The impact of autochthonous anaerobic bacteria on the release of metals in river sediment was studied. The sediments were characterized and bacterial activity was monitored in a batch reactor, where the sediments were incubated with a synthetic substrate solution containing glucose as carbon source. The results showed that metal release was correlated to the bacterial growth (carbon mineralization). In particular, a relationship between iron reduction and metal release was observed indicating that iron-reducing bacteria had a strong influence. By reductive dissolution of iron oxides, bacteria also released their associated toxic elements into the liquid phase. While organic analysis showed acetate and butyrate production leading to a decrease in pH and indicating a Clostridium fermentative bacteria activity, the results did not indicate any direct role of organic acids in the dissolution of iron and their associated metals.