Fredslund Jakob, Madsen Lene H, Hougaard Birgit K, Sandal Niels, Stougaard Jens, Bertioli David, Schauser Leif
Bioinformatics Research Centre, University of Aarhus, Høegh-Guldbergsgade 10, 8000 Aarhus C, Denmark.
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W670-5. doi: 10.1093/nar/gkl201.
The web program GeMprospector (URL: http://cgi-www.daimi.au.dk/cgi-chili/GeMprospector/main) allows users to automatically design large sets of cross-species genetic marker candidates targeting either legumes or grasses. The user uploads a collection of ESTs from one or more legume or grass species, and they are compared with a database of clusters of homologous EST and genomic sequences from other legumes or grasses, respectively. Multiple sequence alignments between submitted ESTs and their homologues in the appropriate database form the basis of automated PCR primer design in conserved exons such that each primer set amplifies an intron. The only user input is a collection of ESTs, not necessarily from more than one species, and GeMprospector can boost the potential of such an EST collection by combining it with a large database to produce cross-species genetic marker candidates for legumes or grasses.
