Bioflocculation phenomena for filamentous cyanobacteria were studied and analysed in two different cultivation systems (i.e. based on air-bubbling and on shaking) and for different initial biomass concentrations. Floc formation and biomass settling were monitored during batch cultivation tests according to an innovative protocol. Results showed that the two cultivation systems enhanced two different flocculation behaviours: air bubbling led to the formation of small and dense flocs, while the shaking table resulted in larger (14 mm(2) vs 4 mm(2)) but mechanically weaker flocs. Floc analysis evidenced that the different mixing systems also affected the speciation of biomass. A mathematical model was developed to simulate and predict the settling performance during the bioflocculation process of filamentous cyanobacteria. Natural settling was examined at different phases of biomass growth. Optimal conditions were obtained at the end of the exponential growth phase, when 70% of the total cultivated biomass could be recovered.