Mapping of 443 porcine EST improves the comparative maps for SSC1 and SSC7 with the human genome

• Published in: Animal genetics Vol. 36; no. 5; pp. 381 - 389
• Main Authors: Demeure, O, Pomp, D, Milan, D, Rothschild, M.F, Tuggle, C.K
• Format: Journal Article
• Language: English
• Published: Oxford, UK Blackwell Science Ltd 01.10.2005; Wiley Subscription Services, Inc; Wiley-Blackwell
• Subjects: Animals; chromosome mapping; chromosomes; Chromosomes, Mammalian - genetics; comparative map; comparative mapping; complementary DNA; Computational Biology; Expressed Sequence Tags; food animals; genes; genetic markers; genome; Genome, Human - genetics; Genomics - methods; Humans; Life Sciences; molecular sequence data; nucleotide sequences; porcine; Quantitative Trait Loci; Radiation Hybrid Mapping; Sus scrofa - genetics; swine; Synteny - genetics; PIGS; COMPARATIVE GENETICS
• ISSN: 0268-9146; 1365-2052
• DOI: 10.1111/j.1365-2052.2005.01328.x

Numerous mapping studies of complex traits in the pig have resulted in quantitative trait loci (QTL) intervals of 10-20 cM. To improve the chances to identify the genes located in such intervals, increased expressed sequence tags (EST)-based marker density, coupled with comparative mapping with species whose genomes have been sequenced such as human and mouse, is the most efficient tool. In this study, we mapped 443 porcine EST with a radiation hybrid (RH) panel (384 had LOD > 6.0) and a somatic cell hybrid panel. Requiring no discrepancy between two-point and multipoint RH data allowed robust assignment of 309 EST, of which most were located on porcine chromosomes (SSC) 1, 4, 7, 8 and X. Moreover, we built framework maps for two chromosomes, SSC1 and SSC7, with mapped QTL in regions with known rearrangement between pig and human genomes. Using the Blast tool, we found orthologies between 407 of the 443 pig cDNA sequences and human genes, or to existing pig genes. Our porcine/human comparative mapping results reveal possible new homologies for SSC1, SSC3, SSC5, SSC6, SSC12 and SSC14 and add markers in synteny breakpoints for chromosome 7.