Molecular diagnostics in tuberculosis: Basis and implications for therapy

Molecular Diagnosis and Therapy

Volumn 13, Issue 3, 2009, Pages 137-151

  Balasingham, Seetha V ^b   Davidsen, Tonje ^b   Szpinda, Irena ^b   Frye, Stephan A ^b   Tønjum, Tone ^a  

^a OSLO UNIVERSITY HOSPITAL   (Norway)

^b NONE

Author keywords

[No Author keywords available]

Indexed keywords

AMIKACIN; BACTERIAL DNA; BACTERIAL RNA; CAPREOMYCIN; CIPROFLOXACIN; CYCLOSERINE; ETHAMBUTOL; ETHIONAMIDE; ISONIAZID; KANAMYCIN; PYRAZINAMIDE; QUINOLINE DERIVED ANTIINFECTIVE AGENT; RIFABUTIN; RIFAMPICIN; RIFAPENTINE; RNA 16S; STREPTOMYCIN;

BACTERIUM CULTURE; BACTERIUM DETECTION; BACTERIUM IDENTIFICATION; CLINICAL LABORATORY; CLINICAL PRACTICE; DNA DETERMINATION; DNA REPAIR; FOLLOW UP; GENE AMPLIFICATION; GENE MUTATION; GENOMIC INSTABILITY; HOST PATHOGEN INTERACTION; HOST SUSCEPTIBILITY; HUMAN; INFECTION CONTROL; LIGASE CHAIN REACTION; MULTIDRUG RESISTANCE; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; NUCLEIC ACID ANALYSIS; POLYMERASE CHAIN REACTION; PRACTICE GUIDELINE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; REVIEW; RNA ANALYSIS; RNA GENE; SPECIES IDENTIFICATION; STRAIN DIFFERENCE; TUBERCULOSIS;

ANIMALS; EPIDEMIOLOGY, MOLECULAR; GENOMIC INSTABILITY; HUMANS; MICROBIAL SENSITIVITY TESTS; MOLECULAR DIAGNOSTIC TECHNIQUES; MYCOBACTERIUM TUBERCULOSIS; TUBERCULOSIS;

CORYNEBACTERINEAE; MYCOBACTERIUM TUBERCULOSIS;

EID: 68549112871     PISSN: 11771062     EISSN: 11792000     Source Type: Journal    
DOI: 10.2165/01250444-200913030-00001     Document Type: Review

References (122)

