Abstract: The summary of this paper is the progresses of the applications of molecular marker technology in studying on maize in China, including: (1) the applications of molecular marker technology in maize genetic diversity research; (2) the predict research of maize heterosis and yield by molecular marker technology; (3) study on maize target gene and QTL mapping using molecular marker; (4) The application of molecular marker on fingerprint establishing of maize DNA and seed testing. The future prospects of molecular marker study on maize will be: (1) Mapping and marking the genes with high-yield, quality and resistant to stress from the study of finding, identifying, classifying and utilizing of maize special germplasm through molecular marker technology in order to increase the efficiency of maize breeding; (2) Accurately mapping the genes of resistant to stresses of maize by molecular marker technology for their clone, transformation, utilization and AMS in order to reduce the times of maize breeding; (3) With the improvement and faultless of molecular marker technology, the development of DNA fingerprint computer software in maize, check technology with schedulium, oversimplify and automatic will be economic, fast and exact for maize seed testing.