First worldwide proficiency study on variable-number tandem-repeat typing of Mycobacterium tuberculosis complex strains

Journal of Clinical Microbiology

Volumn 50, Issue 3, 2012, Pages 662-669

  De Beer, Jessica L ^a   Kremer, Kristin ^b   Ködmön, Csaba ^c   Supply, Philip ^d,e   Van Soolingen, Dick ^a,f   Alexander, David ^g   Augustynowicz Kopeć, Ewa ^h   Bidovec Stojkovic, Urska ⁱ   Boeree, Martin J ^f   Brown, Timothy ^j   Cirillo, Daniela M ^k   Cruz, Laura ^l   David, Susana ^m   Diaz, Raul ⁿ   Dou, Horng Yunn ^o   Evans, Jason T ^j   Fauville Dufaux, Maryse ^p   Fitzgibbon, Margaret M ^q   García De Viedma, Darío ^r,s   Globan, Maria ^t   Groenheit, Ramona ^u   Haanperä Heikkinen, Marjo ^v   Indra, Alexander ^w   Kam, Kai Man ^x   Kramer, Rebecca ^y   Mei, Shang ^z   Niemann, Stefan ^aa   Obrovac, Mihaela ^ab   Rasmussen, Erik M ^ac   Refrégier, Guislaine ^ad   Robledo, Jaime A ^ae   Samper, Sofia ^s,af   Sharma, Meenu K ^ag   Sougakoff, Wladimir ^ah   Stakenas, Petras ^ai   Stavrum, Ruth ^aj   Suffys, Philip N ^ak   Trenkler, Juraj ^al   Wada, Takayuki ^am   Warren, Robin M ^an   more..

^a NATIONAL INSTITUTE FOR PUBLIC HEALTH AND THE ENVIRONMENT   (Netherlands)

^b WORLD HEALTH ORGANIZATION   (Switzerland)

^c EUROPEAN CENTRE FOR DISEASE PREVENTION AND CONTROL ECDC   (Sweden)

^d UNIV LILLE   (France)

^e Genoscreen   (France)

^f RADBOUD UNIVERSITY MEDICAL CENTER   (Netherlands)

^g PUBLIC HEALTH ONTARIO   (Canada)

^h NATIONAL TUBERCULOSIS AND LUNG DISEASES RESEARCH INSTITUTE   (Poland)

ⁱ UNIVERSITY CLINIC OF RESPIRATORY AND ALLERGIC DISEASES   (Slovenia)

^j PUBLIC HEALTH ENGLAND   (United Kingdom)

^k Emerging Bacterial Pathogens Unit   (Italy)

^l CALIFORNIA DEPARTMENT OF PUBLIC HEALTH   (United States)

^m NATIONAL INSTITUTE OF HEALTH DR RICARDO JORGE   (Portugal)

ⁿ INSTITUTO DE MEDICINA TROPICAL PEDRO KOURÍ   (Cuba)

^o NATIONAL HEALTH RESEARCH INSTITUTES   (Taiwan)

^p SCIENTIFIC INSTITUTE OF PUBLIC HEALTH   (Belgium)

^q Central Pathology Laboratory   (Ireland)

^r HOSPITAL GENERAL UNIVERSITARIO GREGORIO MARAÑÓN   (Spain)

^s INSTITUTO DE SALUD CARLOS III   (Spain)

^t VICTORIAN INFECTIOUS DISEASES REFERENCE LABORATORY   (Australia)

^u SWEDISH INSTITUTE FOR INFECTIOUS DISEASE CONTROL   (Sweden)

^v NATIONAL PUBLIC HEALTH INSTITUTE   (Finland)

^w AUSTRIAN AGENCY FOR HEALTH AND FOOD SAFETY   (Austria)

^x Public Health Laboratory Centre   (Hong Kong)

^y MICHIGAN DEPARTMENT OF COMMUNITY HEALTH   (United States)

^z DEPARTMENT OF HEALTH   (Hong Kong)

^aa RESEARCH CENTER BORSTEL   (Germany)

^ab CROATIAN NATIONAL INSTITUTE OF PUBLIC HEALTH   (Croatia)

^ac International Reference Laboratory of Mycobacteriology   (Denmark)

