Plant & Animal Genomes XVI Conference

January 12-16, 2008
Town & Country Convention Center
San Diego, CA

Extension Of Animal QTLdb (II): Alignment Of New Microsatellite Markers, SNPs And Microarray Elements To Cattle, Chicken And Pig QTL Maps And Comparative Mapping Tools For Positional Genome Information Mining

Zhi-Liang Hu , James M. Reecy

  Department of Animal Science and Center for Integrated Animal Genomics, Iowa State University, 2255 Kildee Hall, Ames, IA 50011

The Animal QTL database (QTLdb) and its ability to link structural genomic information has provided a powerful tool for QTL map based, structural genome information mining. Previously, we reported on the alignment of pig BAC finger print maps and pig-human RH maps to pig QTL map. The QTLdb has extended its utility for cattle and chicken QTL data. Additional progress has been made to align SNPs, new microsatellites, and microarray elements to cattle, chicken and pig QTL maps within the QTLdb. Here we report the alignments of 18,183 SNPs, 14,728 affy-microarray elements, 15,627 oligo-microarray elements to the bovine genome, 4,528 new microsatellites, 435 gene-based SNPs, 18,487 affy-microarray elements, 16,700 oligo-microarray elements to swine genome, and 2,978 SNPs to chicken genome. Web interfaces have been developed for users to easily access this information, and link the interested information to other public databases for additional details. The alignments of the new information are publicly available on-line. One application of these alignments is demonstrated through the utility of the web tools we developed to easily locate the differentially expressed genes of interests on the pig genome map to which hundreds of QTL locations are aligned.