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J. Clin. Microbiol. doi:10.1128/JCM.00469-06
Copyright (c) 2006, American Society for Microbiology and/or the Listed Authors/Institutions. All Rights Reserved.

Variable number tandem repeats of Salmonella enterica subsp. enterica useful in genotyping isolates of serovars Typhimurium and Newport

Departments of Pathology, Microbiology and Immunology, Pediatrics and Neurobiology and Developmental Sciences, University of Arkansas for Medical Sciences, Arkansas Childrens Hospital and Medical Research Service, Central Arkansas Veterans Healthcare System, Little Rock, AR. 72205

^* To whom correspondence should be addressed. Email: dcave{at}uams.edu.

	Abstract

The genome of Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 was analyzed for direct repeats and 54 sequences containing variable number tandem repeat loci identified. Ten primer pairs that anneal upstream and downstream of each selected locus were designed and used to amplify polymerase chain reaction targets in isolates of S. enterica serovars Typhimurium and Newport. Four of the ten loci did not show polymorphism in the length of products. Six loci were selected for analysis. Isolates of S. enterica serovars Typhimurium and Newport that were related to specific outbreaks and showed identical pulsed field gel electrophoresis patterns were indistinguishable by the length of the six variable number tandem repeats. Isolates that differed in pulsed field gel electrophoresis pattern showed polymorphism in variable number tandem repeat profiles. Length of the products was confirmed by DNA sequence analysis. The nucleotide sequence of each direct repeat within a locus was found to be identical. Only two of the ten loci contained exact integers of the direct repeat. Eight loci contained partial copies. The partial copies were maintained at the ends of the variable number tandem repeat loci in all isolates. In spite of having partial copies that were maintained in all isolates, the number of direct repeats at a locus was polymorphic. Six variable number tandem repeat loci were useful in distinguishing isolates of S. enterica serovars Typhimurium and Newport that had different pulsed field gel electrophoresis patterns and identifying outbreak associated cases that shared a common pulsed field gel pattern.

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