Many organisms can sense and respond to magnetic fields (MFs), with migratory species in particular utilizing geomagnetic field information for long-distance migration. Cryptochrome proteins (Crys) along with a highly conserved Iron-sulfur cluster assembly protein (i.e., MagR) have garnered significant attention for their involvement in magnetoresponse (including magnetoreception). However, in vivo investigations of potential transcriptional crosstalk betweenCrysandMagRgenes have been limited. The brown planthopper,Nilaparvata lugens, is a major migratory pest insect and an emerging model for studying MF intensity-related magnetoresponse. Here, we explored in vivo transcriptional crosstalk betweenCrys(Cry1andCry2) andMagRinN. lugens. The expression ofCrysandMagRwere found to be sensitive to MF intensity changes as small as several micro-teslas. Knocking downMagRexpression led to a significant downregulation ofCry1,but notCry2. The knockdown of eitherCry1orCry2individually did not significantly affectMagRexpression. However, their double knockdown resulted in significant upregulation ofMagR. Our findings clearly indicate transcriptional crosstalk betweenMagRandCrysknown to be involved in magnetoresponse. This work advances the understanding of magnetoresponse signaling and represents a key initial step towards elucidating the functional consequences of these novel in vivo interactions.