| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agnébi | River (basin) | introduced | 50316 |
| Bandama | River (basin) | introduced | 2920 |
| Benue River | River (basin) | native | 13331 |
| Bia | River (basin) | introduced | 2920 |
| Congo | River (basin) | introduced | 2920 |
| Corubal | River (basin) | native | 13331 |
| Cross | River (basin) | introduced | 31256 |
| Ethiopian | Zoogeographic realm | endemic | 2920 |
| Gambia | River (basin) | native | 13331 |
| Kainji Lake | Lake | native | 3799 |
| Kasai River | River (basin) | introduced | 2920 |
| Lake Turkana | Lake | native | 28663 |
| Lower Congo | River (basin) | introduced | 2920 |
| Lualaba | River (basin) | introduced | 51906 |
| Malebo Pool | Lake | introduced | 50602 |
| Middle Congo | River (basin) | introduced | 2920 |
| Mono | River (basin) | introduced | 28663 |
| Niger | River (basin) | native | 13331 |
| Nile | River (basin) | native | 28663 |
| Ogun | River (basin) | native | 13331 |
| Ouémé | River (basin) | native | 13331 |
| Sanaga | River (basin) | introduced | 51193 |
| Senegal | River (basin) | native | 13331 |
| Tumba | Lake | introduced | 1739 |
| Ubangui | River (basin) | introduced | 1978 |
| Wagenia Falls | River (basin) | introduced | 106245 |