Contaminated fish poses a difficult challenge throughout the world, on the one hand, fish is a very nutritious food source, while on the other hand it accumulates many toxic substances, including mercury (Hg). As part of our efforts in the Brazilian Amazon to maximize nutritional input from fish consumption, a dietary mainstay, and minimize toxic risk, we have been studying the role of selenium (Se), an essential element, that may influence the distribution of Hg in the body and influence Hg neurotoxicity. Se, which is naturally present in the soil, is ingested through consumption of various foods, notably fish, mammals and certain plants. The objectives of the present study were: (i) evaluate whole blood Se (B-Se) and Hg (B-Hg); (ii) characterize B-Se variations with respect to socio-demographic and dietary variables; and (iii) examine the relation between B-Se and B-Hg. A total of 236 persons from six riparian communities of the Tapajós River Basin, a tributary of the Amazon, participated in this study. Whole blood Se and Hg were measured and interview administered questionnaires were used to obtain data on socio-demographic variable, smoking and drinking habits, and fish and fruit consumption. The results show that B-Se are in the upper normal range (median=284.3 microg/L, range=142.1-2029.3 microg/L). No individuals presented B-Se deficiency, but 9 participants from the same extended family had relatively high B-Se levels, potentially a threat to their health. B-Se varied between communities, was significantly higher among alcohol drinkers and farmers, but not associated with age, sex or tobacco consumption. A significant positive relation between B-Se and B-Hg was noted, independently of the overall fish consumption. B-Se increased with consumption of Peacock bass (Cichla sp.), a piscivorous fish species, and coconut pulp (Cocos nucifera L.). The B-Se intercommunity variations may reflect geographic differences in local soil Se levels as well as traditional land use practices in the different ecosystems of the Tapajós River Basin. In this population with relatively high exposure to Hg, Se may play an important role. Further studies should examine, in this region, the sources of Se, its transmission through the terrestrial and aquatic ecosystem and its role with respect to human health.