In the current study, organic and conventionally produced rice and lentil samples purchased from the supermarkets in Ankara, Turkey were analyzed for their nutritional composition, nitrate/nitrite content and aflatoxin contamination. Nitrate/nitrite concentrations were found to be significant (p<0.05) only for nitrate (higher in organic) and nitrite level (higher in conventional) in rice. No aflatoxin contamination was observed over limit of quantification (LOQ) and no difference was observed for dry matter. Ash value was found higher in organic than the conventional (p<0.05) rice; and vice versa for the lentil samples. Nitrogen and crude protein were higher in organic green lentil samples (p<0.001) than the conventional; whereas the differences of organic-conventional samples in terms of crude protein and the nitrogen content of the rice samples were insignificant (p>0.05). Since organic food market is increasing rapidly, more analysis regarding the nutrition composition and other potential risks such as mycotoxins are required to enlighten the consumers.