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Journal of Clinical Microbiology, August 2008, p. 2581-2589, Vol. 46, No. 8
0095-1137/08/$08.00+0     doi:10.1128/JCM.02147-07
Copyright © 2008, American Society for Microbiology. All Rights Reserved.

Salmonella Serovar Identification Using PCR-Based Detection of Gene Presence and Absence{triangledown} ,{dagger}

Nabil Arrach,{ddagger} Steffen Porwollik,{ddagger}* Pui Cheng, Ann Cho, Fred Long, Sang-Ho Choi, and Michael McClelland

Sidney Kimmel Cancer Center, 10905 Road to the Cure, San Diego, California 92121

Received 6 November 2007/ Returned for modification 8 January 2008/ Accepted 22 May 2008

There are more than 2,500 known Salmonella serovars, and some of these can be further subclassified into groups of strains that differ profoundly in their gene content. We refer to these groups of strains as "genovars." A compilation of comparative genomic hybridization data on 291 Salmonella isolates, including 250 S. enterica subspecies I strains from 32 serovars (52 genovars), was used to select a panel of 384 genes whose presence and absence among serovars and genovars was of potential taxonomic value. A subset of 146 genes was used for real-time PCR to successfully identify 12 serovars (16 genovars) in 24 S. enterica strains. A further subset of 64 genes was used to identify 8 serovars (9 genovars) in 12 multiplex PCR mixes on 11 S. enterica strains. These gene panels distinguish all tested S. enterica subspecies I serovars and their known genovars, almost all by two or more informative markers. Thus, a typing methodology based on these predictive genes would generally alert users if there is an error, an unexpected polymorphism, or a potential new genovar.

* Corresponding author. Mailing address: Sidney Kimmel Cancer Center, 10905 Road to the Cure, San Diego, CA 92121. Phone: (858) 450-5990. Fax: (858) 450-3251. E-mail: sporwollik{at}skcc.org

{triangledown} Published ahead of print on 4 June 2008.

{dagger} Supplemental material for this article may be found at http://jcm.asm.org/.

{ddagger} These authors contributed equally to this work.

Journal of Clinical Microbiology, August 2008, p. 2581-2589, Vol. 46, No. 8
0095-1137/08/$08.00+0     doi:10.1128/JCM.02147-07
Copyright © 2008, American Society for Microbiology. All Rights Reserved.



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