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Journal of Clinical Microbiology, June 2004, p. 2618-2622, Vol. 42, No. 6
0095-1137/04/$08.00+0     DOI: 10.1128/JCM.42.6.2618-2622.2004
Copyright © 2004, American Society for Microbiology. All Rights Reserved.

Rapid and Specific Detection of Escherichia coli Clonal Group A by Gene-Specific PCR

James R. Johnson,1* Krista Owens,1,{dagger} Amee R. Manges,2 and Lee W. Riley2,3

Mucosal and Vaccine Research Center, Minneapolis Veterans Affairs Medical Center, and Department of Medicine, University of Minnesota, Minneapolis, Minnesota,1 Division of Epidemiology, School of Public Health,2 Division of Infectious Diseases and Immunity, University of California at Berkeley, Berkeley, California3

Received 29 December 2003/ Returned for modification 2 March 2004/ Accepted 10 March 2004

PCR primers specific for the recently described antimicrobial resistance-associated Escherichia coli clonal group A (CGA), a widespread cause of drug-resistant urinary tract infections in the United States, were devised on the basis of a novel single-nucleotide polymorphism identified within the housekeeping gene fumC, i.e., C288T. In comparison with two reference PCR-based fingerprinting methods, ERIC2 PCR and random amplified polymorphic DNA (RAPD) analysis, a PCR assay incorporating the new primers provided 100% sensitivity and 100% specificity for the detection of CGA among 138 diverse clinical and reference E. coli isolates. E. coli reference (ECOR) strain 47 was shown to be a member or a close relative of CGA (by ERIC2 PCR and RAPD analysis, respectively) and yielded a positive assay result. The new CGA-specific PCR assay, which exhibited interlaboratory reproducibility and stability under various experimental conditions, should allow the rapid and specific detection of CGA by any laboratory equipped for diagnostic PCR.

* Corresponding author. Mailing address: Infectious Diseases (111F), Minneapolis VA Medical Center, One Veterans Dr., Minneapolis, MN 55417. Phone: (612) 467-4185. Fax: (612) 727-5995. E-mail: johns007{at}umn.edu.

{dagger} Present address: Ecolab, St. Paul, Minn.

Journal of Clinical Microbiology, June 2004, p. 2618-2622, Vol. 42, No. 6
0095-1137/04/$08.00+0     DOI: 10.1128/JCM.42.6.2618-2622.2004
Copyright © 2004, American Society for Microbiology. All Rights Reserved.



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