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Journal of Clinical Microbiology, September 2003, p. 4224-4230, Vol. 41, No. 9
0095-1137/03/$08.00+0     DOI: 10.1128/JCM.41.9.4224-4230.2003
Copyright © 2003, American Society for Microbiology. All Rights Reserved.

Molecular Typing of Mycobacterium tuberculosis by Using Nine Novel Variable-Number Tandem Repeats across the Beijing Family and Low-Copy-Number IS6110 Isolates

R. Scott Spurgiesz,1 Teresa N. Quitugua,2 Kimothy L. Smith,1,{dagger} James Schupp,1 Eldon G. Palmer,1 Rebecca A. Cox,2 and Paul Keim1*

Department of Biological Sciences, Northern Arizona University, Flagstaff, Arizona 86011-5640,1 and University of Texas Health Science Center at San Antonio, Department of Microbiology and Immunology, San Antonio, Texas 782452

Received 4 February 2003/ Returned for modification 17 March 2003/ Accepted 2 June 2003

Molecular epidemiological tools for genotyping clinical isolates of Mycobacterium tuberculosis have been developed and used to help track and contain transmission of tuberculosis. We identified 87 short sequence repeat loci within the genome of the M. tuberculosis H37Rv strain. Nine tandem repeats were found to be variable (variable-number tandem repeats [VNTRs]) in a set of 91 isolates. Fifty-seven of the isolates had only four IS6110 bands. The other 34 isolates were members of the Beijing strain family. The number of alleles of each these nine VNTRs was determined by examining each isolate. Six of the loci (Mtb-v1, -v4, -v10, -v15, -v18, and -v20) were able to differentiate the Beijing spoligotype identical isolates into seven distinct genotypes. Five of the loci (Mtb-v3, -v5, -v6, -v10, and -v15) were informative in discriminating the four-band IS6110 restriction fragment length polymorphism isolates from each other. The Nei's diversity values of each marker ranged from 0.02 to 0.59, with the number of alleles ranging from two to eight across the entire strain set. These nine loci provide a useful, discriminatory extension of VNTR typing methods for application to molecular epidemiologic studies of M. tuberculosis.

* Corresponding author. Mailing address: Department of Biological, Sciences, Northern Arizona University, Flagstaff, AZ 86011-5640. Phone: (520) 523-1078. Fax: (520) 523-0639. E-mail: Paul.Keim{at}nau.edu.

{dagger} Present address: Lawrence Livermore National Laboratory, Biodefense Division, Livermore, CA 94551.

Journal of Clinical Microbiology, September 2003, p. 4224-4230, Vol. 41, No. 9
0095-1137/03/$08.00+0     DOI: 10.1128/JCM.41.9.4224-4230.2003
Copyright © 2003, American Society for Microbiology. All Rights Reserved.



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