Conventional farming systems use high levels of inputs. Excessive use of chemicals concerns scientists and farmers because the possible long term impact on the ecosystems. In an effort to achieve sustainability, many farmers have adopted organic and low input farming systems. Plant breeding programs for organic and low input systems focus on the development of varieties with high nutritional grain quality adapted for these environments. Maintaining high seed quality in these genetic materials is crucial to achieving uniform stand establishment under these more stressful seed bed conditions. The objectives are to determine if seed quality of corn lines selected for high protein is affected by organic and conventional production systems, and to establish the impact on other traits, such as protein content and oil composition. Twenty breeding lines originated from the U.S. Germplasm Enhancement of Maize (GEM) project were planted during two growing seasons (2003 and 2004) at locations near Ames, IA. Two replications per farming systems were planted in a Randomized Complete Block (RCB) design. Seeds were harvested at physiological maturity, artificially dried to approximately 12% and stored in a 10oC climate controlled room until tests were completed. Tests included the standard germination test, saturated cold test, accelerated aging, fast green, electrical conductivity and soak test. Seed chemical composition was determined by Near Infrared Reflectance Spectroscopy (NIR). Preliminary data showed that seed produced under the conventional system had better seed quality than seed produced in an organic system across years. Seed produced in the 2003 growing season had better seed quality as determined by standard germination and saturated cold tests than in 2004. Results from other seed quality tests will be presented and discussed. Seed quality is an important aspect of breeding for sustainable cropping systems as seed production environment affects seed quality and chemical composition of the seeds.