Statoliths of the jumbo flying squid Dosidicus gigas (Cephalopoda: Ommastrephidae) in the eastern Pacific in 1995, 1996 (non-El Niño years) and 1997 (El Niño year) were analysed to observe whether unusual temperature increases due to El Niño was recorded in the concentration of trace elements. In addition to calcium (the major element), trace elements of manganese (Mn), iron (Fe), copper (Cu), zinc (Zn), and strontium (Sr) were detected. Strontium concentration in the calcified tissue of some aquatic animals changes with environmental variables. However, yearly comparisons revealed that Sr concentration did not significantly differ between the El Niño year and non-El Niño years. Instead, the Sr concentration differed with squid habitats. Strontium concentration in statoliths of D. gigas from Peruvian waters (high salinity) was significantly higher than those from Costa Rican waters (low salinity) regardless of El Niño.