Carbendazim (CBZ, methyl 2-benzimidazolecarbamate) is used widely in agriculture against fungal diseases. We aimed to determine the effects of CBZ (0, 0.1, 0.2 and 0.4 mM) on long terminal repeat (LTR) retrotransposon polymorphism and genomic template stability (GTS), DNA damage using ınter-simple sequence repeats (ISSR) and inter-retrotransposon amplified polymorphisms (IRAP) marker techniques. Our results showed that all doses of CBZ compose retrotransposition polymorphism. In
additional, our result showed that all CBZ treatment decrease genomic template stability (GTS) and DNA damage increased. These results suggest that carbendazim, widely used in agriculture, can influence unfavorable growth and development of both target and non-target organisms and impend risk to organisms even in trace levels.