Submitted to: Cytogenetics and Genome Research
Publication Type: Peer reviewed journal
Publication Acceptance Date: 8/5/2003
Publication Date: 11/1/2003
Citation: Martins-Wess, F., Rohrer, G.A., Vob-Nemitz, R., Drogemuller, C., Brenig, B., Robic, A., Yerle, M., Milan, D., Leeb, T. 2003. Generation of a 5.5 mb bac/pac contig of pig chromosome 6q1.2 and its integration with existing rh, genertic and comparative maps.. Cytogenetics and Genome Research 102:116-120. Interpretive Summary: We report a detailed high-resolution map of a 5.5 million base pair region on pig chromosome 6q1.2, which contains the gene causing porcine stress syndrome. This region also represents one of the most gene-rich regions of the pig genome. The mapping information will facilitate the collection of the entire DNA sequence of this region during the upcoming pig genome sequencing project. Furthermore, the integration of physical mapping information with the genetic map allows the rational selection of positional candidate genes for important traits that have been mapped to this genome region.
Technical Abstract: We generated a sequence-ready BAC/PAC contig spanning approximately 5.5 Mb on the porcine chromosome 6q1.2, which represents a very gene-rich genome region. STS content mapping was used as the main strategy for the assembly of the contig and a total of 7 microsatellite markers, 51 gene-related STS and 127 STS corresponding to BAC and PAC end sequences were analyzed. The contig comprises 316 BAC and PAC clones covering the region between the genes GPI and LIPE. The correct contig assembly was verified by RH mapping of STS markers and comparative mapping of BAC/PAC end sequences using BLAST searches. The use of microsatellite primer pairs allowed the integration of the physical maps with the genetic map of this region. Comparative mapping of the porcine BAC/PAC contig with respect to the gene-rich region on the human chromosome 19q13.1 map revealed a completely conserved gene order of this segment, however, physical distances differ somewhat between HSA 19q13.1 and SSC 6q1.2. Three major differences in DNA content between human and pig are found in two large intergenic regions and in one region of a clustered gene family, respectively. While there is a complete conservation of gene order between pig and human, the comparative analysis with respect to the rodent species mouse and rat shows one breakpoint where a genome segment is inverted.