| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Chiloango | River (basin) | native | 120641 |
| Congo | River (basin) | native | 93897 |
| Ethiopian | Zoogeographic realm | endemic | 27691 |
| Itimbiri | River (basin) | native | 106290 |
| Kasai | River (basin) | native | 11970 |
| Kouilou-Niari | River (basin) | native | 27691 |
| Kwilu | River (basin) | native | 11970 |
| Léfini-Likouala | River (basin) | native | 1878 |
| Lindi-Tshopo | River (basin) | native | 106290 |
| Lomami | River (basin) | native | 106245 |
| Marine Lower Congo | River (basin) | native | 1878 |
| Middle Congo | River (basin) | native | 4910 |
| Nyong | River (basin) | native | 113607 |
| Ogowe | River (basin) | native | 113607 |
| Okavango | River (basin) | native | 120641 |
| Pool Malebo | Lake | native | 41585 |
| Ruki | River (basin) | native | 93897 |
| Sanaga | River (basin) | native | 51193 |
| Sangha | River (basin) | native | 46233 |
| Sankuru | River (basin) | native | 11970 |
| Tumba | Lake | native | 41580 |
| Ubangui | River (basin) | native | 45441 |
| Uélé | River (basin) | native | 42452 |
| Wagenia Falls | River (basin) | native | 106245 |