| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agulhas Current | Sea/Bay/Gulf | native | 5213 |
| Arabian Sea | Sea/Bay/Gulf | native | 2872 |
| Atlantic Ocean | Sea/Bay/Gulf | native | 3424 |
| Atulayan Bay | Sea/Bay/Gulf | native | 41469 |
| Bay of Bengal | Sea/Bay/Gulf | native | 5736 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| East China Sea | Sea/Bay/Gulf | native | 47843 |
| Gulf of Oman | Sea/Bay/Gulf | native | 47613 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 5451 |
| Indian Ocean | Sea/Bay/Gulf | native | 3424 |
| Indonesian Sea | Sea/Bay/Gulf | native | 5451 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 43283 |
| Leyte Gulf | Sea/Bay/Gulf | native | 31411 |
| Malacca Strait | Sea/Bay/Gulf | native | 121464 |
| Manila Bay | Sea/Bay/Gulf | native | 30919 |
| North Australian Shelf | Sea/Bay/Gulf | native | 4959 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 4959 |
| Northwest Australian Shelf | Sea/Bay/Gulf | native | 4959 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | native | 4959 |
| Panguil Bay | Sea/Bay/Gulf | native | 47626 |
| Persian Gulf | Sea/Bay/Gulf | native | 11441 |
| Polynesian Waters | Sea/Bay/Gulf | native | 5451 |
| Ragay Gulf | Sea/Bay/Gulf | native | 47919 |
| Red Sea | Sea/Bay/Gulf | native | 84159 |
| Samar Sea | Sea/Bay/Gulf | native | 29039 |
| San Miguel Bay | Sea/Bay/Gulf | native | 43275 |
| San Pedro Bay | Sea/Bay/Gulf | native | 46240 |
| Sikao Creek | River (basin) | native | 52823 |
| Somali Coastal Current | Sea/Bay/Gulf | native | 12484 |
| Sorsogon Bay | Sea/Bay/Gulf | native | 47531 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern China | Sea/Bay/Gulf | native | 119713 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 393 |
| Tahiti I. | Sea/Bay/Gulf | native | 5451 |
| Tayabas Bay | Sea/Bay/Gulf | native | 47573 |
| Tsengwen River | River (basin) | native | 36073 |
| Verde Island Passage | Sea/Bay/Gulf | native | 6956 |
| Visayan Sea | Sea/Bay/Gulf | native | 3557 |