Abstract: Molecular identification and evolvement analysis of Shigella boydii strain hn03 isolated from chicken were researched in this study. Eight pairs of specific primers for housekeeping genes, e.g. thrB/ thrC, trpC/trpB, purM/purN and mdh/argR, were designed according to the related sequences of shigella deposited in the GenBank database, and were used to amplify corresponding genes of hn03. The PCR products were cloned into pMD18-T vector and sequenced, the sequences reported in this paper have been submitted to GenBank. By using the BLAST and ClustalX program, the sequencing results were analyzed and the phylogenetic trees for 8 housekeeping genes in 4 regions of chromosome were established. Based on the phylogenetic analysis, 3 clusters of shigella strains were identified and nonetheless, were clearly within Escherichia coli. In this study， the locations are distributed identically for the shigella boydii isolated from chicken in four regions of chromosome, which are all contained in cluster 1. Shigella boydii isolated from chicken is probably originated from shigella boydii isolated from human on the level of whole gene.