We describe primer sequences for five microsatellite markers in Cardiocondyla elegans, an ant species with ergatoid males. Polymorphism of these loci was investigated using 236 individuals from 22 colonies from four locations. The microsatellites are dinucleotide repeats with four to 16 alleles, and the observed heterozygosity ranges from 0.244 to 0.720. We characterized these markers for the study of the population as well as the social structure of colonies.