Trace metal risk assessment and environmental quality standard definition require realistic models that quantify metal exposure and accumulation by biota. In the present study we propose a novel trait-based approach to predict whole body concentrations of metals in aquatic invertebrates from concentrations measured in different environmental compartments. Field data from a large riverine floodplain was used to calibrate and test the model. The prediction performance of the trait-based model was unbiased and uncertainty was below the twofold of measured concentrations for the four studied metals (Ni, Cu, Cd, Pb). The relative contribution of feeding, respiration and locomotion patterns as well as metal concentrations in three environmental compartments provided insights into the importance of different uptake pathways. The relation with the sediment (i.e., to what degree taxa live in or directly on the sediment) was shown to be the most important trait to predict metal accumulation. Overall, this study demonstrated the potential use of bioecological traits for the modeling of whole body metal concentrations of entire aquatic invertebrate communities.