^ad Infection Genetics of Emerging Pathogens and Epidemiology   (France)

^ae UNIVERSIDAD PONTIFICIA BOLIVARIANA   (Colombia)

^af HOSPITAL UNIVERSITARIO MIGUEL SERVET   (Spain)

^ag UNIVERSITY OF MANITOBA   (Canada)

^ah ASSISTANCE PUBLIQUE HÔPITAUX DE PARIS   (France)

^ai VILNIUS UNIVERSITY   (Lithuania)

^aj UNIVERSITY OF BERGEN   (Norway)

^ak Laboratory of Molecular Biology Applied to Mycobacteria   (Brazil)

^al Slovak National Reference Laboratory for Mycobacteria   (Slovakia)

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

^an STELLENBOSCH UNIVERSITY   (South Africa)

more..

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ARTICLE; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATE; CONTROLLED STUDY; DNA FINGERPRINTING; GEL ELECTROPHORESIS; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; INTERMETHOD COMPARISON; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RELIABILITY; REPRODUCIBILITY; SCORING SYSTEM; VARIABLE NUMBER OF TANDEM REPEAT; VARIABLE NUMBER OF TANDEM REPEAT TYPING;

AUTOMATION; BACTERIAL TYPING TECHNIQUES; HUMANS; MINISATELLITE REPEATS; MYCOBACTERIUM TUBERCULOSIS; QUALITY CONTROL; REPRODUCIBILITY OF RESULTS;

EID: 84857386498     PISSN: 00951137     EISSN: 1098660X     Source Type: Journal    
DOI: 10.1128/JCM.00607-11     Document Type: Article

References (31)

