Soil compaction is widespread but tends to be most prevalent where heavy machinery is used in landfill sites, agriculture and forestry. Three forest sites strongly disturbed by heavy logging machinery were chosen to test the physical effects of different levels of compaction on soil bacterial community structure and soil functions. Community analysis comprised microbial biomass C and T-RFLP genetic profiling. Machine passes, irrespective of the compaction level, considerably modified soil structural characteristics at two soil depths (5-10 cm; 15-20 cm). Total porosity decreased up to 17% in the severe compaction. Reflected in this overall decline were large decreases in macroporosity (>50 mu m). Reduction in macroporosity was associated with higher water retention and restricted gas exchange in compacted soils. The strongest effect was observed in the severely compacted wheel tracks where air and water conductivities were reduced permanently to 10% or even lower of the original conductivities of undisturbed soils. Very slow drainage in combination with a dramatically reduced gas permeability led to unfavorable soil conditions in severely disturbed traffic lanes reflecting the changes in the total bacterial community structures at both soil depths. Additionally, microbial biomass C tended to be lower in compacted soil. Our results indicate that the type of severe treatments imposed at these forest sites may have strong adverse effects on long-term soil sustainability.