Polymnia sonchifolia, commonly known as "yacon", was originally cultivated at Andes moutains in South America. Recently, the specie attracted worldwide attention because of its wide range of uses, for example in the control of diabetes melitus, besides the antifungal and pesticidal compounds were found in the leaves. This study describes the identification of two flavonoids: 3', 5, 7 trihydroxy-3, 4'-dimethoxyflavone (compound 1) and 3', 4', 5-trihydroxy-7-methoxy flavanone (compound 2) and two sesquiterpenes lactones: enhydrin (compound 3) and a mixture of enhydrin and uvedalin (compound 4) isolated from Polymnia sonchifolia leaves and their effects on the aflatoxin production by Aspergillus flavus. The identification of the compounds were achieved by 1 H and 13 C NMR. All compounds were tested in different concentration, to evaluate the growth of Aspergillus flavus culture and the production of aflatoxin. The compound 1, at the concentration 15 μg/mL, inhibited 25% of the aflatoxin B1 production (p<0.01). The compound 4 inhibited 34% and 76% of the fungal growth and AFB1 production respectively. These results show that Polymnia sonchifolia can be used for the development of agents to control aflatoxin B1 production by Aspergillus flavus.