| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agulhas Current | Sea/Bay/Gulf | native | 5285 |
| Australian | Zoogeographic realm | native | 2847 |
| Bay of Bengal | Sea/Bay/Gulf | native | 1479 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| Ethiopian | Zoogeographic realm | native | 79840 |
| Exmouth to Broome | Sea/Bay/Gulf | native | 75154 |
| Indian Ocean | Sea/Bay/Gulf | native | 5493 |
| Indonesian Sea | Sea/Bay/Gulf | native | 7050 |
| Laguna de Bay | Lake | native | 280 |
| Malacca Strait | Sea/Bay/Gulf | native | 121464 |
| Mekong | River (basin) | native | 12693 |
| North Australian Shelf | Sea/Bay/Gulf | native | 6802 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 6802 |
| Oriental | Zoogeographic realm | native | 12693 |
| Pacific Ocean | Sea/Bay/Gulf | native | 5493 |
| Pagbilao Bay | Sea/Bay/Gulf | native | 11338 |
| Panguil Bay | Sea/Bay/Gulf | native | 47626 |
| Sabaki | River (basin) | native | 30558 |
| Sikao Creek | River (basin) | native | 52823 |
| Somali Coastal Current | Sea/Bay/Gulf | native | 30558 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern China | Sea/Bay/Gulf | native | 94637 |
| Tweed-Moreton | Sea/Bay/Gulf | native | 75154 |