1. Allix C, Supply P, Fauville-Dufaux M. 2004. Utility of fast mycobacterial interspersed repetitive unit-variable number tandem repeat genotyping in clinical mycobacteriological analysis. Clin. Infect. Dis. 39:783-789. (Pubitemid 39244290)
2. Brown TJ, Nikolayevskyy VN, Drobniewski FA. 2009. Typing Mycobacterium tuberculosis using variable number tandem repeat analysis. Methods Mol. Biol. 465:371-394.
3. Cole ST, et al. 1998. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature 393:537-544. (Pubitemid 28319235)
4. Cowan LS, et al. 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. (Pubitemid 40256020)
5. Cowan LS, Mosher L, Diem L, Massey JP, Crawford JT. 2002. Variable-number tandem repeat typing of Mycobacterium tuberculosis isolates with low copy numbers of IS6110 by using mycobacterial interspersed repetitive units. J. Clin. Microbiol. 40:1592-1602. (Pubitemid 34493125)
6. Devaux I, Kremer K, Heersma H, Van Soolingen D. 2009. Clusters of multidrug-resistant Mycobacterium tuberculosis cases, Europe. Emerg. Infect. Dis. 15:1052-1060.
7. Devaux I, Manissero D, Fernandez de la Hoz K, Kremer K, van Soolingen D. 2010. Surveillance of extensively drug-resistant tuberculosis in Europe, 2003-2007. Euro Surveill. 15(11):pii=19518. http://www.eurosurveillance.org/ ViewArticle.aspx?ArticleId=19518.
8. Evans JT, et al. 2004. Automated high-throughput mycobacterial interspersed repetitive unit typing of Mycobacterium tuberculosis strains by a combination of PCR and nondenaturing high-performance liquid chromatography. J. Clin. Microbiol. 42:4175-4180. (Pubitemid 39296142)
9. Fabre M, et al. 2010. Molecular characteristics of "Mycobacterium canettii"the smooth Mycobacterium tuberculosis bacilli. Infect. Genet. Evol. 10:1165-1173.
10. Fabre M, et al. 2004. High genetic diversity revealed by variable-number tandem repeat genotyping and analysis of hsp65 gene polymorphism in a large collection of "Mycobacterium canettii" strains indicates that the M. tuberculosis complex is a recently emerged clone of "M. canettii.". J. Clin. Microbiol. 42:3248-3255. (Pubitemid 38938087)
11. Frothingham R, Meeker-O'Connell WA. 1998. Genetic diversity in the Mycobacterium tuberculosis complex based on variable numbers of tandem DNA repeats. Microbiology 144(Pt 5):1189-1196. (Pubitemid 28233822)
12. Gopaul KK, Brown TJ, Gibson AL, Yates MD, Drobniewski FA. 2006. Progression toward an improved DNA amplification-based typing technique in the study of Mycobacterium tuberculosis epidemiology. J. Clin. Microbiol. 44:2492-2498. (Pubitemid 44092417)
13. Gutierrez MC, et al. 2005. Ancient origin and gene mosaicism of the progenitor of Mycobacterium tuberculosis. PLoS Pathog. 1:e5.
14. Hyytia-Trees E, Lafon P, Vauterin P, Ribot EM. 2010. Multilaboratory validation study of standardized multiple-locus variable-number tandem repeat analysis protocol for Shiga toxin-producing Escherichia coli O157: a novel approach to normalize fragment size data between capillary electrophoresis platforms. Foodborne Pathog. Dis. 7:129-136.
15. Kremer K, et al. 2005. Discriminatory power and reproducibility of novel DNA typing methods for Mycobacterium tuberculosis complex strains. J. Clin. Microbiol. 43:5628-5638. (Pubitemid 41612340)
16. Kremer K, et al. 2005. 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. (Pubitemid 40096317)
17. Kremer K, et al. 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. (Pubitemid 29337287)
18. Kwara A, et al. 2003. Evaluation of the epidemiologic utility of secondary typing methods for differentiation of Mycobacterium tuberculosis isolates. J. Clin. Microbiol. 41:2683-2685. (Pubitemid 36712491)
19. Le Fleche P, Fabre M, Denoeud F, Koeck JL, Vergnaud G. 2002. High resolution, on-line identification of strains from the Mycobacterium tuberculosis complex based on tandem repeat typing. BMC Microbiol. 2:37.
20. Lindstedt BA. 2005. Multiple-locus variable number tandem repeats analysis for genetic fingerprinting of pathogenic bacteria. Electrophoresis 26:2567-2582.
21. Magdalena J, Vachee A, Supply P, Locht C. 1998. Identification of a new DNA region specific for members of Mycobacterium tuberculosis complex. J. Clin. Microbiol. 36:937-943. (Pubitemid 28146272)
22. Mazars E, et al. 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. (Pubitemid 32165595)
23. Murase Y, Mitarai S, Sugawara I, Kato S, Maeda S. 2008. Promising loci of variable numbers of tandem repeats for typing Beijing family Mycobacterium tuberculosis. J. Med. Microbiol. 57:873-880.
24. Savine E, et al. 2002. Stability of variable-number tandem repeats of mycobacterial interspersed repetitive units from 12 loci in serial isolates of Mycobacterium tuberculosis. J. Clin. Microbiol. 40:4561-4566. (Pubitemid 35434947)
25. Skuce RA, et al. 2002. Discrimination of Mycobacterium tuberculosis complex bacteria using novel VNTR-PCR targets. Microbiology 148:519-528. (Pubitemid 34162794)
26. Supply P, et al. 2006. Proposal for standardization of optimized mycobacterial interspersed repetitive unit-variable-number tandem repeat typing of Mycobacterium tuberculosis. J. Clin. Microbiol. 44:4498-4510. (Pubitemid 44937085)
27. Supply P, et al. 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. (Pubitemid 32954502)
28. Supply P, et al. 2000. Variable human minisatellite-like regions in the Mycobacterium tuberculosis genome. Mol. Microbiol. 36:762-771. (Pubitemid 30258858)
29. van Embden JD, et al. 1993. Strain identification of Mycobacterium tuberculosis byDNAfingerprinting: recommendations for a standardized methodology. J. Clin. Microbiol. 31:406-409.
30. van Soolingen D, Arbeit RD. 2001. Dealing with variation in molecular typing of Mycobacterium tuberculosis: low-intensity bands and other challenges. J. Med. Microbiol. 50:749-751. (Pubitemid 32802836)
31. van Soolingen D, et al. 1997. A novel pathogenic taxon of the Mycobacterium tuberculosis complex, Canetti: characterization of an exceptional isolate from Africa. Int. J. Syst. Bacteriol. 47:1236-1245.