Interval Mapping of Carcass and Meat Quality Traits in a Divergent Swine Cross

Several genes (PRKAA2, PRKAB1, PRKAB2, PRKAG3, GAA, GYS1, PYGM, ALDOA, GPI, LDHA, PGAM2 and PKM2), chosen according to their role in the regulation of the energy balance and in the glycogen metabolism and glycolysis of the skeletal muscle, were studied. Eleven single nucleotide polymorphisms (SNPs) were identified in six of these genes (PRKAB1, GAA, PYGM, LDHA, PGAM2 and PKM2). Allele frequencies were analyzed in seven different pig breeds for these loci and for a polymorphism already described for GPI and for three polymorphic sites already reported at the PRKAG3 locus (T30N, G52S and I199V). Linkage mapping assigned PYGM and LDHA to porcine chromosome (SSC) 2, PKM2 to SSC7, GAA to SSC12, PRKAB1 to SSC14 and PGAM2 to SSC18. Physical mapping, obtained by somatic cell hybrid panel analysis, confirmed the linkage assignments of PRKAB1 and GAA and localized ALDOA, PRKAB2 and GYS1 to SSC3, SSC4 and SSC6, respectively. Pigs selected for the association study, for which several meat quality traits were measured, were first genotyped at the PRKAG3 R200Q polymorphic site (RN locus), in order to exclude carriers of the 200Q allele, and then were genotyped for all the mutations considered in this work. Significant associations (P ≤ 0.001) were observed for the PRKAG3 T30N and G52S polymorphic sites with meat colour (L* at 24 h post mortem). PGAM2 and PKM2 were significantly associated (P = 0.01) with drip loss percentage and glycogen content at one hour post mortem, respectively.

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“…The map position of this gene is close to the putative QTL regions identified on SSC18 for meat colour and muscle pH Paszek et al, 2001).…”

Section: Linkage and Physical Mappingmentioning

confidence: 99%

“…On SSC7, QTL or putative QTL for meat colour and muscle moisture have been identified in a region surrounding PKM2 Paszek et al, 2001;Ovilo et al, 2002).…”

Section: Linkage and Physical Mappingmentioning

confidence: 99%

Study of candidate genes for glycolytic potential of porcine skeletal muscle: identification and analysis of mutations, linkage and physical mapping and association with meat quality traits in pigs

Fontanesi

Davoli²,

Costa³

et al. 2003

Cytogenet Genome Res

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“…There was one QTL for last rib backfat mapped around SW55 Rohrer and Keele, 1998;de Koning et al, 2001;Paszek et al, 2001;Dragos-Wendrich et al, 2003). In addition, the TCF7L2 gene was mapped between SW77 and SW55 on SSC14, and it was significantly associated with backfat traits ).…”

Section: Discussionmentioning

confidence: 99%

The Hepatocyte nuclear factor-1 alpha (HNF1A) gene is associated with fatness and loin muscle area in the pig

Fan

Rothschild

2010

Animal

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The significance of hepatocyte nuclear factors (HNFs) in b-cell development and function has been generally recognized in humans, as evidenced by their associations with cases of maturity onset diabetes of the young (MODY). Common Hepatocyte nuclear factor-1 alpha (HNF1A), Hepatocyte nuclear factor-1 beta ( HNF1B) and Hepatocyte nuclear factor-4 alpha ( HNF4A) mutations could lead to monogenic forms 3, 5 and 1 of diabetes mellitus, respectively, and were characterized by MODY in humans. In this study, multiple variants were discovered in the porcine HNF1A and HNF4A genes, and one single-nucleotide polymorphism (SNP) was detected in the HNF1B gene. Using the Iowa State University Berkshire 3 Yorkshire pig resource population, the HNF1A, HNF1B and HNF4A genes were mapped on chromosomes 14, 12 and 17, respectively. The linkage disequilibrium (LD) analyses indicated that most of the HNF1A variants were not in strong LD with each other; however, nearly all of them were highly significantly ( P , 0.01) associated with loin muscle area (LMA). The SNPs c.327-19G.T and c.1768140_23del were significantly ( P , 0.05) associated with backfat and total lipid percentage, and the latter was also associated with muscle glycogen metabolism measures. Four major haplotypes were observed and the association analyses suggested that haplotype 3 (-CGCGD-, I indicates Insertion and D indicates Deletion) was favorable for reduced backfat, while haplotype 1 (-CACGI-) was unfavorably associated with backfat and LMA. There was no significant interaction effect on backfat among the SNPs c.327-19G.T, c.1768140_23del of the HNF1A gene and c.646C.T of the transcription factor-7-like 2 (TCF7L2) gene. These findings suggest that the HNF1A gene has significant effects on both fatness-and meat production-related traits. No significant associations with production traits with the SNPs from the HNF1B and HNF4A genes were observed in the study.

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“…These were average daily gain (120-140 kg), neck weight without external fat, external shoulder fat weight, protein accretion rate (120-140 kg), and lipid accretion rate (120-140 kg). Paszek et al (2001), in a Meishan × Yorkshire F 2 family, detected QTL for carcass length in this chromosomal interval. Minor QTL for growth and fattening traits were identified in this region in a Wild Boar × Pietrain F 2 family (Cepica et al, 2003a).…”

Section: Association Analysismentioning

confidence: 99%

Polymorphism, linkage mapping, and association analysis with carcass traits of four porcine candidate genes selected from gene-expression profiles of Czech Large White and Wild Boar muscles

Chalupová¹,

Dvořáková²,

Knoll³

et al. 2014

CZECH J ANIM SCI

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ABSTRACT:Genes that are expressed in skeletal muscles may play a role in prenatal muscle development and postnatal muscle growth and can be considered candidates for economically important traits. Four porcine genes that were differentially expressed in skeletal muscles of Czech Large White and Wild Boar (SORT1, EMP3, IL18, and BTG2) were selected to search for polymorphism, linkage assignment, and association analysis with carcass traits. Through comparative sequencing of portions of the genes numerous polymorphisms were revealed (SORT1 -21, EMP3 -6, IL18 -41, BTG2 -9). Linkage analysis in a Meishan × Pietrain F 2 pedigree showed the positions of the genes relative to other genes and markers on the respective chromosomes -SORT1 on SSC4, EMP3 on SSC6, IL18 and BTG2 on SSC9. Preliminary association analysis in pig commercial crosses with selected SNPs showed associations with several carcass traits at nominal P value of < 0.05, which may indicate their involvement in muscle growth and fat deposition. The tested polymorphisms may not be causal for the associations, but they may be in linkage disequilibrium with causative mutations.

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Interval Mapping of Carcass and Meat Quality Traits in a Divergent Swine Cross

Cited by 41 publications

References 28 publications

Study of candidate genes for glycolytic potential of porcine skeletal muscle: identification and analysis of mutations, linkage and physical mapping and association with meat quality traits in pigs

Study of candidate genes for glycolytic potential of porcine skeletal muscle: identification and analysis of mutations, linkage and physical mapping and association with meat quality traits in pigs

The Hepatocyte nuclear factor-1 alpha (HNF1A) gene is associated with fatness and loin muscle area in the pig

Polymorphism, linkage mapping, and association analysis with carcass traits of four porcine candidate genes selected from gene-expression profiles of Czech Large White and Wild Boar muscles

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