The present study aimed to evaluate the genotoxic effect of insect growth regulators (IGRs) pyriproxyfen and novaluron on the fully grown larvae and 1-day-old pupae of Bactrocera zonata. The genotoxic investigations occurred on the whole body cells of adults that emerged from the fully grown larvae in sand treated with lethal concentrations (LC₅₀ = 0.96, 11.4ppm of pyriproxyfen and novaluron, respectively) and those emerged from the 1-day-old pupae in sand treated with lethal concentrations (LC₅₀ = 4.5, 6200 ppm of pyriproxyfen and novaluron, respectively). Comet assay is the technique used in this study. The comet assay (SCGE - single-cell gel electrophoresis) is often used in measurements of the level of DNA strand breaks in individual eukaryotic cells as a rapid, sensitive and inexpensive method. However, the IGR is considered to have little human toxicity because humans do not make chitin and do not make or use the hormones that insects use in moulting, but it was noticed that IGR-treated insects resulted a significant increase in DNA damage values expressed as tail length (TL), tail moment (TM) and DNA tail%in the body cells compared to the control insects. These results mean that workers should be careful when using IGRs in the field due to the conservation of genes and pathways affecting key biological processes between flies and humans.