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Most of grape rootstocks derived from native North American Vitis species that are resistant to phylloxera, a major pest of members of the genus Vitis. Different grape rootstock cultivars have been made by inter-specific crosses to obtain high levels of resistance to phylloxera and compatibility with the Vitis vinifera L. used scion. To utilize as a basis for making cross combinations in grape rootstock breeding program, genetic relationships were analyzed with 29 grapevine rootstocks and 13 wild grapes by random amplification of polymorphic DNA (RAPD) and SSR markers. Total 329 polymorphic bands were generated by RAPD-PCR with 30 Operon and UBC primers, and 263 polymorphic bands were generated by 20 SSR markers. UPGMA (unweighted pair-group method arithmetic average) cluster analysis was performed by using 592 polymorphic bands. The grapevine rootstocks and wild grapes were classified into four clusters by similarity index of 0.764. The Korean native Vitis flexuosa was classified into the first group, V. coignetiae and V. amurensis were classified into the fourth group. Similarity values among the tested grape rootstocks and wild grapes were ranged from 0.679 for ‘Campbell Early’ and ‘Ruggeri 140’ to 0.983for ‘Paulsen 779’ and ‘Paulsen 1447’, the average similarity value was 0.761. The results could be used as useful reference for identification of grape rootstock cultivars and improving understanding of genetic relationships among species in genus Vitis.

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