Plant & Animal Genome IX Conference

Computer: Demonstrations
C01_05.html

A TOOL FOR THE GRAPHICAL GENOME MAPPING COMPARISON

¹ Computer Engineering and Computer Science, University of Missouri-Columbia, Columbia, MO 65211, USA

² Department of Agronomy, University of Missouri-Columbia, Columbia, MO 65211, USA

³ USDA-ARS, Midwest Area, Plant Genetics Research Unit, Columbia, Missouri 65211, USA

Comparative mapping among species that have been highly conserved during evolution will help to postulate genome function. We have developed a comparative mapping tool based on the software GIOT. GIOT software, complete with source code, was kindly provided by the Rice Genome Project, Tsukuba Japan. Our tool is dynamic, graphical map browser with links to multiple databases, including MaizeDB, GenBank, SwissProt, RiceGenes, and GrainGenes. It permits users to select two linkage maps for comparative mapping with or without alignment. Detailed information, including screening images for mapped loci, is obtained by clicking on the map. Both locus names and probes are used to compare linkage groups. Identical loci are labeled in red and probes in magenta. Locus names are useful for comparing different maps which share some, but not all loci; probes are useful for comparing distinct chromosomes, both intra- and inter-species. An available mapping comparison for Maize is accessible at (http://nucleus.agron.m issouri.edu/cMap/cMap.html). ).