Artificial streams are dynamic mesocosms, simulating aquatic systems and rivers. They are useful to study ecotoxicity of chemicals and their effects on flora and fauna colonizing the streams or introduced into the channels. These artificial rivers can also be used to study the influence of ecological and hydrodynamic parameters, such as the kind of substrate of river and flow rate. Responses of the bivalve Unio tumidus to substrate type (silt, sand, and pebbles) and water flow rate (high and low) were investigated after 15 and 35 days in the channels, in order to optimize the experimental conditions for ecotoxicity study with methyl methacrylate (MMA). The toxicological effects of different concentrations of MMA on bivalves and on communities of invertebrates and diatoms were determined after several weeks of exposure at a high flow rate. Biomarkers responses measured in the digestive gland and the gills of U. tumidus were the activities of detoxification systems as early indicators of toxicity and lipid peroxidation as a marker of cytotoxicity. Effects of MMA resulted in a decrease in antioxidant activities. Disturbances in bivalves appeared at lower concentrations than in communities. This indicates sensitivity of the biomarkers studied, which are predictive indicators of ecotoxicity.