In most industrially developed countries an increasing degree of nitrification can be observed in potential water reservoirs. High nitrate content is unacceptable by public health standards. Since contamination seems to be unavoidable, the only realistic solution is purification prior to utilization. One of the potential variations is biological denitrification with a highly intensive facility, a fluidized- or expanded-bed bioreactor. Based on laboratory and pilot plant experiments, a detailed analysis is presented on the problems arising and solutions offered in the construction of a purification system meeting high quality requirements of drinking water purification. The crucial point is selection of the denitrifying microorganisms and organic matter required for denitrification, which simultaneously determines the attachment of bacteria to the support material (autoimmobilization), the intensity of nitrate removal and the character of post-purification.