Plant and Animal Genome XII, San Diego, CA. Abstract P669.
High-resolution physical maps are invaluable resources for the selection of clones for whole-genome sequencing, therefore decreasing sequencing redundancy. Additionally, sequence data can be assembled quickly and accurately using information from contigs anchored to other types of maps (e.g., radiation hybrid maps). Approximately five genome equivalents of BAC clones were fingerprinted in an effort to construct a physical map of the porcine genome. Furthermore, these fingerprints can be used as a database to construct chromosome specific physical maps. A high-resolution physical map of porcine chromosome 11 was constructed using a comparative STS-fingerprinting approach. Approximately 100,000 clones were fingerprinted using the agarose gel fingerprinting method and 80,000 BAC end sequences were generated. BESs were placed on the radiation hybrid map to enable anchoring of contigs. Overgo probes were designed from homologous human and mouse sequence using the program soop and were used to identify clones for fingerprinting and end-sequencing that spanned gaps between contigs. A chromosome specific database consisting of 2,058 clones was created using unique BAC-end sequence hits, contig information from random fingerprints, and positive hybridization data. The resulting contigs encompass over 62 Mb of SSC11, roughly 65% of the total chromosome. This physical map will provide the foundation for sequencing the first porcine chromosome.