| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Benue | River (basin) | native | 44050 |
| Bioko | River (basin) | native | 44050 |
| Chiloango | River (basin) | native | 81645 |
| Cross | River (basin) | native | 57130 |
| Ethiopian | Zoogeographic realm | endemic | 34006 |
| Kienke | River (basin) | native | 81645 |
| Komo | River (basin) | native | 81645 |
| Kouilou-Niari | River (basin) | native | 81645 |
| Kwa-Ibo | River (basin) | native | 57130 |
| Lobé | River (basin) | native | 44050 |
| Loémé | River (basin) | native | 81645 |
| Lokoundje | River (basin) | native | 81645 |
| Lower Niger | River (basin) | native | 57130 |
| Mbini | River (basin) | native | 81645 |
| Mono | River (basin) | native | 57130 |
| Mungo | River (basin) | native | 81645 |
| Niger | River (basin) | native | 57130 |
| Niger Delta | River (basin) | native | 57130 |
| Ntem | River (basin) | native | 81645 |
| Nyong | River (basin) | native | 81645 |
| Ogowe | River (basin) | native | 81645 |
| Ogun | River (basin) | native | 57130 |
| Oshun | River (basin) | native | 57130 |
| Osse | River (basin) | native | 57130 |
| Ouémé | River (basin) | native | 57130 |
| Rio del Rey | River (basin) | native | 81645 |
| Rokel | River (basin) | questionable | 57130 |
| Sanaga | River (basin) | native | 81645 |
| Volta | River (basin) | native | 57130 |
| Wouri | River (basin) | native | 81645 |