Evaluation of variable numbers of tandem repeat as molecular epidemiological markers of Mycobacterium tuberculosis in Japan

Journal of Medical Microbiology

Volumn 56, Issue 8, 2007, Pages 1052-1057

  Wada, Takayuki ^a   Maeda, Shinji ^b   Hase, Atsushi ^a   Kobayashi, Kazuo ^c  

^a OSAKA CITY INSTITUTE OF PUBLIC HEALTH AND ENVIRONMENTAL SCIENCES   (Japan)

^b RESEARCH INSTITUTE OF TUBERCULOSIS   (Japan)

^c NATIONAL INSTITUTE OF INFECTIOUS DISEASES   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

MOLECULAR MARKER;

ARTICLE; BACTERIAL STRAIN; BACTERIUM ISOLATE; EPIDEMIOLOGICAL DATA; GENE LOCUS; GENETIC VARIABILITY; JAPAN; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PRIORITY JOURNAL; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; STANDARD; VARIABLE NUMBER OF TANDEM REPEAT;

BIOLOGICAL MARKERS; EPIDEMIOLOGY, MOLECULAR; GENOME, BACTERIAL; HUMANS; INTERSPERSED REPETITIVE SEQUENCES; JAPAN; MINISATELLITE REPEATS; MYCOBACTERIUM TUBERCULOSIS; TUBERCULOSIS;

EID: 34547866497     PISSN: 00222615     EISSN: None     Source Type: Journal    
DOI: 10.1099/jmm.0.46990-0     Document Type: Article

References (32)

