The presence of the harmful cyanobacterial toxins in water resources worldwide drives the development of an innovative and practical water treatment technology with great urgency. This study deals with two important aspects: the fabrication of mesoporous nitrogen-doped TiO2 (N-TiO2) photocatalysts and their environmental application for the destruction of microcystin-LR (MC-LR) under visible light. In a nanotechnological sol-gel synthesis method, a nitrogen-containing surfactant (dodecylammonium chloride) was introduced as a pore templating material for tailor-designing the structural properties of TiO2 and as a nitrogen dopant for its visible light response. The resulting N-TiO2 exhibited significantly enhanced structural properties including 2-8 nm mesoporous structure (porosity 44%) and high surface area of 150 m2/g. Red shift in light absorbance up to 468 nm, 0.9 eV lower binding energy of electrons in Ti 2p state, and reduced interplanar distance of crystal lattices proved nitrogen doping in the TiO2 lattice. Due to its narrow band gap at 2.65 eV, N-TiO2 efficiently degraded MC-LR under visible spectrum above 420 nm. Acidic condition (pH 3.5) was more favorable for the adsorption and photocatalytic degradation of MC-LR on N-TiO2 due to electrostatic attraction forces between negatively charged MC-LR and +6.5 mV charged N-TiO2. Even under UV light, MC-LR was decomposed 3-4 times faster using N-TiO2 than control TiO2. The degradation pathways and reaction intermediates of MC-LR were not directly related to the energy source for TiO2 activation (UV and visible) and nature of TiO2 (neat and nitrogen-doped). This study implies a strong possibility for the in situ photocatalytic remediation of contaminated water with cyanobacterial toxins and other toxic compounds using solar light, a sustainable source of energy.