Nonhuman primates (NHP) are usually infected with Cryptosporidium spp.and Giardia duodenalis.However,molecular characterization and distribution ofzoonotic genotypes and subtypes of these pathogens from NHP remain unclear.Therefore,1386 specimens from 23 NHP species housed in monkey farms,zoos,experimental lab and nature reserves in China were examined and characterized by PCR amplification of 18S rRNA,HSP70 and gp60 loci for Cryptosporidium; and 16S rRNA,TPI and GDH loci for Giardia.Cryptosporidium was detected in 10 (0.72%) specimens,all belonged to C.hominis,having two gp60 subtypes,IbA12G3 and IiA17 under two subtype families.The dominant subtype IbA 12G3 was different from any of the Ib subtypes reported previously,while subtype IiA 17 was isolated from rhesus macaque in earlier study.Based on TPI locus,G.Duodenalis was identified in 30 (2.17%) specimens.Sequence analysis of the three targets confirmed that all the Giardia positive specimens belonged to zoonotic assemblage B.Highest sequence polymorphism was evidenced at TPI locus,including 11 subtypes:three known and eight new ones.Phylogenetic analysis of the subtypes showed that most of them were close to so:called BIV subtypes.Intragenotypic variation was also analyzed at GDH locus.All of the six types of sequences obtained in GDH gene belonged to subtype BIV.Three of the specimens had co:infection with C.hominis (IbA 12G3) and G.duodenalis (BIV).The presence ofzoonotic genotypes and subtypes of these parasites in NHP suggests that these animals can contribute to human cryptosporidiosis and giradiosis.