| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Congo | River (basin) | native | 3188 |
| Ethiopian | Zoogeographic realm | endemic | 44840 |
| Lower Congo | River (basin) | native | 43035 |
| Lualaba | River (basin) | native | 45434 |
| Malagarazi | River (basin) | native | 36901 |
| Middle Congo | River (basin) | native | 43033 |
| Pool Malebo | Lake | native | 41585 |
| Sangha | River (basin) | native | 44840 |
| Sankuru | River (basin) | native | 43033 |
| Tanganyika | Lake | native | 36901 |
| Tumba | Lake | native | 41580 |
| Ubangui | River (basin) | native | 45441 |
| Uélé | River (basin) | native | 41594 |
| Upper Lualaba | River (basin) | native | 88113 |
| Wagenia Falls | River (basin) | native | 106245 |