To obtain polymorphic molecular markers for population genetic and conservation studies in the Eurasian vulture Gyps fulvus populations, we screened a size-selected partial genomic library enriched for microsatellites with dinucleotide motifs. A total of five polymorphic markers were obtained. The number of alleles ranged from two to nine and the observed and expected heterozygosity were very similar. These markers will be very useful for studying population structure and to evaluate conservation programmes.