Resumo. Abstract Aim i) is there a difference in the level of contamination in the different parts of the basin in the water, sediment and aquatic macrophytes compartments? and ii) do the three compartments respond similarly to metal contamination? Methods Samples of water, sediment and aquatic macrophytes (Salvinia auriculata Aubl., Pistia stratiotes L., Ludwigia helminthorrhiza (Mart.) H. Hara and Eichhornia crassipes (Mart.) Solms) were collected at 10 sampling sites in different stretches of a tropical hydrographic basin. We determined the metal concentrations of Fe, Pb, Ni, Zn, Mn, Cr, Cu and Cd, and to the results we applied Principal Component Analysis (PCA), separately for each compartment, to order the sampling sites. Results Fe and Mn had higher concentrations than other metals in plants and sediment. With the exception of Mn, the order of metals was similar between water and sediment. However, the PCAs ordered the sampling sites differently. Our results demonstrated that the ordering of sampling sites by metal concentrations differs among water, sediment and macrophytes. Conclusions We conclude that to evaluate the contamination of aquatic environments by metals and the effects of contamination on the food chain, it is not enough to evaluate them only in water or sediment, but also in an aquatic community.