Direct identification of mycobacteria from smear-positive sputum samples using an improved multiplex polymerase chain reaction assay

Diagnostic Microbiology and Infectious Disease

Volumn 72, Issue 4, 2012, Pages 340-349

  Chia, Ju Hsin ^a,b   Wu, Tsu Lan ^a,b   Su, Lin Hui ^a,b   Kuo, An Jing ^a,b   Lai, Hsin Chih ^b  

^a CHANG GUNG MEMORIAL HOSPITAL   (Taiwan)

^b CHANG GUNG UNIVERSITY   (Taiwan)

Author keywords

Direct identification; Multiplex PCR assay; Mycobacterium

Indexed keywords

DNA 16S; DNA 23S; EARLY SECRETORY ANTIGENIC TARGET 6; HEAT SHOCK PROTEIN 65; INTERNAL TRANSCRIBED SPACER 1;

ACID FAST BACTERIUM; ARTICLE; BACTERIAL STRAIN; BACTERIUM CULTURE; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; CONTROLLED STUDY; GENE SEQUENCE; MULTIPLEX POLYMERASE CHAIN REACTION; MYCOBACTERIUM AVIUM; MYCOBACTERIUM CHELONEI; MYCOBACTERIUM FORTUITUM; MYCOBACTERIUM GORDONAE; MYCOBACTERIUM KANSASII; MYCOBACTERIUM MARINUM; MYCOBACTERIUM SCROFULACEUM; MYCOBACTERIUM SZULGAI; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PREVALENCE; PRIORITY JOURNAL; PROTEIN TARGETING; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS; SPUTUM ANALYSIS;

ANTIGENS, BACTERIAL; BACTERIAL PROTEINS; BACTERIAL TYPING TECHNIQUES; CHAPERONIN 60; DNA PRIMERS; DNA, BACTERIAL; DNA, RIBOSOMAL SPACER; HUMANS; MULTIPLEX POLYMERASE CHAIN REACTION; MYCOBACTERIUM; MYCOBACTERIUM INFECTIONS; RNA, RIBOSOMAL, 16S; RNA, RIBOSOMAL, 23S; SENSITIVITY AND SPECIFICITY; SPUTUM; TUBERCULOSIS;

EID: 84858342164     PISSN: 07328893     EISSN: 18790070     Source Type: Journal    
DOI: 10.1016/j.diagmicrobio.2011.12.008     Document Type: Article

References (42)

