| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Aruwimi River | River (basin) | native | 87849 |
| Congo | River (basin) | endemic | 87849 |
| Ethiopian | Zoogeographic realm | endemic | 27139 |
| Kotto River | River (basin) | questionable | 47461 |
| Léfini-Likouala Region | River (basin) | questionable | 47461 |
| Lindi-Tshopo Region | River (basin) | native | 87849 |
| Lomami River | River (basin) | questionable | 47461 |
| Lualaba | River (basin) | questionable | 47461 |
| Malebo Pool | Lake | questionable | 47461 |
| Middle Congo | River (basin) | questionable | 47461 |
| Ruki River Region | River (basin) | questionable | 47461 |
| Tumba | Lake | questionable | 47461 |
| Ubangui | River (basin) | questionable | 47461 |
| Uélé | River (basin) | questionable | 47461 |