| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agulhas Current | Sea/Bay/Gulf | native | 5213 |
| Andaman Sea | Sea/Bay/Gulf | native | 5736 |
| Bay of Bengal | Sea/Bay/Gulf | native | 3287 |
| Coral Sea and GBR | Sea/Bay/Gulf | native | 7300 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 3197 |
| Gulf of Aden | Sea/Bay/Gulf | native | 3287 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 3287 |
| Indian Ocean | Sea/Bay/Gulf | native | 3197 |
| Indonesian Sea | Sea/Bay/Gulf | native | 3287 |
| Kuroshio Current | Sea/Bay/Gulf | native | 559 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 43283 |
| Milne Bay | Sea/Bay/Gulf | native | 41464 |
| North Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Pacific Ocean | Sea/Bay/Gulf | native | 7300 |
| Peng-hu Island | Sea/Bay/Gulf | native | 55073 |
| San Miguel Bay | Sea/Bay/Gulf | native | 45161 |
| Somali Coastal Current | Sea/Bay/Gulf | native | 3287 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 2858 |
| Tayabas Bay | Sea/Bay/Gulf | native | 47573 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 53416 |
| Yellow Sea | Sea/Bay/Gulf | native | 3287 |