Natural uranium mobility and its concentration process in water ecosystems of the Pechora river basin situated in the areas with the uranium increased concentration in rocks and in the zone around radioactive waste repository were compared. The study investigated the influence of the environmental factors on the uranium distribution in water reservoirs. In the studied ecosystems, Fe-bearing compounds are major sorbents of uranium during the migration and concentration process. Nitrate-ions increase the uranium mobility in the ecosystems. The influence of sulfate, phosphate and carbonate complexation on the uranium distribution between water and bottom sediments wasn't pronounced in the ecosystems with high natural radioactivity, but significant for the radioactively contaminated water reservoirs. Uranium geochemical mobility is higher in contaminated water ecosystems. The uranium content in the water from this area substantially exceeds the background value for the region and toxicity limits for hydrophytes. Comparison of the current and earlier received data shows that the uranium concentration in the water has decreased, its specific activity in sediments has enhanced. The level of the uranium concentration in dry hygrophyte biomass has not changed.