| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Aruwimi | River (basin) | native | 106290 |
| Congo | River (basin) | native | 41590 |
| Cuanza | River (basin) | native | 120641 |
| Ethiopian | Zoogeographic realm | endemic | 3203 |
| Etosha | Lake | native | 11970 |
| Kasai | River (basin) | native | 41590 |
| Kunene | River (basin) | native | 94473 |
| Middle Congo | River (basin) | native | 41591 |
| Okavango | River (basin) | native | 120641 |
| Pool Malebo | Lake | questionable | 45486 |
| Upper Lualaba | River (basin) | questionable | 11970 |
| Upper Zambezi | River (basin) | native | 11970 |
| Zambezi | River (basin) | native | 11970 |