Traditional testing for arboviruses in mosquitoes requires a priori knowledge and choosing appropriate assays for their detection. Mosquitoes can potentially provide a lot of additional information, including other unexpected or unknown arboviruses, and their own genetic material. Moreover, mosquitoes in effect act as environmental samplers, taking blood from the hosts they feed upon. These blood samples could potentially be infected with other pathogens that are not necessarily mosquito-transmitted. The goal of this study was to evaluate the application of metagenomic analysis of mosquito excreta for virus detection and virus discovery.