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Cystic echinococcosis (CE), a prevalent zoonotic disease affecting human and animal populations worldwide, is brought about by the larval form of the parasite Echinococcus granulosus. This investigation encompassed the examination of Echinococcus granulosus sensu lato, a diverse group. The determination of species and haplotypes in hydatid cysts collected from both cattle and sheep was coupled with a comparative assessment of egr-miR-7, egr-miR-71, and egr-miR-96 miRNA