Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: 12/31/2003
Publication Date: 1/10/2004
Citation: Leeb, T., Martins-Wess, F., Brenig, B., Rohrer, G.A., Yerle, M., Milan, D. 2004. A 5.5 mb bac/pac contig of pig chromosome 6q1.2 and its integration with existing rh, genetic and comparative maps. Proc., Plant & Animal Genome XII, 1/10-14/04, San Diego, CA. W262, p. 70. 2004.
Technical Abstract: Porcine chromosome 6q1.2 is syntenic to HSA 19q13 and represents an extremely gene-rich genome segment. A 5.5 Mb sequence-ready BAC/PAC contig of porcine chromosome 6q1.2 was generated. This contig consists of 316 BAC and PAC clones covering the region between the genes GPI and LIPE. STS content mapping was used as the main strategy for the assembly of the contig and a total of 6 microsatellite markers, 51 gene-related STS and 117 STS corresponding to BAC and PAC end sequences were analyzed. The correct contig assembly was verified by RH-mapping of STS markers and comparative mapping of BAC/PAC end sequences using BLAST searches. The RH-mapping on the IMpRH and IMNpRH2 panels allowed the integration of the cloned-based physical maps with existing RH maps. 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.