BackgroundBlastocystis sp. is a zoonotic protozoan parasite, and there is limited information about its molecular prevalence and subtypes (STs) distribution in camels globally, especially in Iran.ObjectivesThis study aimed to examine the prevalence, STs distribution, and zoonotic potential of Blastocystis sp. in one‐humped and two‐humped camels in Ardabil province, northwestern Iran.MethodsA PCR‐sequencing tool using the SSU rRNA gene was employed to examine the occurrence and genetic variation of Blastocystis sp. in 150 faecal samples from Bactrian (Camelus bactrianus, 50 samples) and Dromedary (Camelus dromedarius, 100 samples) camels in Ardabil province.ResultsThe overall prevalence of Blastocystis sp. in camels was determined to be 12% (18/150) through microscopy and PCR analyses. Phylogenetically, this study identified three distinct zoonotic STs: ST7, ST10, and ST14. ST10 was the most prevalent, comprising 50% (9/18) of the isolated STs from camels. ST14 closely followed with 38.9% (7/18), while ST7 made up 11.1% (2/18) of the total STs. In brief, ST10, ST14, and ST7 represented 50% (7/14), 35.7% (5/14), and 14.3% (2/14) of the Blastocystis‐positive cases in one‐humped camels, respectively. Further, each of the ST10 and ST14 accounted for 50% (2/4) of the Blastocystis‐positive samples in two‐humped camels. An analysis of the available data reveals that out of the 37–44 identified Blastocystis STs, 15 (ST1–ST7, ST10, ST14, ST15, ST21, ST24, ST25, ST26, and ST30) have been reported in camels. The predominant STs observed are ST10 and ST14. Furthermore, among the 15 zoonotic STs (ST1–ST10, ST12–ST14, ST16, and ST23) of Blastocystis reported thus far, nine zoonotic STs (ST1–ST7, ST10, and ST14) have been found in camels.ConclusionsThese findings indicate that camels serve as a proper reservoir for a diverse array of Blastocystis STs and thereby can play a significant role in the transmission of this protozoan infection to humans, animals, and water reservoirs.