1. Bifani, P. J., Mathema, B., Kurepina, N. E. & Kreiswirth, B. N. (2002). Global dissemination of the Mycobacterium tuberculosis W-Beijing family strains. Trends Microbiol 10, 45-52.
2. Blackwood, K. S., Wolfe, J. N. & Kabani, A. M. (2004). Application of mycobacterial interspersed repetitive unit typing to Manitoba tuberculosis cases: can restriction fragment length polymorphism be forgotten? J Clin Microbiol 42, 5001-5006.
3. Cave, M. D., Eisenach, K. D., McDermott, P. F., Bates, J. H. & Crawford, J. T. (1991). IS6110: conservation of sequence in the Mycobacterium tuberculosis complex and its utilization in DNA fingerprinting. Mol Cell Probes 5, 73-80.
4. CDC (2004). Handbook for TB Controllers, Epidemiologists, Laboratorians, and Other Program Staff. National TB Controllers Association/CDC Advisory Group on Tuberculosis Genotyping. Atlanta, GA: CDC. http://www.cdc.gov/nchstp/tb/genotyping/toc.htm
5. Chan, M. Y., Borgdorff, M., Yip, C. W., de Haas, P. E., Wong, W. S., Kam, K. M. & Van Soolingen, D. (2001). Seventy percent of the Mycobacterium tuberculosis isolates in Hong Kong represent the Beijing genotype. Epidemiol Infect 127, 169-171.
6. Cowan, L. S., Diem, L., Monson, T., Wand, P., Temporado, D., Oemig, T. V. & Crawford, J. T. (2005). Evaluation of a two-step approach for large-scale, prospective genotyping of Mycobacterium tuberculosis isolates in the United States. J Clin Microbiol 43, 688-695.
7. Frothingham, R. & Meeker-O'Connell, W. A. (1998). Genetic diversity in the Mycobacterium tuberculosis complex based on variable numbers of tandem DNA repeats. Microbiology 144, 1189-1196.
8. Glynn, J. R., Whiteley, J., Bifani, P. J., Kremer, K. & van Soolingen, D. (2002). Worldwide occurrence of Beijing/W strains of Mycobacterium tuberculosis: a systematic review. Emerg Infect Dis 8, 843-849.
9. Hunter, P. R. & Gaston, M. A. (1988). Numerical index of the discriminatory ability of typing systems: an application of Simpson's index of diversity. J Clin Microbiol 26, 2465-2466.
10. Kam, K. M., Yip, C. W., Tse, L. W., Leung, K. L., Wong, K. L., Ko, W. M. & Wong, W. S. (2006). Optimization of variable number tandem repeat typing set for differentiating Mycobacterium tuberculosis strains in the Beijing family. FEMS Microbiol Lett 256, 258-265.
11. Kamerbeek, J., Schouls, L., Kolk, A., van Agterveld, M., van Soolingen, D., Kuijper, S., Bunschoten, A., Molhuizen, H., Shaw, R. & other authors (1997). Simultaneous detection and strain differentiation of Mycobacterium tuberculosis for diagnosis and epidemiology. J Clin Microbiol 35, 907-914.
12. Kremer, K., van Soolingen, D., Frothingham, R., Haas, W. H., Hermans, P. W., Martin, C., Palittapongarnpim, P., Plikaytis, B. B., Riley, L. W. & other authors (1999). Comparison of methods based on different molecular epidemiological markers for typing of Mycobacterium tuberculosis complex strains: interlaboratory study of discriminatory power and reproducibility. J Clin Microbiol 37, 2607-2618.
13. Kremer, K., Glynn, J. R., Lillebaek, T., Niemann, S., Kurepina, N. E., Kreiswirth, B. N., Bifani, P. J. & van Soolingen, D. (2004). Definition of the Beijing/W lineage of Mycobacterium tuberculosis on the basis of genetic markers. J Clin Microbiol 42, 4040-4049.
14. Kremer, K., Arnold, C., Cataldi, A., Gutierrez, M. C., Haas, W. H., Panaiotov, S., Skuce, R. A., Supply, P., van der Zanden, A. G. & van Soolingen, D. (2005a). Discriminatory power and reproducibility of novel DNA typing methods for Mycobacterium tuberculosis complex strains. J Clin Microbiol 43, 5628-5638.
15. Kremer, K., Au, B. K., Yip, P. C., Skuce, R., Supply, P., Kam, K. M. & van Soolingen, D. (2005b). Use of variable-number tandem-repeat typing to differentiate Mycobacterium tuberculosis Beijing family isolates from Hong Kong and comparison with IS6110 restriction fragment length polymorphism typing and spoligotyping. J Clin Microbiol 43, 314-320.
16. Le Flèche, P., Fabre, M., Denoeud, F., Koeck, J. L. & Vergnaud, G. (2002). High resolution, on-line identification of strains from the Mycobacterium tuberculosis complex based on tandem repeat typing. BMC Microbiol 2, 37.
17. Mazars, E., Lesjean, S., Banuls, A. L., Gilbert, M., Vincent, V., Gicquel, B., Tibayrenc, M., Locht C. & Supply, P. (2001). High-resolution minisatellite-based typing as a portable approach to global analysis of Mycobacterium tuberculosis molecular epidemiology. Proc Natl Acad Sci U S A 98, 1901-1906.
