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The diagnosis of <jats:italic>Cryptosporidium<\/jats:italic> presents many challenges. This research attempted to match the diagnostic efficiency of the modified Ziehl\u2013Neelsen technique (mZN), immunochromatographic assays (IC), and enzyme-linked immunosorbent assay (ELISA) for the detection of <jats:italic>Cryptosporidium<\/jats:italic> in faecal samples of cattle in Kuwait. In addition, polymerase chain reaction (PCR) was utilised to determine the predominant species infecting cattle in Kuwait and correlating the detected species with the results of different diagnostic tests used, the presence or absence of clinical signs, and the age group of the infected cattle.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Results<\/jats:title>\n                <jats:p>Of 400 analysed faecal samples, <jats:italic>Cryptosporidium<\/jats:italic> positive samples were 23%, 15.25%, and 14% using IC, ELISA, and mZN. IC had the highest sensitivity (74.07%), and mZN had the highest specificity (98.29%) using a composite reference standard (CRS) as a gold standard. The rapid IC test results in high false-positive results of cryptosporidiosis, whereas using mZN alone is insufficient to declare a negative faecal sample. Only 74.5% (35\/47) of <jats:italic>Cryptosporidium<\/jats:italic>-positive samples by the three assays could be amplified by PCR. This study was the first to genotype <jats:italic>Cryptosporidium<\/jats:italic> in Kuwait. <jats:italic>Cryptosporidium parvum<\/jats:italic> (<jats:italic>n<\/jats:italic>\u2009=\u200926) was the dominant species detected from cattle samples, followed by <jats:italic>C. andersoni<\/jats:italic> (<jats:italic>n<\/jats:italic>\u2009=\u20096), <jats:italic>C. bovis<\/jats:italic> (n\u2009=\u20092), and <jats:italic>C. raynae<\/jats:italic> (<jats:italic>n<\/jats:italic>\u2009=\u20091). The findings showed a statistically relevant relationship between diarrhoea and the detection of <jats:italic>Cryptosporidium<\/jats:italic> spp. in faecal samples of cattle (<jats:italic>p<\/jats:italic>-value\u2009=\u20090.0003). Pre-weaned calves were the most vulnerable age group to <jats:italic>Cryptosporidium<\/jats:italic> spp. infection (<jats:italic>p<\/jats:italic>-value\u2009=\u20090.0007).<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Conclusion<\/jats:title>\n                <jats:p>For screening of <jats:italic>Cryptosporidium<\/jats:italic> infection in faecal samples, antigen detection or PCR methods combined with one of the microscopy techniques should be used. <jats:italic>Cryptosporidium parvum<\/jats:italic> was the prepoderant <jats:italic>Cryptosporidium<\/jats:italic> spp. recovered from cattle samples in Kuwait followed by <jats:italic>C. andersoni<\/jats:italic>. <jats:italic>Cryptosporidium parvum<\/jats:italic> is a significant risk factor for diarrhoea in pre-weaned calves. However, further study is needed as many other causes of diarrhoea in calves must be ruled out before a diagnosis of <jats:italic>Cryptosporidium<\/jats:italic> diarrhoea can be made.<\/jats:p>\n              <\/jats:sec>","DOI":"10.1186\/s12917-022-03435-w","type":"journal-article","created":{"date-parts":[[2022,9,7]],"date-time":"2022-09-07T08:03:54Z","timestamp":1662537834000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":12,"title":["Performance of diagnostic assays used to detect Cryptosporidium oocysts in faecal samples of cattle in Kuwait and genotyping of Cryptosporidium species"],"prefix":"10.1186","volume":"18","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9837-3451","authenticated-orcid":false,"given":"Nadra-Elwgoud M. 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