Changes in environmental conditions play an important role in essential biological processes such as reproduction, which is partially driven by an organism’s diet. Here, we evaluate spatio-temporal variations in the bioenergetic reserves (lipids and fatty acids) of the fishery resource Concholepas concholepas (Loco), a prominent benthic carnivorous gastropod. We used data from summer (January) and winter (July) from two coastal localities that shown contrasting environmental conditions in central Chile (Quintay and Las Cruces). The results indicate that there is a correlation between the fatty acid profiles and the interactions between seasonality and locality. This was particularly evident among the fatty acid concentrations of docosahexaenoic (DHA, C22:6n-3), eicosapentaenoic (EPA, C20:5n-3) and arachidonic (ARA, C20:4n-6) acids, which were high in winter, in both localities. Contrastingly, palmitic (C16:0) and stearic (C18:0) acids were present among all comparisons at stable concentrations. These findings suggest an influence of environmental conditions on the availability and quality of the prey of C. concholepas, in both localities. Moreover, the high concentration of essential fatty acids during winter, could suggest an adaptive physiological response, to ensure reproductive success. This knowledge is indispensable to improve regulatory measures for the extraction periods of marine resources, towards a more sustainable fishery, in the Humboldt Current System.