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Journal of Clinical Microbiology, August 2002, p. 2779-2785, Vol. 40, No. 8
0095-1137/02/$04.00+0     DOI: 10.1128/JCM.40.8.2779-2785.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.

Phylogenetic Analysis of Salmonella, Shigella, and Escherichia coli Strains on the Basis of the gyrB Gene Sequence

Masao Fukushima, Kenichi Kakinuma, and Ryuji Kawaguchi*

Genomics Research Institute, SRL, Inc., 5-6-50 Shinmachi, Hino-shi, Tokyo 191-0002, Japan

Received 19 December 2001/ Returned for modification 27 February 2002/ Accepted 13 May 2002

Phylogenetic analysis of about 200 strains of Salmonella, Shigella, and Escherichia coli was carried out using the nucleotide sequence of the gene for DNA gyrase B (gyrB), which was determined by directly sequencing PCR fragments. The results establish a new phylogenetic tree for the classification of Salmonella, Shigella, and Escherichia coli in which Salmonella forms a cluster separate from but closely related to Shigella and E. coli. In comparison with 16S rRNA analysis, the gyrB sequences indicated a greater evolutionary divergence for the bacteria. Thus, in screening for the presence of bacteria, the gyrB gene might be a useful tool for differentiating between closely related species of bacteria such as Shigella spp. and E. coli. At present, 16S rRNA sequence analysis is an accurate and rapid method for identifying most unknown bacteria to the genus level because the highly conserved 16S rRNA region is easy to amplify; however, analysis of the more variable gyrB sequence region can identify unknown bacteria to the species level. In summary, we have shown that gyrB sequence analysis is a useful alternative to 16S rRNA analysis for constructing the phylogenetic relationships of bacteria, in particular for the classification of closely related bacterial species.

* Corresponding author. Mailing address: 5-6-50 Shinmachi, Hino-shi, Tokyo 191-0002, Japan. Phone: 81-426-48-3783. Fax: 81-426-48-4054. E-mail: ryukaw{at}srl.srl-inc.co.jp.

Journal of Clinical Microbiology, August 2002, p. 2779-2785, Vol. 40, No. 8
0095-1137/02/$04.00+0     DOI: 10.1128/JCM.40.8.2779-2785.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.



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