Like other flying foxes, Lyle's flying fox feeds on fruit; its diet is known to include mango, cashew, monkey jack, sapodilla, dragonfruit, Java apple, tamarind, jambolan and roseapple. It chews the fruit and spits out most of the seeds, but some seeds are swallowed and pass through the bat, resulting in their dispersal. The bat also feeds on flowers, nectar and pollen. While foraging they visit orchards, and may fly 50 km (31 mi) between roosts.
The bats feed nocturnally but the roosting colony, high in trees, is quite active during the day, with mothers feeding their young and the bats moving around and vocalizing.[3] This bat is a reservoir for the Nipah virus, the causal agent of a newly emerged neurological and respiratory disease which was first reported in 1998. The virus is harmless in bats but can cause a fatal disease in pigs and humans.
The trees in which Lyle's flying fox roosts may become denuded of leaves and the bats may be threatened when the trees die, if they have not been replaced by new plantings. Another threat the bats face is hunting in Thailand and Cambodia and persecution by farmers across their range trying to protect their orchards. The International Union for Conservation of Nature estimates that populations have declined by more than 30% within the last fifteen years and has rated the conservation status of this flying fox as "vulnerable".