Hordeum chilense Roem. In the past years, the search for the most suitable DNA marker system for tagging H. chilense genomic regions in a wheat background has lead to the development of RAPD and SCAR markers for this species. RAPDs represent an easy way of quickly generating suitable introgression markers. Nevertheless, their use in a wheat breeding program is limited because they are very dependent on the wheat genetic background.
SCARs are more specific assays, suitable for automatation or multiplexing.
Direct sequencing of RAPD products is a cost-effective approach that reduces labour and costs for SCAR development. To implement a successful marker introgression system with a reasonable coverage of the Hordeum chilense genome, suitable markers are integrated in a recently developed core genetic map of the Hordeum chilense .