The rapid spread of Genetically Modified (GM) crops globally and the mandatory labeling of GM food and feed imposed by many countries has led to the development of relevant detection techniques. Polymerase Chain Reaction (PCR) – based methods are presently the most effective and reliable for GM detection even in processed food products. This study evaluated the effect of electron beam irradiation, used for food pasteurization, on the detection and quantification of dry GM soyabean and maize products; qualitative and quantitative (real-time TaqManTM probe) PCR analysis showed that electron beam irradiation treatment, even at a high dose (10 kGy), did not affect the traceability of transgenes.