Opisthokonta Cavalier-Smith 1987, nom. cl. inval. see Clade Opisthokonta Cavalier-Smith 1987 [Simpson & Medina 2020]
   Holomycota Liu, Steenkamp, Brinkmann, Forget, Philippe & Lang, 2009 see Superkingdom Holomycota Liu, Steenkamp, Brinkmann, Forget, Philippe & Lang, 2009
     Superphylum Opisthosporidia Karpov, Aleoshin & Mikhailov, 2014 see Phylum Opisthosporidia Karpov, Aleoshin & Mikhailov, 2014
       Phylum Aphelida Karpov, Aleoshin & Mikhailov, 2014 [monotypic] see Phylum Aphelidiomycota Tedersoo, Sánchez-Ramírez, Kõljalg, Bahram, M. Döring, Schigel, T.W. May, M. Ryberg & Abarenkov (2018)
         Class Aphelidea Gromov, 2000 [monotypic] see Class Aphelidiomycetes Tedersoo, Sánchez-Ramírez, Kõljalg, Bahram, M. Döring, Schigel, T.W. May, M. Ryberg & Abarenkov (2018)
           Order Aphelidida Gromov, 2000 [monotypic] see Order Aphelidiales Tedersoo, Sánchez-Ramírez, Kõljalg, Bahram, M. Döring, Schigel, T.W. May, M. Ryberg & Abarenkov (2018)
             Family Aphelididae Gromov, 2000 see Family Aphelidiaceae Tedersoo, Sánchez-Ramírez, Kõljalg, Bahram, M. Döring, Schigel, T.W. May, M. Ryberg & Abarenkov (2018)
               Genus Amoeboaphelidium Scherffel, 1925
                 1 Amoeboaphelidium achnanthides orth. inval. see Amoeboaphelidium achnanthidis Scherffel, 1925
                 2 Amoeboaphelidium protococcarum Gromov & Mamkaeva, 1968
                 3 Amoeboaphelidium chlorellavorum Gromov & Mamkaeva, 1968
                 4 Amoeboaphelidium radiatum Gromov & Mamkaeva, 1969