A first-generation EST RH comparative map of the porcine and human genome

• Published in: Mammalian genome 2002-10, Vol.13 (10), p.578-587
• Main Authors: Rink, Anette, Santschi, Elizabeth M, Eyer, Katie M, Roelofs, Benjamin, Hess, Markus, Godfrey, Myra, Karajusuf, Elif K, Yerle, Martine, Milan, Denis, Beattie, Craig W
• Format: Article
• Language: English
• Subjects: Animals; Chromosome Mapping; Chromosomes; Expressed Sequence Tags; Genetic Markers; Genetics; Genome, Human; Genomes; Genomics; Humans; Hybrid Cells; Life Sciences; Radiation Hybrid Mapping - methods; Radiation Hybrid Mapping - veterinary; Swine - genetics; Synteny
• ISSN: 0938-8990; 1432-1777
• DOI: 10.1007/s00335-002-2192-5

We have constructed a first-generation EST radiation hybrid comparative map of the porcine genome by assigning 1,058 markers to the IMpRH(7000) panel. Chromosomal localization was determined with a 2pt LOD of 4.8 for 984 markers, using the IMpRH mapping tool. Annotated ESTs represent 46.2% or 489 of the markers. Marker distribution was not stochastic and ranged from 0.41 for SSC8 to 1.77 for SSC12, respectively. Two hundred fifty-one markers assigned to the physical map of the pig did not find a homologous sequence in V22 of the human genome assembly, indicative of gaps in the assembled human genome sequence. The comparative porcine/human map covers 3,290 MB, or 98.3% of the presumed size of the human genome. However, 60 breakpoints were identified between chromosomes, as well as 90 micro-rearrangements within synteny groups. Six porcine chromosomes-SSC2, 5, 6, 7, 12, and 14-correspond to the three gene-richest human chromosomes, HSA17, 19, and 22, and show above average marker density. Porcine Chrs 1, 8, 11, and X display a low DNA/marker ratio and correspond to the 'genome deserts' on HSA 18, 4, 13, and X.