| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Balkan river drainages and lakes | River (basin) | native | 59043 |
| Danube | River (basin) | native | 1441 |
| Danube Delta | River (basin) | native | 59043 |
| Dnester | River (basin) | native | 1441 |
| Dnieper | River (basin) | native | 1441 |
| Dnieper-Bug Liman | River (basin) | native | 59043 |
| Don Delta | River (basin) | native | 59043 |
| Eastern Black Sea | River (basin) | native | 59043 |
| Eastern Mediterranean river drainages and lakes | River (basin) | native | 59043 |
| Kizilirmak | River (basin) | native | 59043 |
| Krinka | River (basin) | native | 59043 |
| Kuban River | River (basin) | native | 58296 |
| Lower Danube | River (basin) | native | 59043 |
| Lower Dnieper | River (basin) | native | 59043 |
| Palearctic | Zoogeographic realm | endemic | 12255 |
| Prut | River (basin) | native | 59043 |
| Sarata | River (basin) | native | 59043 |
| Sea of Azov river drainages and lakes | River (basin) | native | 59043 |
| Struma River | River (basin) | native | 59043 |