| Family | Genus | Species |
|---|---|---|
| Acrasidae | 3 | 25 |
| Barbeliidae | 2 | 5 |
| Creneidae | 1 | 4 |
| Gruberellidae | 3 | 5 |
| Lulaidae | 1 | 2 |
| Naegleriidae | 2 | 336 |
| Neovahlkampfiidae | 1 | 3 |
| Percolomonadidae | 1 | 11 |
| Pharyngomonadidae | 1 | 3 |
| Psalteriomonadidae | 4 | 29 |
| Selenaionidae | 2 | 3 |
| Stephanopogonidae | 2 | 5 |
| Tulamoebidae | 4 | 9 |
| Vahlkampfiidae | 4 | 78 |