In this study, shiitake mushrooms (Lentinula edodes) cultivated in smart-farm and general farm were compared in morphology and physiology. In morphology, mushrooms produced in smart farm system showd a little bit thicker and wider pileus and thicker and longer stipe compared with those produced from general farm. The hardness of stipe was higher in the mushrooms from moderate farm, since low relative humidity in cultivation rooms can induce the mushroom tissue harder. In the aspect of physiology, the free radical scavenging activity was evaluated by DPPH assay. Among the various treatments, hot water extracts of freeze-dried shiitake produced from smart farm represented the highest DPPH value as 37.8%. In contrast, 70% ferment alcohol extract of shiitake which was dried by hot air showed the lowest activity value of 12.2%. The hot water extracts showed higher polyphenol contents than 70% ferment alcohol extracts. And the freeze-dried samples showed higher polyphenol contents than hot-air dried ones. When cultivating the shiitake by the smart was sold rather than cultivating with the general cropping system, using the system, the antioxidant activity and polyphenol content makes the mushroom in which the functionality improves more highly than me and general cropping system and it will be helpful.