Background: Emerging and re-emerging vector-borne diseases (VBDs) pose a recurring threat to tropical countries, mainly due to the abundance and distribution of theAedes aegyptimosquito, which is a vector of the Zika, dengue, chikungunya, and yellow fever arboviruses.Methods: Female 3–5 day-oldAe. aegyptiwere distributed into two experimental groups: group I—survey of cultivable bacteria; sucrose group: fed only on sucrose, i.e., non-blood-fed (UF); blood-fed group: (i) fed with non-infected blood (BF); (ii) fed with blood infected with the Zika virus (BZIKV); (iii) pretreated with penicillin/streptomycin (pen/strep), and fed with non-infected blood (TBF); (iv) pretreated with pen/strep and fed blood infected with ZIKV, i.e., gravid with developed ovaries, (TGZIKV); group II—experimental co-infections: bacteria genera isolated from the group fed on sucrose, i.e., non-blood-fed (UF).Results: Using the cultivable method and the same mosquito colony and ZIKV strain described by in a previous work, our results reveled 11 isolates (Acinetobacter,Aeromonas,Cedecea,Cellulosimicrobium,Elizabethkingia,Enterobacter,Lysinibacillus,Pantoea,Pseudomonas,Serratia, andStaphylococcus).Enterobacterwas present in all evaluated groups (i.e., UF, BF, BZIKV, TBF, and TGZIKV), whereasElizabethkingiawas present in the UF, BZIKV, and TBF groups.Pseudomonaswas present in the BZIKV and TBF groups, whereasStaphylococcuswas present in the TBF and TGZIKV groups. The only genera of bacteria that were found to be present in only one group wereAeromonas,Lysinibacillus, andSerratia(UF);Cedacea,PantoeaandAcinetobacter(BF); andCellulosimicrobium(BZIKV). The mosquitoes co-infected with ZIKV plus the isolates group fed on sucrose (UF) showed interference in the outcome of infection.Conclusions: We demonstrate that the distinct feeding aspects assessed herein influence the composition of bacterial diversity. In the co-infection, among ZIKV,Ae. aegyptiand the bacterial isolates, the ZIKV/Lysinibacillus–Ae. aegyptihad the lowest number of viral copies in the head-SG, which means that it negatively affects vector competence. However, when the saliva was analyzed after forced feeding, no virus was detected in the mosquito groups ZIKV/Lysinibacillus–Lu. longipalpisandAe. aegypti; the combination of ZIKV/Serratiamay interfere in salivation. This indicates that the combinations do not produce viable viruses and may have great potential as a method of biological control.Graphical