Abstract: In this paper，96 lily germplasms collected from different countries were used to established molecular identity by simple sequence repeat（SSR）markers. In this research，20 of 172 SSR primer pairs，with high polymorphisms and good repeatability，were selected，and then were labeled with four kinds of fluorescent for amplification and capillary electrophoresis. The products of 96 samples with each primer pairs were analyzed. Each band pattern were coded by different single digit or lowercase letters. Meanwhile，according to the number of band patterns，from less to more，the order of 20 primer pairs were decided，and molecular identities of 96 lily germplasms were established. The results showedthat a total of 69 polymorphic alleles and 170 polymorphic patterns were revealed by the 20 primer pairs，with an average of 3.45 alleles and 8.50 patterns for each primer pairs，and all molecular identities of germplasms are different. This study indicated that the detection technology by using fluorescent labeled SSR markers had merits of reliable，efficient and high-throughput，and that it is convenient and efficient to establish the molecular identities of lily gemplasms using the above encoded mode of patterns.

Key words: lily, germplasm resource, fluorescent labeled SSR marker, molecular identity