| Ecosysteem | Type | Status | Ref. |
|---|---|---|---|
| Aruwimi | River (basin) | native | 106290 |
| Chiloango | River (basin) | native | 80290 |
| Congo | River (basin) | native | 80290 |
| Ethiopian | Zoogeographic realm | endemic | 28013 |
| Kasai | River (basin) | native | 80290 |
| Kouilou-Niari | River (basin) | native | 80290 |
| Kwango | River (basin) | native | 11970 |
| Lindi-Tshopo | River (basin) | native | 28013 |
| Loémé | River (basin) | native | 80290 |
| Lualaba | River (basin) | native | 93587 |
| Marine Lower Congo | River (basin) | native | 28013 |
| Mbini | River (basin) | native | 80290 |
| Middle Congo | River (basin) | native | 106245 |
| Mweru | Lake | native | 28013 |
| Ntem | River (basin) | native | 80290 |
| Nyanga | River (basin) | native | 80290 |
| Nyong | River (basin) | native | 80290 |
| Ogowe | River (basin) | native | 80290 |
| Sanaga | River (basin) | native | 80290 |
| Sankuru | River (basin) | native | 88943 |
| Tanganyika | Lake | questionable | 80290 |
| Ubangui | River (basin) | native | 80290 |
| Uélé | River (basin) | native | 42019 |
| Wagenia Falls | River (basin) | native | 106245 |