【Abstract】 Objective  To investigate molecular epidemiological characteristics of Hantavirus(HV) isolated from Shandong province. Methods A total of 48 lung tissues positive to HV antigens detected by immunofluorescence technique were amplified by RT?PCR with HV specific primers and the products were sequenced. The PCR products were analyzed in homology and phylogenetics with the known HV. Results Partial SEO S and M fragments were amplified from 15 HV antigen?positive Rattus norvegicus, and 10 strains of HV isolated were SEO. The nucleotide sequence homology of S segments was more than 96.3%, and the deduced amino acid sequence (exclude JN5?153S and DY1S) homology was more than 96.8%. The homology of M segments among those 10 strains of hantanviruses and ZB8 isolated in Shandong province was more than 97.5%, and the deduced amino acid sequence homologies were 98.6%-100%. Conclusion The HV isolated in Shandong province are mainly SEO?3 subtype. The nucleotide homology of SEO type of HV in the same or nearby area is higher and the viruses are highly conserved.