Disturbance plays a large role in shaping ecological communities. Soil communities in particular are often severely affected by disturbance. However, there is little evidence which describes how these communities respond to disturbance. Arbuscular mycorrhizal (AM) fungi are an example of an important soil constituent. Past studies show that arbuscular mycorrhizal fungi are vulnerable to soil disturbance. This could affect terrestrial communities in many ways as AM fungi have been shown to be important for ecosystem functioning and plant community structure. We suspected that AM fungi differ in their response to soil disturbance due to inherent differences among AM fungal suborders in life history traits. Specifically, we predicted that AM fungi in the suborder Gigasporineae, which colonize roots primarily by spores would be more resilient to soil disturbance than AM fungi in the suborder Glomineae, which colonize roots primarily from hyphal fragments. We also predicted that the growth of AM fungal host plants would be greater when associated with AM fungi that were less compromised by soil disturbance. To test these predictions, we compared the response of AM fungal isolates from the two suborders to soil disturbance, relative to their response in non-disturbed controls in a glass-house pot experiment. AM fungal response was measured in terms of % colonization, root fungal biomass, soil hyphal length, soil ergosterol and spore density. Four different host plants were used and their growth was measured in terms of total plant biomass and % foliar phosphorus. Gigasporineae isolates were significantly less affected than Glomineae isolates by soil disturbance in terms of root colonization, soil colonization and spore densities. Host biomass was positively correlated with AM fungal response. In contrast, no difference in host foliar phosphorus content was detected between hosts grown with Gigasporineae versus Glomineae isolates. These results confirm that AM fungi differ in their response to soil disturbance. Therefore, the composition of the AM fungal community will determine the actual effect of soil disturbance on AM fungal-mediated plant growth.