Hypotrichomonas
Free-living +
Monocercomonas
ruminantium
Tritrichomonadinae
Calonymphidae +
Devescovinidae
Monocercomonas sp.
Trichomonadinae
Phylogenetic scheme IV.
 Root after removing of long branches
MP- Chlorarachnion
ML- Chlorarachnion, Oryza, Phreatamoeba, Prymnesium, Saccharomyces MrBayes- Naegleria, Ceramium, Prymnesium, Saccharomyces, Hexamita, Euglena, Chlorarachnion, Cryptomonas, Fucus, Oryza, Phreatamoeba MP- Saccharomyces, Naegleria, Euglena, Ceramium, Hexamita, Chlorarachnion
Logdet – Phreatamoeba, Fucus
ML- Eimeria
MP- Cryptomonas,
Ceramium
MrBayes- Eimeria,
MP – Prymnesium, Oryza,
ChlorarachnionCeramium
ML- Euglena, Naegleria
Logdet- Cryptomonas,
Ceramium, Oryza, Euglena, Cyanophora, Hexamita, Naegleria, Prymnesium,  Saccharomyces, Chlorarachnion, Eimeria, Phreatamoeba
MP- Hexamita