Rearranged gene order between pig and human in a QTL region on SSC 7

Abstract

On porcine Chromosome 7, the region surrounding the MHC region contains QTL influencing many traits including growth, back fat thickness, and carcass composition. Towards the identification of the responsible gene(s), this article describes an increase of density of the radiated hybrid map of SSC 7 in the q11-q14 region and the comparative analysis of gene order on the porcine RH map and human genome assembly. Adding 24 new genes in this region, we were able to build a framework map that fills in gaps on the previous maps. The new software Carthagene was used to build a robust framework in this region. Comparative analysis of human and porcine maps revealed a global conservation of gene order and of distances between genes. A rearranged fragment of around 3.7 Mb was, however, found in the pig approximately 20 Mb upstream from the expected location on the basis of the human map. This rearrangement, found by RH mapping on the IMpRH 7.000 rads panel, has been confirmed by two-color FISH and by mapping on the high resolution IMNpRH2 12.000 rads panel. The rearranged fragment contains two microsatellites found at the most likely QTL location in the INRA QTL experiment. It also contains the BMP5 gene, which, together with CLPS, could be considered as a possible candidate.

Metabolic and histochemical characteristics of fat and muscle tissues in homozygous or heterozygous pigs for the body composition QTL located on chromosome 7

“…Only the metabolic differentiation of muscle, defined as the glycolytic-to-oxidative enzyme activity ratio, tended to be higher in the longissimus muscle of LW QTL7 / MS QTL7 pigs compared with LW QTL7 /LW QTL7 pigs. Several genes related to the cytochrome c (CYCSL 1 for cytochrome c somatic-like 1, LOC285849 for similar to cytochrome-c oxidase subunit VIa polypeptide 1 precursor, COX6A1P2 for cytochrome-c oxidase subunit VIa polypeptide 1 pseudogene 2) or muscle contractile apparatus (LOC442204 for similar to myosin subunit regulatory light chain) are present in the mapping interval of the SSC7 body composition QTL (9,10). Contrary to studies in humans showing reduced oxidative enzyme activities in skeletal muscle of obese individuals (e.g., Refs.…”

“…Conservation of the syntenies between porcine SSC7 and human chromosomes 6,14, and 15 has been demonstrated (44), although some microrearrangements occur in the swine QTL region (9,10). About 120 genes are localized in the SSC7 interval (9.7 cM) close to the swine leukocyte antigen complex between SW1856 and NFY microsatellites markers (11).…”

The physicochemical characteristics of the Longissimus lumborum muscle of crossbred pigs in relation to the CLPS and RYR1 genes polymorphism

“…The polymorphism of candidate genes and their connections with important traits of breeding pigs is still very significant. The CLPS gene is viewed as one of the genes which may have an influence on the quantitative traits and especially with the fatness of carcass in pigs (Demeure et al, 2003). It was previously suggested by Wang et al (1998) and also by Genêt et al (2001), that the CLPS gene can significantly affect the fatness of pigs.…”

“…The CLPS porcine gene has been identified on chromosome 7 (Baskin and Pomp, 1998), and is near the main locus of the histocompatibility pig complex. Besides, Demeure et al (2003) indicate the QTL region for growth, backfat thickness and carcass quality of pigs is near the Major Histocompatibility Complex, especially in the region located between the SLA and the marker S0102 on chromosome 7. In this region only the colipase gene was mapped, suggesting that the CLPS gene can significantly affect the fat content in pigs (Genêt et al, 2001).…”

“…In this region the colipase gene (CLPS) (Baskin and Pomp, 1998) was identified, which is considered as a candidate gene of the QTL for the carcass fat content in pigs (Demeure et al, 2003). Many studies indicate that genes of the pig Major Histocompatibility Complex are significantly associated with different production traits, among others: body weight at birth and at weaning, growth rate, backfat thickness and carcass traits (Rothschild et al, 1986;Warner and Rothschild, 1991).…”