| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agnébi | River (basin) | native | 13331 |
| Aruwimi River | River (basin) | native | 106290 |
| Bandama | River (basin) | native | 13331 |
| Benue River | River (basin) | native | 53405 |
| Bia | River (basin) | native | 30488 |
| Casamance | River (basin) | native | 53405 |
| Comoé | River (basin) | native | 13331 |
| Congo | River (basin) | native | 4999 |
| Corubal | River (basin) | native | 13331 |
| Cross | River (basin) | native | 53405 |
| Ethiopian | Zoogeographic realm | native | 85 |
| Gambia | River (basin) | native | 53405 |
| Géba | River (basin) | native | 13331 |
| Great Scarcies | River (basin) | native | 13331 |
| Itimbiri River | River (basin) | native | 106290 |
| Kainji Lake | Lake | native | 28265 |
| Kasai River | River (basin) | native | 2 |
| Konkouré | River (basin) | native | 53405 |
| Lake Turkana | Lake | native | 52871 |
| Lomami River | River (basin) | native | 106245 |
| Lower Congo | River (basin) | native | 2 |
| Lukenie | River (basin) | native | 55074 |
| Malebo Pool | Lake | native | 2 |
| Middle Congo | River (basin) | native | 2 |
| Mono | River (basin) | native | 13331 |
| Niger | River (basin) | native | 53405 |
| Nile | River (basin) | native | 2 |
| Ogowe | River (basin) | introduced | 82489 |
| Ogun | River (basin) | native | 13331 |
| Ouémé | River (basin) | native | 13331 |
| Palearctic | Zoogeographic realm | native | 85 |
| Pra | River (basin) | misidentification | 13331 |
| Ruki River Region | River (basin) | native | 93897 |
| Sanaga | River (basin) | native | 4999 |
| Sassandra | River (basin) | native | 13331 |
| Senegal | River (basin) | native | 53405 |
| Tano | River (basin) | native | 13331 |
| Ubangui | River (basin) | native | 2 |
| Uélé | River (basin) | native | 2 |
| Victoria | Lake | native | 31740 |