| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agulhas Current | Sea/Bay/Gulf | native | 5213 |
| Arabian Sea | Sea/Bay/Gulf | native | 1602 |
| Bay of Bengal | Sea/Bay/Gulf | native | 5736 |
| Calamianes Islands | Sea/Bay/Gulf | native | 48613 |
| Coral Sea and GBR | Sea/Bay/Gulf | native | 2334 |
| Dauin-Apo I. | Sea/Bay/Gulf | native | 127519 |
| Davao Gulf | Sea/Bay/Gulf | native | 126188 |
| East Central Australian Shelf | Sea/Bay/Gulf | native | 2334 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 48497 |
| Indian Ocean | Sea/Bay/Gulf | native | 9770 |
| Indonesian Sea | Sea/Bay/Gulf | native | 5978 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Kuroshio Current | Sea/Bay/Gulf | native | 559 |
| Lanuza Bay | Sea/Bay/Gulf | native | 104756 |
| Milne Bay | Sea/Bay/Gulf | native | 41468 |
| North Australian Shelf | Sea/Bay/Gulf | native | 2334 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 2334 |
| Pacific Ocean | Sea/Bay/Gulf | native | 592 |
| Panay Gulf | Sea/Bay/Gulf | native | 42831 |
| Peng-hu Island | Sea/Bay/Gulf | native | 55073 |
| Persian Gulf | Sea/Bay/Gulf | native | 1602 |
| Polynesian Waters | Sea/Bay/Gulf | native | 1602 |
| Rapa-Pitcairn | Sea/Bay/Gulf | native | 121505 |
| Red Sea | Sea/Bay/Gulf | native | 84159 |
| Sofronio Española | Sea/Bay/Gulf | native | 114805 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Spratly Islands | Sea/Bay/Gulf | native | 48445 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 42484 |
| Tahiti I. | Sea/Bay/Gulf | native | 89972 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 57038 |
| Tung-hsiao | Sea/Bay/Gulf | native | 43515 |
| Yellow Sea | Sea/Bay/Gulf | native | 5193 |
| Yun-gan | Sea/Bay/Gulf | native | 43515 |