Abstract: 【Objective】It can provide the reference for selecting appropriate marker system for germplasm resource research through the studies of its suitable domain respectively of RAPD, AFLP and SSR marker systems in domestic silkworm (Bombyx mori) genetics research. 【Method】 RAPD, AFLP and SSR were used to study the genetic diversity index of 15 B.mori strains. And the three marker systems were compared. 【Result】 The results indicated that SSR presented the highest expected heterozygosity (0.40). While the lowest values of expected hererozygosity were obtained from AFLPs, which nevertheless obtained the highest marker index (MI, 15.60) and value of assay efficiency (Ai, 74.75). 【Conclusion】SSRs had higher information content than RAPD and AFLP, so it is adapted to genetic analysis of germplasm. AFLP had higher assay efficiency, i.e. it can assay more DNA bands in one PCR amplification, so it is suitable for identification and protection of germplasm and construction of genetic linkage map.

Key words: Bombyx mori, SSR, AFLP, RAPD, genetic analysis