•Pollutants were analyzed in a megamouth shark found stranded in Brazilian coast.•Stable isotopes analyzes revealed a pelagic and filter-feeding habits of the shark.•Low levels of pollutants seem to be linked with the trophic ecology of the species. With less than 60 records being reported worldwide, the megamouth (Megachasma pelagios) is today one of the least known shark species inhabiting our oceans. Therefore, information concerning the biology and ecology of this enigmatic organism is very scarce and limited to feeding behaviour and preferred habitat. The present work reports new data on the concentrations of trace elements, organic mercury, POPs and 210Po in hepatic and muscular tissues of a specimen found stranded in the southeastern coast of Brazil. Additionally, we provide new evidence based on stable isotope analysis (δ15N and δ13C) confirming the preference for the pelagic habitat and the zooplanktivorous feeding behaviour of the megamouth. These results are consistent with the low concentrations of organic pollutant compounds and other elements measured in our samples.