| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agulhas Current | Sea/Bay/Gulf | native | 5285 |
| Andaman Sea | Sea/Bay/Gulf | native | 2109 |
| Arabian Sea | Sea/Bay/Gulf | native | 2872 |
| Australian | Zoogeographic realm | native | 2109 |
| Bay of Bengal | Sea/Bay/Gulf | native | 2109 |
| Chiku River | River (basin) | native | 36073 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| Coral Sea and GBR | Sea/Bay/Gulf | native | 2109 |
| Erhjen River | River (basin) | native | 36073 |
| Ethiopian | Zoogeographic realm | native | 12484 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 4393 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 2109 |
| Indian Ocean | Sea/Bay/Gulf | native | 4393 |
| Indonesian Sea | Sea/Bay/Gulf | native | 2109 |
| Kaoping River | River (basin) | native | 36073 |
| North Australian Shelf | Sea/Bay/Gulf | native | 2109 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 2109 |
| Oriental | Zoogeographic realm | native | 393 |
| Pacific Ocean | Sea/Bay/Gulf | native | 2109 |
| Pagbilao Bay | Sea/Bay/Gulf | native | 11338 |
| Panguil Bay | Sea/Bay/Gulf | native | 47626 |
| Peng-hu Island | Sea/Bay/Gulf | native | 55073 |
| Persian Gulf | Sea/Bay/Gulf | native | 11441 |
| Red Sea | Sea/Bay/Gulf | native | 84159 |
| Ruerhmen River | River (basin) | native | 36073 |
| Shihtsao River | River (basin) | native | 36073 |
| Shiliao River | River (basin) | native | 36073 |
| Somali Coastal Current | Sea/Bay/Gulf | native | 12484 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern China | Sea/Bay/Gulf | native | 94637 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 393 |
| Taal Lake | Lake | native | 13446 |
| Tsengwen River | River (basin) | native | 36073 |
| Yellow Sea | Sea/Bay/Gulf | native | 2109 |