1. Abgueguen P., Rabier V., Mahaza C., Warot A., Chennebault J.M., Pichard E. Mycobacterium malmoense: an underestimated nontuberculous mycobacterium. Diagn. Microbiol. Infect. Dis. 2010, 66:98-100.
2. Bao J.R., Master R.N., Schwab D.A., Clark R.B. Identification of acid-fast bacilli using pyrosequencing analysis. Diagn. Microbiol. Infect. Dis. 2010, 67:234-238.
3. Billinger M.E., Olivier K.N., Viboud C., de Oca R.M., Steiner C., Holland S.M., Prevots D.R. Nontuberculous mycobacteria-associated lung disease in hospitalized persons, United States, 1998-2005. Emerg. Infect. Dis. 2009, 15:1562-1569.
4. Brunello F., Ligozzi M., Cristelli E., Bonora S., Tortoli E., Fontana R. Identification of 54 mycobacterial species by PCR-restriction fragment length polymorphism analysis of the hsp65 gene. J. Clin. Microbiol. 2001, 39:2799-2806.
5. Chimara E., Ferrazoli L., Ueky S.Y., Martins M.C., Durham A.M., Arbeit R.D., Leao S.C. Reliable identification of mycobacterial species by PCR-restriction enzyme analysis (PRA)-hsp65 in a reference laboratory and elaboration of a sequence-based extended algorithm of PRA-hsp65 patterns. BMC Microbiol. 2008, 8:48.
6. Choudhri S., Manfreda J., Wolfe J., Parker S., Long R. Clinical significance of nontuberculous mycobacteria isolates in a Canadian tertiary care center. Clin. Infect. Dis. 1995, 21:128-133.
7. Corbett E.L., Watt C.J., Walker N., Maher D., Williams B.G., Raviglione M.C., Dye C. The growing burden of tuberculosis: global trends and interactions with the HIV epidemic. Arch. Intern. Med. 2003, 163:1009-1021.
8. Dorman S.E. New diagnostic tests for tuberculosis: bench, bedside, and beyond. Clin. Infect. Dis. 2010, 50(Suppl 3):S173-S177.
9. Espy M.J., Uhl J.R., Sloan L.M., Buckwalter S.P., Jones M.F., Vetter E.A., Yao J.D., Wengenack N.L., Rosenblatt J.E., Cockerill F.R., Smith T.F. Real-time PCR in clinical microbiology: applications for routine laboratory testing. Clin Microbiol Rev 2006, 19:165-256.
10. Falkinham J.O. Epidemiology of infection by nontuberculous mycobacteria. Clin. Microbiol. Rev. 1996, 9:177-215.
11. Griffith D.E. Nontuberculous mycobacterial lung disease. Curr. Opin. Infect. Dis. 2010, 23:185-190.
12. Jones D., Havlir D.V. Nontuberculous mycobacteria in the HIV infected patient. Clin. Chest. Med. 2002, 23:665-674.
13. Kent P.T., Kubica G.P. Public health mycobacteriology: a guide for the level III laboratory 1985, Centers for Disease Control, Atlanta, GA, USA.
14. Kim B.J., Park J.H., Lee S.A., Kim H., Cha C.Y., Kook Y.H., Kim E.C., Joo S.I., Lee J.S., Yim J.J. Differentiation of mycobacteria in sputa by duplex polymerase chain reaction for mycobacterial hsp65 gene. Diagn. Microbiol. Infect. Dis. 2008, 62:193-198.
15. Kim H.J., Mun H.S., Kim H., Oh E.J., Ha Y., Bai G.H., Park Y.G., Cha C.Y., Kook Y.H., Kim B.J. Differentiation of mycobacterial species by hsp65 duplex PCR followed by duplex-PCR-based restriction analysis and direct sequencing. J. Clin. Microbiol. 2006, 44:3855-3862.
16. Klemen H., Bogiatzis A., Ghalibafian M., Popper H.H. Multiplex polymerase chain reaction for rapid detection of atypical mycobacteria and Mycobacterium tuberculosis complex. Diagn. Mol. Pathol. 1998, 7:310-316.
17. Koh W.J., Kwon O.J., Jeon K., Kim T.S., Lee K.S., Park Y.K., Bai G.H. Clinical significance of nontuberculous mycobacteria isolated from respiratory specimens in Korea. Chest 2006, 129:341-348.
18. Lim S.Y., Kim B.J., Lee M.K., Kim K. Development of a real-time PCR-based method for rapid differential identification of Mycobacterium species. Lett. Appl. Microbiol. 2008, 46:101-106.
19. Lu C.C., Lai H.C. Current dilemma and developments in the diagnosis of Mycobacterium tuberculosis Infection. J. Formos. Med. Assoc. 2008, 107:353-354.
20. Marras T.K., Daley C.L. Epidemiology of human pulmonary infection with nontuberculous mycobacteria. Clin. Chest. Med. 2002, 23:553-567.
21. Mayo J., Collazos J., Martinez E. Mycobacterium nonchromogenicum bacteremia in an AIDS patient. Emerg. Infect. Dis. 1998, 4:124-125.
22. Mokaddas E., Ahmad S. Development and evaluation of a multiplex PCR for rapid detection and differentiation of Mycobacterium tuberculosis complex members from non-tuberculous mycobacteria. Jpn. J. Infect. Dis. 2007, 60:140-144.
23. Neonakis I.K., Gitti Z., Krambovitis E., Spandidos D.A. Molecular diagnostic tools in mycobacteriology. J. Microbiol. Methods 2008, 75:1-11.
