| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Benue | River (basin) | native | 13331 |
| Blue Nile | River (basin) | native | 28714 |
| Chad | River (basin) | native | 3203 |
| Corubal | River (basin) | native | 13331 |
| Cross | River (basin) | native | 51193 |
| Ethiopian | Zoogeographic realm | endemic | 3203 |
| Middle Nile | River (basin) | native | 28714 |
| Mono | River (basin) | native | 2915 |
| Niger | River (basin) | native | 3203 |
| Nile | River (basin) | native | 28714 |
| Sassandra | River (basin) | native | 13331 |
| Upper Niger | River (basin) | native | 81274 |
| Volta | River (basin) | native | 30488 |
| White Nile | River (basin) | native | 28714 |