| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agnébi | River (basin) | native | 57403 |
| Atlantic Ocean | Sea/Bay/Gulf | native | 5299 |
| Bandama | River (basin) | native | 57403 |
| Bengo | River (basin) | native | 1880 |
| Bia | River (basin) | native | 83625 |
| Bioko | River (basin) | native | 79590 |
| Bioko & Sao Tomé e Principe | River (basin) | native | 79590 |
| Canary Current | Sea/Bay/Gulf | native | 5299 |
| Cess | River (basin) | native | 57403 |
| Chiloango | River (basin) | native | 80060 |
| Congo | River (basin) | native | 12818 |
| Cross | River (basin) | native | 57403 |
| Ébrié | Lagoon | native | 57403 |
| Ethiopian | Zoogeographic realm | endemic | 4343 |
| Farmington | River (basin) | native | 57403 |
| Fatala | River (basin) | native | 57403 |
| Great Scarcies | River (basin) | native | 57403 |
| Kienke | River (basin) | native | 79590 |
| Konkouré | River (basin) | native | 13331 |
| Kouilou-Niari | River (basin) | native | 79590 |
| Kunene | River (basin) | native | 33857 |
| Little Scarcies | River (basin) | native | 13331 |
| Lofa | River (basin) | native | 57403 |
| Lower Congo | River (basin) | native | 41591 |
| Lower Niger | River (basin) | native | 57403 |
| Marine Lower Congo | River (basin) | native | 80060 |
| Mbini | River (basin) | native | 79590 |
| Moa | River (basin) | native | 57403 |
| Mono | River (basin) | native | 57403 |
| Niger | River (basin) | native | 57403 |
| Niger Delta | River (basin) | native | 57403 |
| Nkomi | River (basin) | native | 79590 |
| Ntem | River (basin) | native | 79590 |
| Ogowe | River (basin) | native | 79590 |
| Ogun | River (basin) | native | 13331 |
| Ouémé | River (basin) | native | 57403 |
| Pampana | River (basin) | native | 57403 |
| Pra | River (basin) | native | 57403 |
| Rokel | River (basin) | native | 57403 |
| Saint John | River (basin) | native | 57403 |
| Saint Paul | River (basin) | native | 13331 |
| San Pedro | River (basin) | native | 57403 |
| Sanaga | River (basin) | native | 79590 |
| Sassandra | River (basin) | native | 57403 |
| Sewa | River (basin) | native | 57403 |
| Sio | River (basin) | native | 57403 |
| Tano | River (basin) | native | 13331 |
| Volta | River (basin) | native | 57403 |
| Wouri | River (basin) | native | 79590 |