A dual molecular beacon approach for fast detection of Mycobacterium tuberculosis
- 342 Downloads
- 1 Citations
Abstract
The main objectives of this study were to assess a dual molecular beacon approach for fast detection of Mycobacterium tuberculosis (MT). MT beacon (Tb-B) was designed to target the unique IS6110 (114 bp) and rpoB (215 bp) fragment of the MT (H37Ra) genome, and the two fragments were inserted into the PMD-19T vector after purification, by PCR and sequencing, to construct plasmids. Different dilutions of positive plasmid standards were used for dual molecular beacon RT-PCR of rpoB and IS6110, and standard curves were established.The results show that the dual molecular beacon of rpoB and IS6110 detecting MT was stable (CV is 1.91–2.68 %) with a high amplification efficiency (95.6 %). In addition, the strains of non MT did not generate fluorescence signals, while strains of MT did, indicating that the primers and molecular beacons were specific, and only MT complex was amplified. The linear range was wide (103–1011 copies/mL), and clinical specimens presenting different bacterial counts can be detected.
Keywords
Mycobacterium tuberculosis Molecular beacons Fluorescence quantitative PCR IS6110 rpoBAbbreviations
- MT
Mycobacterium tuberculosis
- MTC
Mycobacterium tuberculosis complex
- SD
Standard deviation
- CV
Coefficient of variation
Notes
Acknowledgments
This work was supported by grants from the Science Research Foundation of Health Ministry - Fujian Health Education Jointly Project, No. WKJ 2005-2-007.
References
- 1.Coros A, DeConno E, Derbyshire KM (2008) IS6110, a Mycobacterium tuberculosis complex-specific insertion sequence, is also present in the genome of Mycobacterium smegmatis, suggestive of lateral gene transfer among Mycobacterial species. J Bacteriol 190:3408–3410PubMedCrossRefGoogle Scholar
- 2.Das S, Paramasivan CN, Lowrie DB, Prabhakar R, Narayanan PR (1995) IS6110 restriction fragment length polymorphism typing of clinical isolates of Mycobacterium tuberculosis from patients with pulmonary tuberculosis in Madras. South India. J Tuberc Lung Dis 76:550–554CrossRefGoogle Scholar
- 3.Mollet C, Drancourt M, Raoult D (1997) rpoB sequence analysis as a novel basis for bacterial identification. J Mol Microbiol 26:1005–1011CrossRefGoogle Scholar
- 4.Boehme CC, Nabeta P, Hillemann D, Nicol MP, Shenai S, Krapp F, Allen J, Tahirli R, Blakemore R, Rustomjee R, Milovic A, Jones M, O’Brien SM, Persing DH, Ruesch-Gerdes S, Gotuzzo E, Rodrigues C, Alland D, Perkins MD (2010) Rapid molecular detection of tuberculosis and rifampin resistance. N Engl J Med 16:271–284Google Scholar
- 5.Hetherington SV, Watson AS, Patrick CC (1995) Sequence and analysis of the rpoB gene of Mycobacterium smegmatis. Antimicrob J Agents Chemother 39:2164–2166CrossRefGoogle Scholar
- 6.Honore NT, Bergh S, Chanteau S, Doucet-Populaire F, Eiglmeier K, Garnier T, Georges C, Launois P, Limpaiboon T, Newton S, Niang K, Del Portillo P, Ramesh GR, Reddi P, Ridel PR, Sittisombut N, Wu-Hunter S, Cole ST (1993) Nucleotide sequence of the first cosmid from the Mycobacterium leprae genome project: structure and function of the Rif-Strregions. J Mol Microbiol 7:207–214CrossRefGoogle Scholar
- 7.Thierry D, Brisson-noel A, Vincent-levy-frebault V, Nguyen S, Guesdon J-L, Brigitte Gicquel (1990) Characterization of a Mycobacterium tuberculosis insertion sequence, IS6110, and its application in diagnosis. J Clin Microbiol 28:2668–2673PubMedGoogle Scholar
- 8.Zucol F, Ammann RA, Berger C, Aebi C, Altwegg M, Niggli FK, Nadal D (2006) Real-time quantitative broad-range PCR assay for detection of the 16S rRNA gene followed by sequencing for species identification. J Clin Microbiol 44:2750–2759PubMedCrossRefGoogle Scholar
