Background:There are no studies of potential zoonotic diseases in Mapuche communities' horses. Objectives:The objective of this study was to determine the prevalence of Cryptosporidium in horses of the Mapuche communities. Study design:This was a cross-sectional study.Methods: Faecal samples from 100 randomly selected horses (n = 100) were taken from rural Mapuche communities from four municipalities from the Araucanía Region.These samples were processed with the modified Ziehl-Neelsen staining technique and grouped by sex, age and municipality. Results:The general prevalence of Cryptosporidium spp. was 67.0% (n = 67). The prevalence was 51.0% (n = 51) in males and 49.0% (n = 49) in females, and there is no gender association to the presentation of Cryptosporidium spp. The prevalence by municipality was 60.0%, 80.0%, 64.0% and 64.0% in Curarrehue, Lonquimay, Padre las Casas and Teodoro Schmidt, respectively. The above shows no significant association between the sector and the presence of Cryptosporidium spp. The prevalence by age was 95.4% of horses tested positive for Cryptosporidium between birth and 6 years of age. About 27.3% of horses were tested positive in the age group between 7 and 10 years. There was no presence of Cryptosporidium spp. in the age group older than 11 years, showing a significant relationship between the age of the animal and the presence of Cryptosporidium (P ˂ 0.05). Main limitations:The sample analysis did not specifically identify the type of Cryptosporidium, and it was not possible to evaluate the zoonotic risk in the Mapuche communities.Conclusions: Cryptosporidium spp. is present in working horses in Mapuche communities, with a 67.7% general prevalence, and there is a significant association between this parasite and the age of the horses, being higher in the age group between 0 and 6 years, with a prevalence of 95.4%. There may be a potential zoonotic risk in the Mapuche communities.