Aedes aegypti Mosquitoes from Central Vietnam Feature Specific Viromic Profiles Linked to Dengue Virus Coinfection

Aedes aegypti is a primary vector for globally significant arboviruses such as dengue virus (DENV). The mosquito’s metavirome, particularly its insect-specific virus (ISV) component, is recognized as a key modulator of arboviral transmission. However, the natural ecology of these interactions in populations remains poorly understood. This study presents the first comparative analysis of the metavirome in wild-caught A. aegypti from Vietnam based on natural DENV infection status. Metaviromic analysis was performed on 69 DENV-positive pools from six central provinces. The results obtained were compared with previously obtained metaviromic data from 7 DENV-negative pools (from the same region). Analysis suggests the presence of a stable ‘core metavirome’ of 11 ISVs present in both groups. Interestingly, six ISVs were detected only in DENV-negative mosquitoes, which may suggest potential antagonistic interactions requiring further investigation. Conversely, five ISVs were found only in DENV-positive pools, including Aedes partiti-like virus 1 and Aedes anphevirus. The latter may suggest possible synergistic relationships that facilitate arboviral replication. Phylogenetic analysis of prevalent ISVs, such as Phasi Charoen-like phasivirus (PCLV) and Chaq-like virus, revealed patterns of both local circulation and genetic diversity. The findings describe distinct ISV profiles associated with DENV infection in a natural setting, providing a data-driven foundation for hypothesizing specific virus–virus interactions. The data underscores the complexity of the mosquito metavirome. Here, we identified several candidate ISVs for future experimental studies aimed at understanding potential functional impact on arboviral vector competence.