18. Molhuizen, H. O., Bunschoten, A. E., Schouls, L. M. & van Embden, J. D. (1998). Rapid detection and simultaneous strain differentiation of Mycobacterium tuberculosis complex bacteria by spoligotyping. Methods Mol Biol 101, 381-394.
19. Nikolayevskyy, V., Gopaul, K., Balabanova, Y., Brown, T., Fedorin, I. & Drobniewski, F. (2006). Differentiation of tuberculosis strains in a population with mainly Beijing-family strains. Emerg Infect Dis 12, 1406-1413.
20. Oelemann, M. C., Diel, R., Vatin, V., Haas, W., Rusch-Gerdes, S., Locht, C., Niemann, S. & Supply, P. (2006). Assessment of an optimized mycobacterial interspersed repetitive-unit-variable-number tandem-repeat typing system combined with spoligotyping for population-based molecular epidemiology studies of tuberculosis. J Clin Microbiol 45, 691-697.
21. Roring, S., Scott, A., Brittain, D., Walker, I., Hewinson, G., Neill, S. & Skuce, R. (2002). Development of variable-number tandem repeat typing of Mycobacterium bovis: comparison of results with those obtained by using existing exact tandem repeats and spoligotyping. J Clin Microbiol 40, 2126-2133.
22. Roring, S., Scott, A. N., Glyn Hewinson, R., Neill, S. D. & Skuce, R. A. (2004). Evaluation of variable number tandem repeat (VNTR) loci in molecular typing of Mycobacterium bovis isolates from Ireland. Vet Microbiol 101, 65-73.
23. Skuce, R. A., McCorry, T. P., McCarroll, J. F., Roring, S. M., Scott, A. N., Brittain, D., Hughes, S. L., Hewinson, R. G. & Neill, S. D. (2002). Discrimination of Mycobacterium tuberculosis complex bacteria using novel VNTR-PCR targets. Microbiology 148, 519-528.
24. Smittipat, N., Billamas, P., Palittapongarnpim, M., Thong-On, A., Temu, M. M., Thanakijcharoen, P., Karnkawinpong, O. & Palittapongarnpim, P. (2005). Polymorphism of variable-number tandem repeats at multiple loci in Mycobacterium tuberculosis. J Clin Microbiol 43, 5034-5043.
25. Sun, Y. J., Bellamy, R., Lee, A. S., Ng, S. T., Ravindran, S., Wong, S. Y., Locht, C., Supply, P. & Paton, N. I. (2004). Use of mycobacterial interspersed repetitive unit-variable-number tandem repeat typing to examine genetic diversity of Mycobacterium tuberculosis in Singapore. J Clin Microbiol 42, 1986-1993.
26. Supply, P., Mazars, E., Lesjean, S., Vincent, V., Gicquel, B. & Locht, C. (2000). Variable human minisatellite-like regions in the Mycobacterium tuberculosis genome. Mol Microbiol 36, 762-771.
27. Supply, P., Lesjean, S., Savine, E., Kremer, K., van Soolingen, D. & Locht, C. (2001). Automated high-throughput genotyping for study of global epidemiology of Mycobacterium tuberculosis based on mycobacterial interspersed repetitive units. J Clin Microbiol 39, 3563-3571.
28. Supply, P., Allix, C., Lesjean, S., Cardoso-Oelemann, M., Rusch-Gerdes, S., Willery, E., Savine, E., de Haas, P., van Deutekom, H. & other authors (2006). Proposal for standardization of optimized mycobacterial interspersed repetitive unit-variable-number tandem repeat typing of Mycobacterium tuberculosis. J Clin Microbiol 44, 4498-4510.
29. Surikova, O. V., Voitech, D. S., Kuzmicheva, G., Tatkov, S. I., Mokrousov, I. V., Narvskaya, O. V., Rot, M. A., van Soolingen, D. & Filipenko, M. L. (2005). Efficient differentiation of Mycobacterium tuberculosis strains of the W-Beijing family from Russia using highly polymorphic VNTR loci. Eur J Epidemiol 20, 963-974.
30. van Embden, J. D., Cave, M. D., Crawford, J. T., Dale, J. W., Eisenach, K. D., Gicquel, B., Hermans, P., Martin, C., McAdam, R. & other authors (1993). Strain identification of Mycobacterium tuberculosis by DNA fingerprinting: recommendations for a standardized methodology. J Clin Microbiol 31, 406-409.
31. van Soolingen, D., Qian, L., de Haas, P. E., Douglas, J. T., Traore, H., Portaels, F., Qing, H. Z., Enkhsaikan, D., Nymadawa, P. & van Embden, J. D. (1995). Predominance of a single genotype of Mycobacterium tuberculosis in countries of east Asia. J Clin Microbiol 33, 3234-3238.
32. Warren, R. M., Victor, T. C., Streicher, E. M., Richardson, M., van der Spuy, G. D., Johnson, R., Chihota, V. N., Locht, C., Supply, P. & van Helden, P. D. (2004). Clonal expansion of a globally disseminated lineage of Mycobacterium tuberculosis with low IS6110 copy numbers. J Clin Microbiol 42, 5774-5782.