It is proposed an effective way of decontamination using optical metamaterials like photon-crystals, consisting of microspheres or granulated quartz bubbles, with various geometries. The efficient decontamination using the evanescent zone of metamaterials opens a new perspective in pathogen decontamination. We propose different topological structures of metamaterials to enlarge the contact surface of UV (ultraviolet) radiation with contaminated translucent fluids. The approach is based upon the increased transfer of UV radiation via evanescent waves of metamaterials into contaminated translucent fluids. A series of experimental estimations of the decontamination rate of this type of metamaterials, have been made. For these investigations, it was used a decontamination core filled up with quartz bubbles through which the contaminated fluid freely flows. Experiments have conclusively demonstrated that evanescent zone of both, quartz spheres and optical fibre metamaterials, can effectively annihilate Coliform (including Escherichia coli), or Enterococcus bacteria, as well as yeast and Kombucha cultures.