Abstract: The genetic relationship of leaf-used Ginkgo biloba L. germplasms were evaluated by flavonoids and ginkgolides contents and AFLP markers. The results showed that rich genetic diversity existed in both flavonoids and ginkgolides contents and AFLP markers. The average content of leaf extracts（Ga，Gb，Gc，Gj，Bb，Te，GF）in 68 leaf-used G. biloba L. germplasms are 0.0371%，0.0185%，0.0280%，0.0133%，0.0243%，0.1216% and 1.7103% respectively. Among the 1 408 bands obtained from 8 selective primer pairs，99.28% of them were polymorphic. Nei’s genetic diversity was 0.1939，and Shannon’s index was 0.3142. The molecular genetic similarity coefficients range from 0.2924 to 0.7413，with an average of 0.4888. The results of hierarchical cluster analysis based the flavonoids and ginkgolides contents of different populations and UPGMA exhibited a good consistency. By the hybrid method of flavonoids and ginkgolides contents and AFLP markers analysis，screen out the distinctive G. biloba germplasms of high-flavonoids and ginkgolides，would be valuable for germplasm management and utilization of leaf-used G. biloba L. germplasm.

Key words: Ginkgo biloba, germplasm, leaf-used, flavonoids, ginkgolides, content, AFLP, genetic diversity