Plant and Animal Genomes Conference 2006, San Diego, CA. Abstract P565.
We are integrating the framework markers of the IMpRH7000-rad map with a new IMNpRH212,000-rad WG-RH panel to order over 12,000 markers [ESTs/genes, microsatellites and sufficient BAC end sequences (BESs)] to provide a high resolution comprehensive map of the porcine genome. The map is intended to act as a "scaffold" for the rapid assembly of the porcine genome sequence. To date, we have assigned a total of ~ 4630 markers, including ~1800 MSs and 2830 genes/ESTs, on the IMNpRH2 panel using the CarthaGene software to construct our IMNpRH212,000-rad "scaffold" and high resolution porcine:human comparative map. We are currently genotyping ~ 1600 BES mapped on the IMpRH7000-rad map (Meyers et al. 2005) on the IMNpRH212,000-rad panel to integrate the RH12,000-rad map with the BAC fingerprint contig (FPC) maps (http://www.sanger.ac.uk/Projects/S_scrofa/), so that potential gaps between contigs can be closed prior to sequencing and assembly. An initial, comparative map for pig chromosome (SSC) 2p and 9p and human chromosome (HSA) 11 has been developed with 250 genes, 115 ESTs, 25 MSs and 60 BESs (450 total markers). We continue designing primer pairs from our pig EST database (http://web.ahc.umn.edu/biodata/) as well as MS and gene/EST primers from literature to improve the resolution of the IMNpRH212,000-rad map. We expect ~1600 BESs to be typed on the IMNpRH212,000-rad panel by early 2006, to close current gaps in the BAC FPC maps, and an integrated, comparative map available by 2007 to aid in sequence assembly. This work was supported by USDA, CSREES (No. 2004-35205-14244).