The mycoflora of culm bases and roots of rye was assessed in field trials, where benomyl was applied at dose rates ranging from 0.24 to 4.80 kg ha-2. Samples of culm bases were taken three times during the growing season, those of roots only at the harvest date. On culms with various symptoms from untreated plots, Pseudocercosporella herpotrichoides, AIternaria spp. and Gerlachia nivalis were prevalent and on those from benomyl-treated plots Alternaria spp. and Fusarium culmorum. In later stages of growth, G. nivalis sharply declined and Alternaria spp. and F. culmorum increased. At the end of the season, Periconia macrospinosa and Typhula incarnata appeared in treated plots.In samples of roots taken more than two months after the last spray, porosporous dematiaceous species (Alternaria, Ulocladium and Dendryphion), Mortierella spp. and other resistant fungi were prevalent in plots treated with 1.20 kg ha-a or more, but not in those that received 0.24 kg ha-1, which is recommended for disease control. Lower counts were recorded only for species that are highly sensitive in vitro, e.g. Microdochium bolleyi and Trichoderma spp. Some fusaria were either not affected or tended to be slightly stimulated by the treatment. An attempt was made to attribute the incidence of these moderately sensitive fungi to the effect of the fungicide on non-pathogens.