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Journal of Clinical Microbiology, June 2002, p. 2074-2078, Vol. 40, No. 6
0095-1137/02/$04.00+0     DOI: 10.1128/JCM.40.6.2074-2078.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.

DNA Microarray-Based Typing of an Atypical Monophasic Salmonella enterica Serovar

Javier Garaizar,1,2 Steffen Porwollik,1 Aurora Echeita,3 Aitor Rementeria,2 Silvia Herrera,3 Rita Mei-Yi Wong,1 Jonathan Frye,1 Miguel A. Usera,3 and Michael McClelland1*

Sidney Kimmel Cancer Center, San Diego, California 92121,1 Departamento de Inmunología, Microbiología y Parasitología, Facultad de Farmacia, Universidad del País Vasco, 01006 Vitoria-Gasteiz,2 Servicio de Bacteriología, Centro Nacional de Microbiología, Instituto de Salud Carlos III, 28220 Majadahonda, Madrid, Spain3

Received 17 December 2001/ Returned for modification 7 March 2002/ Accepted 17 March 2002

A multidrug-resistant fljB-lacking Salmonella enterica serovar [4,5,12:i:-] emerged in Spain in 1997. We analyzed the genome from four strains of this serovar using a microarray containing almost all the predicted protein coding regions of serovar Typhimurium strain LT2, including the pSLT plasmid. Only a few differences from serovar Typhimurium LT2 were observed, suggesting the serovar to be Typhimurium as well. Six regions of interest were identified from the microarray data. Cluster I was a deletion of 13 genes, corresponding to part of the regulon responsible for the anaerobic assimilation of allantoin. Clusters II and IV were associated with the absence of the Fels-1 and Fels-2 prophage. Cluster III was a small group of Gifsy-1 prophage-related genes that appeared to be deleted or replaced. Cluster V was a deletion of 16 genes, including iroB and the operon fljAB, which is reflected in the serovar designation. Region VI was the gene STM2240, which appears to have an additional homologue in these strains. The regions spanning the deletions involving the allantoin operon and the fljAB operon were PCR amplified and sequenced. PCR across these regions may be an effective marker for this particular emergent serovar. While the microarray data for all isolates of the new serovar were essentially identical for all LT2 chromosomal genes, the isolates differed in their similarity to pSLT, consistent with the heterogeneity in plasmid content among isolates of the new serovar. Recent isolates have acquired a more-complete subset of homologues to this virulence plasmid. In general, microarrays can provide useful complementary data to other typing methods.

* Corresponding author. Mailing address: Sidney Kimmel Cancer Center, 10835 Altman Row, San Diego, CA 92121. Phone: (858) 450-5990. Fax: (858) 550-3998. E-mail: mmcclelland{at}skcc.org.

Journal of Clinical Microbiology, June 2002, p. 2074-2078, Vol. 40, No. 6
0095-1137/02/$04.00+0     DOI: 10.1128/JCM.40.6.2074-2078.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.



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