24. Nolte F.S., Metchock B. Mycobacterium. Manual of clinical microbiology, 6th edition 1995, 400-437. American Society for Microbiology, Washington, DC. P.R. Murray, M.A. Pfaller, F.C. Tenover, R.H. Yolken (Eds.).
25. O'Brien D.P., Currie B.J., Krause V.L. Nontuberculous mycobacterial disease in northern Australia: a case series and review of the literature. Clin. Infect. Dis. 2000, 31:958-967.
26. Omar S.V., Roth A., Ismail N.A., Erasmus L., Ehlers M., Kock M., Paulse N., Said H.M., Hoosen A.A., Reischl U. Analytical performance of the Roche LightCycler® mycobacterium detection kit for the diagnosis of clinically important mycobacterial species. PLoS One 2011, 6:e24789.
27. Padilla E., González V., Manterola J.M., Pérez A., Quesada M.D., Gordillo S., Vilaplana C., Pallarés M.A., Molinos S., Sánchez M.D., Ausina V. Comparative evaluation of the new version of the INNO-LiPA mycobacteria and GenoType mycobacterium assays for identification of Mycobacterium Species from MB/BacT liquid cultures artificially inoculated with mycobacterial strains. J. Clin. Microbiol. 2004, 42:3083-3088.
28. Park H., Jang H., Kim C., Chung B., Chang C.L., Park S.K., Song S. Detection and identification of mycobacteria by amplification of the internal transcribed spacer regions with genus- and species-specific PCR primers. J. Clin. Microbiol. 2000, 38:4080-4085.
29. Piersimoni C., Scarparo C. Extrapulmonary infections associated with nontuberculous mycobacteria in immunocompetent persons. Emerg. Infect. Dis. 2009, 15:1351-1358.
30. Pinsky B.A., Banaei N. Multiplex real-time PCR assay for rapid identification of Mycobacterium tuberculosis complex members to the species level. J. Clin. Microbiol. 2008, 46:2241-2246.
31. Relman D.A., Loutit J.S., Schmidt T.M., Falkow S., Tompkins L.S. The agent of bacillary angiomatosis. An approach to the identification of uncultured pathogens. N. Engl. J. Med. 1990, 323:1573-1580.
32. Richardson E.T., Samson D., Banaei N. Rapid Identification of Mycobacterium tuberculosis and nontuberculous mycobacteria by multiplex, real-time PCR. J. Clin. Microbiol. 2009, 47:1497-1502.
33. Sedlacek L., Rifai M., Feldmann K., Bange F.C. LightCycler-based differentiation of Mycobacterium abscessus and Mycobacterium chelonae. J. Clin. Microbiol. 2004, 42:3284-3287.
34. Sexton P., Harrison A.C. Susceptibility to nontuberculous mycobacterial lung disease. Eur. Respir. J. 2008, 31:1322-1333.
35. Soo P.C., Horng Y.T., Chang K.C., Wang J.Y., Hsueh P.R., Chuang C.Y., Lu C.C., Lai H.C. A simple gold nanoparticle probes assay for identification of Mycobacterium tuberculosis and Mycobacterium tuberculosis complex from clinical specimens. Mol. Cell. Probes. 2009, 23:240-246.
36. Soo P.C., Horng Y.T., Hsueh P.R., Shen B.J., Wang J.Y., Tu H.H., Wei J.R., Hsieh S.C., Huang C.C., Lai H.C. Direct and simultaneous identification of Mycobacterium tuberculosis complex (MTBC) and Mycobacterium tuberculosis (MTB) by rapid multiplex nested PCR-ICT assay. J. Microbiol. Methods 2006, 66:440-448.
37. Springer B., Stockman L., Teschner K., Roberts G.D., Bottger E.C. Two-laboratory collaborative study on identification of mycobacteria: molecular versus phenotypic methods. J. Clin. Microbiol. 1996, 34:296-303.
38. Stinear T.P., Jenkin G.A., Johnson P.D., Davies J.K. Comparative genetic analysis of Mycobacterium ulcerans and Mycobacterium marinum reveals evidence of recent divergence. J. Bacteriol. 2000, 182:6322-6330.
39. Thomsen V.O., Andersen A.B., Miorner H. Incidence and clinical significance of non-tuberculous mycobacteria isolated from clinical specimens during a 2-y nationwide survey. Scand. J. Infect. Dis. 2002, 34:648-653.
40. Tortoli E. Clinical manifestations of nontuberculous mycobacteria infections. Clin. Microbiol. Infect. 2009, 15:906-910.
41. Wu T.L., Chia J.H., Kuo A.J., Su L.H., Wu T.S., Lai H.C. Rapid identification of mycobacteria from smear-positive sputum samples by nested PCR-restriction fragment length polymorphism analysis. J. Clin. Microbiol. 2008, 46:3591-3594.
42. Zhu L., Jiang G., Wang S., Wang C., Li Q., Yu H., Zhou Y., Zhao B., Huang H., Xing W., Mitchelson K., Cheng J., Zhao Y., Guo Y. Biochip system for rapid and accurate identification of mycobacterial species from isolates and sputum. J. Clin. Microbiol. 2010, 48:3654-3660.