In this study, the genomic library of G. elata was set up by means of the second generation of DNA sequencing, and the microsatellite loci in genomic sequences was screened. The types, abundance, length and preference of microsatellite locus were analyzed and compared. Primer pairs for 60 microsatellite loci with high repetition were designed, PCR and polyacrylamide gels electrophoresis were carried out on 80 individuals sampled from 4 populations in order to test the polymorphism of the markers. (1) 61 048 sequences of G. elate were gotten in the genomic sequencing, 12 107 microsatellite loci were detected out, occupying 8.16% of total sequences. (2) Among these SSR loci, the repetition of dinucleotide was the highest. 20 loci among those 60 were detected amplifiable, stable, and polymorphism after PCR and electrophoresis; the number of polymorphic alleles of each locus (N_a) ranged from 4 to 14 with the average of 8.40, while the average of polymorphism information content (PIC) was 0.77. The microsatellite markers developed for G. elate in this study can make good basement for its genetic study, germplasm identification.