The present study was carried out on the aerial parts of C. raphanina Sm. ssp. mixta (DC.) Runemark (Asteraceae), which is a commonly edible plant in Greece, on maturation stage. Although the isolation procedure is the appropriate one for the isolation of sesquiterpene lactones, the analysis revealed the presence of only one sesquiterpene lactone, namely cnicin, in small amounts. The main compounds were found to belong to polyphenols. The in vitro antifungal activity of the isolated compounds was tested, using the micro-dilution method. Only cnicin has been proved to be active against all fungi tested with a fungicidal potential higher than miconazole.