We analyzed the phylogenetic relationship among eight species (P. pendula for. asendens Ohwi, P. yedoensis Matsumura, P. sargentii Rehder, P. serrulata var. quelpaertensis Uyeki, P. maximowiczii Rupr., P. serrulata var. pubescens Nakai, P. buergeriana Miquel, P. serrulata var. spontanea Wils.) of genus Prunus in Mt. Halla and cultivated P. yedoensis Matsumura using random amplified polymorphic DNA(RAPD) analysis. RAPDs were identified in nine species by amplification using single 10-mer primers of arbitrary sequence. Nine species were clearly classified with 8 arbitrary random primers which generated 76 polymorphic amplified DNAs or RAPDs. The phylogenetic tree was constructed from the RAPD fragments patterns by neighbor-joining method. The genetic distance between Prunes sargentii Rehder and P. serrulata var. quelpaertensis Uyeki was 0.3036 and was the lowest than those of any other pairs, the other side, between P. yedoensis Matsumura and P. yedoensis Matsumura-Cultivar was 0.4297. These results showed that RAPD analysis is a useful tool or elucidating phylogenetic relationship among 9 species of cherry trees.