Acerodon (fruit bats) (5)   (2)
Aethalops (pygmy fruit bat) (2)
Alionycteris (Mindanao pygmy fruit bat) (1)
Aproteles (Bulmer's fruit bat) (1)   (1)
Archaeopteropus (1)
Balionycteris (spotted-winged fruit bat) (2)
Boneia (2)
Casinycteris (short-palated fruit bat) (4)
Chironax (black-capped fruit bat) (2)
Cynopterus (short-nosed fruit bats) (7)
Desmalopex (2)   (1)
Dobsonia (naked-backed fruit bats) (13)   (1)
Dyacopterus (Dyak fruit bat) (3)   (1)
Eidolon (fruit bats) (3)
Eonycteris (dawn bats) (3)
Epomophorus (epauletted fruit bats) (11)
Epomops (epauletted bats) (3)
Haplonycteris (Philippine pygmy fruit bat) (1)
Harpyionycteris (harpy fruit bats) (2)
Hypsignathus (hammer-headed fruit bat) (2)
Latidens (Salim Ali's fruit bat) (1)   (1)
Lissonycteris (1)
Macroglossus (long-tongued fruit bats) (2)
Megaerops (tailless fruit bats) (4)
Megaloglossus (Woermann's bat) (3)
Melonycteris (fruit bats) (1)
Mirimiri (1)   (1)
Myonycteris (collared fruit bats) (6)   (1)
Nanonycteris (Veldkamp's bat) (2)
Neopteryx (small-toothed fruit bat) (1)   (1)
Nesonycteris (2)
Notopteris (long-tailed fruit bats) (2)   (1)
Nyctimene (16)   (1)
Otopteropus (Luzon fruit bat) (1)
Paranyctimene (unstriped tube-nosed bat) (2)
Penthetor (Lucas's short-nosed fruit bat) (1)
Plerotes (D'anchieta's fruit bat) (2)
Propotto (1)
Ptenochirus (musky fruit bats) (3)
Pteralopex (monkey-faced bats) (5)   (4)
Pteropus (flying foxes) (65)   (19)
Rousettus (Manado fruit bat) (10)
Scotonycteris (Pohle's fruit bat and Zenker's fruit bat) (4)
Sphaerias (Blanford's fruit bat) (1)
Stenonycteris (2)
Styloctenium (stripe-faced fruit bat) (2)   (1)
Syconycteris (blossom bats) (3)
Thoopterus (swift fruit bat) (2)
Turkanycteris (1)

(...) = Species count
(...) = Endangered count
(...) = Invasive count