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ARS Home » Plains Area » Clay Center, Nebraska » U.S. Meat Animal Research Center » Livestock Bio-Systems » Research » Publications at this Location » Publication #140378
Title: PRODUCTION OF A PORCINE-HUMAN COMPARATIVE MAP BASED ON THE PORCINE GENETIC MAP AND HUMAN GENOME SEQUENCE

Author
item Rohrer, Gary
item Nonneman, Danny - Dan
item Freking, Bradley - Brad
item Harhay, Gregory
item Snelling, Warren
item Keele, John

Submitted to: Plant and Animal Genome Conference Proceedings
Publication Type: Proceedings
Publication Acceptance Date: 12/10/2002
Publication Date: 1/10/2003
Citation: Rohrer, G.A., Nonneman, D.J., Freking, B.A., Harhay, G.P., Snelling, W.M., Keele, J.W. 2002. Production of a porcine-human comparative map based on the porcine genetic map and human genome sequence. Plant and Animal Genome Conference Proceedings. Abstract P612.

Interpretive Summary:

Technical Abstract: High-resolution comparative maps between livestock and human genomes facilitate selection of positional candidate genes causing variation in production traits and will be helpful in assembling draft genomic sequence data. To increase the number of comparative anchor markers on the porcine genetic map, polymorphisms detected by comparative sequencing targeted towards introns of genes have been mapped. Most polymorphisms identified have been single nucleotide polymorphisms, but insertion/deletion events and microsatellites have also been genotyped. Data from successfully genotyped markers targeting these polymorphisms in the MARC swine reference population are analyzed for significant TWOPOINT linkage to a scaffold of highly informative microsatellite markers already mapped using CRIMAP. This procedure has been automated to retrieve genotypic data and export results into the MARC genomic database. Results are manually evaluated, and an approximate position for each marker is determined. Automation of multipoint analyses is currently being developed. To determine the location of each marker in the human genome, consensus porcine genomic sequence is compared to human draft sequence. Information from all comparative anchor markers is compiled to develop a porcine-human comparative map. To date, results frequently agree with predictions based on bi-directional FISH (Goureau et al., 1996). Many conclusions about conserved gene order originally based on few comparative markers are now rejected with the higher density of markers mapped (for example SSC 10q and SSC 8p2.3); however, no rearrangements in gene order have been detected between human and pig X chromosomes. Functional genomics queries using the comparative map and gene ontology can generate candidate genes.