| Ecosysteem | Type | Status | Ref. |
|---|---|---|---|
| Chad | Lake | questionable | 3049 |
| Chari-Logone System | River (basin) | questionable | 1878 |
| Congo | River (basin) | endemic | 2060 |
| Ethiopian | Zoogeographic realm | endemic | 44840 |
| Itimbiri River | River (basin) | native | 106290 |
| Kasai River | River (basin) | native | 41591 |
| Léfini-Likouala Region | River (basin) | native | 44840 |
| Mai-Ndombe | Lake | native | 1877 |
| Malebo Pool | Lake | native | 41585 |
| Middle Congo | River (basin) | native | 88113 |
| Ruki River Region | River (basin) | native | 93897 |
| Tumba | Lake | native | 41580 |
| Ubangui | River (basin) | native | 44796 |