To compare genetic characteristic and differentiation between Dasineura oxycoccana populations, we collected 20 local samples from Korea and USA between 2012 and 2013. We established population genetics from Principal component analysis (PCA) and STRUCTURE using newly developed 12 microsatellites for 362 individuals. PCA results showed that Korean populations were divided into three genetically different groups. Correspondingly, STRUCTURE results indicated that Korean populations had at least three different genetic origins, which was totally different from USA populations. Among them, two populations occurring in Heongseong and Cheonan seemed to have species-level difference when matching with previous DNA barcoding result.