Viral nervous necrosis (VNN) caused by piscine nodavirus is a devastating disease affecting mainly marine finfish. In the Philippines, VNN was first reported in hatchery-reared grouper (Epinephelus coioides) broodstock in 2001. These broodstock are usually fed with trash fish. It is therefore suspected that contaminated trash fish may be the source of VNN transmission to the broodstock. To confirm the source of contamination, periodic monitoring of the VNN prevalence using RT-PCR was done on different species of trash fish available in the Iloilo Fishing Port Complex and on the wild-caught fish in Panay Gulf. Results showed that most of the trash fish and wild-caught fish were sub-clinically infected or carriers of VNN, and that the virus might have already been established in the environment where they were living. These findings provide strong evidence that trash fish could be the main source of viral contamination in broodstock since they are identified as the only major input in the culture systems. To prevent the transmission of VNN to broodstock through contaminated trash fish, a shift to a broodstock pelleted feed is highly recommended.