loci provided by linkage disequilibrium, but also makes it difficult to discriminate between causal and neutral mutations. Therefore a high percentage of false positives can be expected. The limitations of F2 designs for discriminating between neutral and causal mutations are discussed.

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“…These results indicate that the QTLs in this region might affect fat metabolism. In this region, a leptin receptor ( LEPR ) gene, which is related to the control of feed intake and the regulation of energy balance in mammals because it modulates the leptin effect, was proposed as a functional candidate gene underlying the QTL affecting BF (Ovilo et al . 2002, 2005; Munoz et al .…”

Section: Resultsmentioning

confidence: 99%

Mapping QTL for fat area ratios and serum leptin concentrations in a Duroc purebred population

Uemoto

Soma

Sato

et al. 2011

Animal Science Journal

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The reduction of extra subcutaneous, intermuscular and abdominal fat is important to increase the carcass lean percentage of pigs. Image analyses of fat area ratios were effective for estimation of separated fat in pig carcasses. Serum concentrations of leptin are useful as physiological predictors of fat accumulation in pigs. The objectives of the present study were to perform a quantitative trait locus (QTL) analysis for fat area ratios and serum leptin concentrations in a Duroc purebred population. Pigs (n = 226 to 538) were measured for fat area ratios of carcass cross-sections at the fifth to sixth thoracic vertebrae, half body length and last thoracic vertebra using an image analysis system, and serum leptin concentration. In total, animals were genotyped for 129 markers and used for QTL analysis. For fat area ratios, four significant and 12 suggestive QTLs were detected on chromosomes 1, 6, 7, 8, 9, 12 and 13. Significant QTLs were detected on the same region of chromosome 6, which was located near a leptin receptor gene. For serum leptin concentrations, two significant and two suggestive QTLs were detected on chromosomes 6, 9, and 16, and the QTLs on chromosome 6 were also in the same region for fat area ratios.

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Test for positional candidate genes for�body composition on�pig chromosome�6

Cited by 20 publications

References 18 publications

Investigation of two candidate genes for meat quality traits in a quantitative trait locus region on SSC6: the porcine short heterodimer partner and heart fatty acid binding protein genes

Investigation of two candidate genes for meat quality traits in a quantitative trait locus region on SSC6: the porcine short heterodimer partner and heart fatty acid binding protein genes

A simulation study on the detection of causal mutations from F₂ experiments

Mapping QTL for fat area ratios and serum leptin concentrations in a Duroc purebred population

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Test for positional candidate genes for�body composition on�pig chromosome�6

Cited by 20 publications

References 18 publications

Investigation of two candidate genes for meat quality traits in a quantitative trait locus region on SSC6: the porcine short heterodimer partner and heart fatty acid binding protein genes

Investigation of two candidate genes for meat quality traits in a quantitative trait locus region on SSC6: the porcine short heterodimer partner and heart fatty acid binding protein genes

A simulation study on the detection of causal mutations from F2 experiments

Mapping QTL for fat area ratios and serum leptin concentrations in a Duroc purebred population

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A simulation study on the detection of causal mutations from F₂ experiments