- 9.Goyal M, Saunders NA, Van Embden JDA, Yonung DB, Shaw RJ (1997) Differentiation of Mycobacterium tuberculosis isolates by spoligotyping and IS6110 restriction fragment length polymorphism. J Clin Microbiol 35:647–651PubMedGoogle Scholar
- 10.Lomtadze N, Aspindzelashvili R, Janjgava M, Mirtskhulava V, Wright A, Blumberg HM, Salakaia A (2009) Prevalence and risk factors for multidrug-resistant tuberculosis in Republic of Georgia: a population based study. Int J Tuberc Lung Dis 13:68–73PubMedGoogle Scholar
- 11.Pant R, Pandey KR, Joshi M, Sharma S, Pandey T, Pandey S (2009) Risk factor assessment of multidrug-resistant tuberculosis. J Nepal Health Res Counc 7:89–92Google Scholar
- 12.Kim B-J, Lee K-H, Park B-N, Kim S-J, Park E-M, Park Y-G, Bai G-H, Kim S-J, Kook Y-H (2001) Detection of rifampin-resistant Mycobacterium tuberculosis in sputa by nested PCR-linked single-strand conformation polymorphism and DNA sequencing. J Clin Microbiol 39:2610–2617PubMedCrossRefGoogle Scholar
- 13.Faustini A, Hall AJ, Perucci CA (2006) Risk factors for multidrug resistant tuberculosis in Europe: a systematic review. Thorax 61:158–163PubMedCrossRefGoogle Scholar
- 14.Ahmad S, Mokaddas E (2005) The occurrence of rare rpoB mutations in rifampicin-resistant clinical Mycobacterium tuberculosis isolates from Kuwait. Int J Antimicrob Agents 26:205–212PubMedCrossRefGoogle Scholar
- 15.Hillemann D, Weizenegger M, Kubica T, Richter E, Niemann S (2005) Use of the genotype MTBDR assay for rapid detection of rifampin and Isoniazid resistance in Mycobacterium tuberculosis complex isolates. J Clin Microbiol 43:3699–3703PubMedCrossRefGoogle Scholar
- 16.Warren RM, van Gey Pittius NC, Barnard M, Hesseling A, Engelke E, de Kock M, Gutierrez MC, Chege GK, Victor TC, Hoal EG, van Helden PD (2006) Differentiation of Mycobacterium tuberculosis complex by PCR amplification of genomic regions of difference. Int J Tuberc Lung Dis 10:818–822PubMedGoogle Scholar
- 17.Takahashi T, Nakayama T (2006) Novel technique of quantitative nested real-time PCR assay for Mycobacterium tuberculosis DNA. J Clin Microbiol 44:1029–1039PubMedCrossRefGoogle Scholar
- 18.Silver RF, Walrath J, Lee H, Jacobson BA, Horton H, Bowman MR, Nocka K, Sypek JP (2009) Human alveolar macrophage gene responses to Mycobacterium tuberculosis strains H37Ra and H37Rv. Am J Respir Cell Mol Biol 40:491–504PubMedCrossRefGoogle Scholar
- 19.Thomas RI, Yicheng F, Krishna G, Xiaohua C, Karen MD, Sarah F, William RJ Jr, Valerie M, Tanya P, Eric R, Chris S, James CS (2010) Variation among genome sequences of H37Rv Strains of Mycobacterium tuberculosis from multiple laboratories. J Bacteriol 192:3645–3653CrossRefGoogle Scholar
- 20.Jong SL, Roland K, Jörg S, Hans-Joachim M, Jane K, Robert S, Bo-Young J, Jeong-Yeon K, Min-Kyong S, Juan PP, Sabine J, Kyoungmin R, Sang-Nae C, Stefan HEK (2008) Mutation in the transcriptional regulator PhoP contributes to avirulence of Mycobacterium tuberculosis H37Ra strain. Cell Host Microbe 3:97–103CrossRefGoogle Scholar
- 21.McEvoy CRE, Falmer AA, van Gey Pittius NC, Victor TC, van Helden PD, Warren RM (2007) The role of IS6110 in the evolution of Mycobacterium tuberculosis. Tuberculosis 87:393–404PubMedCrossRefGoogle Scholar
- 22.Peter-Getzlaff S, Lüthy J, Böddinghaus B, Böttger EC, Springe B (2008) Development and evaluation of a molecular assay for detection of nontuberculous mycobacteria by use of the cobas amplicor platform. J Clin Microbiol 46:4023–4028PubMedCrossRefGoogle Scholar
- 23.Teruyuki T, Masato T, Yukihiro A, Eiko K, Kosuke S, Tsukasa S, Sachiko NT, Koichi M, Shigemasa S, Eise Y, Toshiaki T (2008) Novel wide-range quantitative nested real-time PCR assay for Mycobacterium tuberculosis DNA: development and methodology. J Clin Microbiol 46:1708–1715CrossRefGoogle Scholar