Phylum Ciliophora Doflein, 1901 - ciliates
   Subphylum Intramacronucleata Lynn, 1996 - amphiesmates
     1.1 Class Spirotrichea Bütschli, 1889
     1.2 Class Armophorea Lynn, 2004
     1.3 Class Litostomatea Small & Lynn, 1981
     2 Class Phyllopharyngea de Puytorac et al., 1974
     3.1.1 Class Nassophorea Small & Lynn, 1981
     3.1.2 Class Colpodea Small & Lynn, 1981
     3.1.3 Class Prostomatea Schewiakoff, 1896
     3.2 Class Plagiopylea Small & Lynn, 1985
     3.3 Class Oligohymenophorea de Puytorac et al., 1974 - oligohymenophoreans