| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agulhas Current | Sea/Bay/Gulf | native | 5213 |
| Andaman Sea | Sea/Bay/Gulf | native | 4886 |
| Arabian Sea | Sea/Bay/Gulf | native | 2872 |
| Atlantic Ocean | Sea/Bay/Gulf | native | 9814 |
| Atulayan Bay | Sea/Bay/Gulf | native | 41469 |
| Australian | Zoogeographic realm | native | 7300 |
| Bay of Bengal | Sea/Bay/Gulf | native | 5736 |
| Buluan | Lake | introduced | 13492 |
| California Current | Sea/Bay/Gulf | native | 4886 |
| Carigara Bay | Sea/Bay/Gulf | native | 46323 |
| Cauvery | River (basin) | native | 43636 |
| Chang-hwa | Sea/Bay/Gulf | native | 43515 |
| Chiku River | River (basin) | native | 36073 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| Coral Sea and GBR | Sea/Bay/Gulf | native | 7300 |
| Davao Gulf | Sea/Bay/Gulf | native | 43437 |
| East Central Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Erh-jen-shi | Sea/Bay/Gulf | native | 43515 |
| Erhjen River | River (basin) | native | 36073 |
| Ethiopian | Zoogeographic realm | native | 30573 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 9814 |
| Gulf of Aden | Sea/Bay/Gulf | native | 5450 |
| Gulf of Aqaba | Sea/Bay/Gulf | native | 58021 |
| Gulf of Oman | Sea/Bay/Gulf | native | 47533 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 1632 |
| Humboldt Current | Sea/Bay/Gulf | native | 4886 |
| Indian Ocean | Sea/Bay/Gulf | native | 9814 |
| Indonesian Sea | Sea/Bay/Gulf | native | 49 |
| Insular Pacific-Hawaiian | Sea/Bay/Gulf | native | 49 |
| Kaoping River | River (basin) | native | 36073 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Kingman Reef | Sea/Bay/Gulf | native | 72402 |
| Kuroshio Current | Sea/Bay/Gulf | native | 559 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 43283 |
| Laguna de Bay | Lake | native | 13492 |
| Laguna del Mar Muerto | Lagoon | native | 74889 |
| Lake Lanao | Lake | introduced | 10888 |
| Lake Mainit | Lake | native | 4867 |
| Lanuza Bay | Sea/Bay/Gulf | native | 104756 |
| Mediterranean Sea | Sea/Bay/Gulf | introduced | 95384 |
| Mekong | River (basin) | native | 12693 |
| Naujan Lake | Lake | native | 13446 |
| New Zealand Shelf | Sea/Bay/Gulf | native | 49 |
| North Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Northwest Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Oriental | Zoogeographic realm | native | 9814 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45140 |
| Pacific Central-American Coastal | Sea/Bay/Gulf | native | 9287 |
| Pacific Ocean | Sea/Bay/Gulf | native | 592 |
| Pagbilao Bay | Sea/Bay/Gulf | native | 11338 |
| Palearctic | Zoogeographic realm | native | 9706 |
| Panguil Bay | Sea/Bay/Gulf | native | 47626 |
| Peng-hu Island | Sea/Bay/Gulf | native | 55073 |
| Persian Gulf | Sea/Bay/Gulf | native | 47533 |
| Peru-Galapagos Waters | Sea/Bay/Gulf | native | 5590 |
| Polynesian Waters | Sea/Bay/Gulf | native | 49 |
| Ragay Gulf | Sea/Bay/Gulf | native | 47919 |
| Red Sea | Sea/Bay/Gulf | native | 84159 |
| Ruerhmen River | River (basin) | native | 36073 |
| Ruvu | River (basin) | native | 41366 |
| Sabaki | River (basin) | native | 52331 |
| San Miguel Bay | Sea/Bay/Gulf | native | 43275 |
| Shihtsao River | River (basin) | native | 36073 |
| Shiliao River | River (basin) | native | 36073 |
| Sogod Bay | Sea/Bay/Gulf | native | 46392 |
| Somali Coastal Current | Sea/Bay/Gulf | native | 3388 |
| Sorsogon Bay | Sea/Bay/Gulf | native | 47531 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| South China Sea | Sea/Bay/Gulf | native | 33302 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 49 |
| Taal Lake | Lake | native | 12165 |
| Tahiti I. | Sea/Bay/Gulf | native | 4886 |
| Tai-chung | Sea/Bay/Gulf | native | 43515 |
| Tanshui River | River (basin) | native | 36073 |
| Tasman Sea | Sea/Bay/Gulf | native | 7300 |
| Tsengwen River | River (basin) | native | 36073 |
| Tung-hsiao | Sea/Bay/Gulf | native | 43515 |
| Yellow Sea | Sea/Bay/Gulf | native | 49 |