| Ecossistema | Tipo | Estado | Ref. |
|---|---|---|---|
| Albert | Lake | native | 5166 |
| Aruwimi | River (basin) | introduced | 106290 |
| Congo | River (basin) | introduced | 1739 |
| Edward | Lake | native | 5166 |
| Ethiopian | Zoogeographic realm | endemic | 5166 |
| Kivu | Lake | introduced | 107916 |
| Malagarazi | River (basin) | introduced | 118630 |
| Malawi | Lake | introduced | 118630 |
| Pangani | River (basin) | introduced | 118630 |
| Rufiji | River (basin) | introduced | 118630 |
| Rukwa | Lake | introduced | 118630 |
| Rusizi | River (basin) | introduced | 98755 |
| Ruvu | River (basin) | introduced | 118630 |
| Southern East Rift Valley | Lake | introduced | 118630 |
| Tanganyika | Lake | introduced | 118630 |
| Uélé | River (basin) | introduced | 55074 |
| Victoria | Lake | introduced | 34290 |
| Wami | River (basin) | introduced | 118630 |