Abstract:The biochemical genetic structure and variation among local population of Glycine soja Sieb. & Zucc. were investigated based on isozyme analysis using the techniques of polyacrylamide gel electrophoresis. The isoenzyme zymography of 6 enzymes viz malate dehydrogenase (MDH), peroxidase (PER), adenosine triphosphatase (ATPase), amylase (AMY), esterase (EST) and isocitric dehydrogenase (IDH) of 14 culture seedlings were respectively compared. Isozymatic analysis revealed high genetic variation in the population of G. soja. MDH, PER, ATPase, AMY are polymorphic. ATPase has the highest polymorphic index (PI=O. 1582). EST and IDH are monomorphic for all populations. The average population heterozygosity (He) was 0. 3141, and the average genetic distance (Da) among the 14 samples is 0. 1512. Cluster analysis and canonical analysis showed no correlation existed between the population‘s biochemical genetic structure and its environment. It was concluded that mutation could be the major cause of the high enzymatic polymorphism in population; and the mechanism that keeps the polymorphism could be random drift sampling strategy for conservation of crop genetic resources was also put forward.