| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agnébi | River (basin) | native | 13331 |
| Bandama | River (basin) | native | 57414 |
| Benue | River (basin) | native | 57414 |
| Bia | River (basin) | native | 57414 |
| Casamance | River (basin) | native | 57414 |
| Chad | River (basin) | native | 57414 |
| Chari-Logone | River (basin) | native | 57414 |
| Comoé | River (basin) | native | 13331 |
| Ébrié | Lagoon | native | 57414 |
| Ethiopian | Zoogeographic realm | endemic | 6803 |
| Gambia | River (basin) | native | 57414 |
| Inner Niger Delta | River (basin) | native | 57414 |
| Komadugu Yobe | River (basin) | native | 57414 |
| Middle Niger | River (basin) | endemic | 57414 |
| Mono | River (basin) | native | 13331 |
| Niger | River (basin) | native | 57414 |
| Nile | River (basin) | native | 6803 |
| Ouémé | River (basin) | native | 57414 |
| Sassandra | River (basin) | native | 57414 |
| Senegal | River (basin) | native | 57414 |
| Sokoto | River (basin) | native | 57414 |
| Tano | River (basin) | native | 57414 |
| Volta | River (basin) | native | 57414 |
| White Nile | River (basin) | native | 120561 |