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In this study, frequency of different assemblages of G. duodenalis was determined in sheep and goats by gdh gene and PCR-RFLP method. Same of other studies, assemblage E was dominant genotype in sheep and goats. Isolation of zoonotic assemblages as AI, AII, and BIII showed that sheep and goats should be considered as a source for human infection.Successful molecular research with reliable results depends on achieving significant and uniform amounts of genomic DNA from the parasite as the first and most basic step. Therefore, selection