“…The most commonly used genotyping tools for Cryptosporidium in Africa are PCR and restriction fragment length polymorphism (RFLP) and/or sequence analysis of the 18S rRNA gene [23, 25, 28, 72, 82–103] (Table 1), although some studies have relied on the Cryptosporidium oocyst wall protein (COWP) gene [26, 82, 92, 100, 104–108], which is not as reliable as the 18S locus at identifying and differentiating Cryptosporidium species [109]. Subtyping of Cryptosporidium has been conducted mainly at the glycoprotein 60 ( gp60 ) gene locus [23, 26, 82, 93–95, 98, 100, 102, 108, 110–115] (Table 2) while others targeted the heat shock protein 70 (HSP70) gene [91, 92, 100, 116–118]. Genotyping of Giardia in Africa, has mainly been conducted using the triose-phosphate isomerase ( tpi ) gene, beta-giardin ( bg ) and glutamate dehydrogenase ( gdh) genes, either alone or using a combination of two or three loci [80, 99, 103, 119–124] (see Tables 1, 3 and 4).…”