1. Bifani PJ, Mathema B, Kurepina NE, et al. Global dissemination of the Mycobacterium tuberculosis W-Beijing family strains. Trends Microbiol 2002 Jan; 10 (1): 45-52 (Pubitemid 34075264)
2. Glynn JR, Whiteley J, Bifani PJ, et al. Worldwide occurrence of Beijing/W strains of Mycobacterium tuberculosis: a systematic review. Emerg Infect Dis 2002 Aug; 8 (8): 843-849 (Pubitemid 34940527)
3. Frieden TR, Sterling TR, Munsiff SS, et al. Tuberculosis. Lancet 2003 Sep 13; 362 (9387): 887-899
4. Woods GL. Molecular techniques in mycobacterial detection. Arch Pathol Lab Med 2001 Jan; 125 (1): 122-126
5. American Thoracic Society Workshop. Rapid diagnostic tests for tuberculosis: what is the appropriate use? Am J Respir Crit Care Med 1997 May; 155 (5): 1804-1814
6. Hanscheid T, Monteiro C, Cristino JM, et al. Growth of Mycobacterium tuberculosis in conventional BacT/ALERT FA blood culture bottles allows reliable diagnosis of Mycobacteremia. J Clin Microbiol 2005 Feb; 43 (2): 890-891 (Pubitemid 40256051)
7. Diraa O, Fdany K, Boudouma M, et al. Assessment of the Mycobacteria Growth Indicator Tube for the bacteriological diagnosis of tuberculosis. Int J Tuberc Lung Dis 2003 Oct; 7 (10): 1010-1012 (Pubitemid 37237066)
8. Tortoli E, Benedetti M, Fontanelli A, et al. Evaluation of automated BACTEC MGIT 960 system for testing susceptibility of Mycobacterium tuberculosis to four major antituberculous drugs: comparison with the radiometric BACTEC 460TB method and the agar plate method of proportion. J Clin Microbiol 2002 Feb; 40 (2): 607-610 (Pubitemid 34130888)
9. Cormican MG, Glennon M, Riain UN, et al. Evaluation of a PCR assay for detection of Mycobacterium tuberculosis in clinical specimens. Diagn Microbiol Infect Dis 1995 Aug; 22 (4): 357-360
10. Gamboa F, Fernandez G, Padilla E, et al. Comparative evaluation of initial and new versions of the Gen-Probe Amplified Mycobacterium Tuberculosis Direct Test for direct detection of Mycobacterium tuberculosis in respiratory and nonrespiratory specimens. J Clin Microbiol 1998 Mar; 36 (3): 684-689 (Pubitemid 28093250)
11. Reischl U, Lehn N, Wolf H, et al. Clinical evaluation of the automated COBAS AMPLICORMTBassay for testing respiratory and nonrespiratory specimens. J Clin Microbiol 1998 Oct; 36 (10): 2853-2860 (Pubitemid 28429403)
12. Bogard M, Vincelette J, Antinozzi R, et al. Multicenter study of a commercial, automated polymerase chain reaction system for the rapid detection of Mycobacterium tuberculosis in respiratory specimens in routine clinical practice. Eur J Clin Microbiol Infect Dis 2001 Oct; 20 (10): 724-731 (Pubitemid 33020783)
13. Levidiotou S, Vrioni G, Galanakis E, et al. Four-year experience of use of the Cobas Amplicor system for rapid detection of Mycobacterium tuberculosis complex in respiratory and nonrespiratory specimens in Greece. Eur J Clin Microbiol Infect Dis 2003 Jun; 22 (6): 349-356 (Pubitemid 36836621)
14. Fegou E, Jelastopulu E, Sevdali M, et al. Sensitivity of the Cobas Amplicor system for detection of Mycobacterium tuberculosis in respiratory and extrapulmonary specimens. Clin Microbiol Infect 2005 Jul; 11 (7): 593-596 (Pubitemid 40895165)
15. Burggraf S, ReischlU,Malik N, et al. Comparison of an internally controlled, large-volume LightCycler assay for detection of Mycobacterium tuberculosis in clinical samples with the COBAS AMPLICOR assay. J Clin Microbiol 2005 Apr; 43 (4): 1564-1569 (Pubitemid 40491189)
16. Toønjum T, Klintz L, Bergan T, et al. Direct detection of Mycobacterium tuberculosis in respiratory samples from patients in Scandinavia by polymerase chain reaction. Clin Microbiol Infect 1996; 2 (2): 127-131 (Pubitemid 126682686)
17. Boehme CC, Nabeta P, Henostroza G, et al. Operational feasibility of using loop-mediated isothermal amplification for diagnosis of pulmonary tuberculosis in microscopy centers of developing countries. J Clin Microbiol 2007 Jun; 45 (6): 1936-1940 (Pubitemid 46933929)
18. Lindbråthen A, Gaustad P, Hovig B, et al. Direct detection of Mycobacterium tuberculosis complex in clinical samples from patients in Norway by ligase chain reaction. J Clin Microbiol 1997 Dec; 35 (12): 3248-3253 (Pubitemid 27505753)
19. Wang SX, Tay L. Evaluation of three nucleic acid amplification methods for direct detection of Mycobacterium tuberculosis complex in respiratory specimens. J Clin Microbiol 1999 Jun; 37 (6): 1932-1934 (Pubitemid 29235248)
20. Gomez-Pastrana D, Torronteras R, Caro P, et al. Comparison of amplicor, in-house polymerase chain reaction, and conventional culture for the diagnosis of tuberculosis in children. Clin Infect Dis 2001 Jan; 32 (1): 17-22 (Pubitemid 32150945)
21. An Q, Buxton D, Hendricks A, et al. Comparison of amplified Q beta replicase and PCR assays for detection of Mycobacterium tuberculosis. J Clin Microbiol 1995 Apr; 33 (4): 860-867
22. Walker GT, Nadeau JG, Spears PA, et al. Multiplex strand displacement amplification (SDA) and detection of DNA sequences from Mycobacterium tuberculosis and other mycobacteria. Nucleic Acids Res 1994 Jul 11; 22 (13): 2670-2677
23. Kang EY, Choi JA, Seo BK, et al. Utility of polymerase chain reaction for detecting Mycobacterium tuberculosis in specimens from percutaneous transthoracic needle aspiration. Radiology 2002 Oct; 225 (1): 205-209
24. Kidane D, Olobo JO, Habte A, et al. Identification of the causative organism of tuberculous lymphadenitis in Ethiopia by PCR. J Clin Microbiol 2002 Nov; 40 (11): 4230-4234 (Pubitemid 35285818)
25. Eisenach KD, Cave MD, Bates JH, et al. Polymerase chain reaction amplification of a repetitive DNA sequence specific for Mycobacterium tuberculosis. J Infect Dis 1990 May; 161 (5): 977-981 (Pubitemid 20148335)
26. Sjoøbring U, Mecklenburg M, Andersen AB, et al. Polymerase chain reaction for detection of Mycobacterium tuberculosis. J Clin Microbiol 1990 Oct; 28 (10): 2200-2204 (Pubitemid 20299107)
27. Böddinghaus B, Rogall T, Flohr T, et al. Detection and identification of mycobacteria by amplification of rRNA. J Clin Microbiol 1990 Aug; 28 (8): 1751-1759 (Pubitemid 20234409)
28. Soini H, Skurnik M, Liippo K, et al. Detection and identification of mycobacteria by amplification of a segment of the gene coding for the 32- kilodalton protein. J Clin Microbiol 1992 Aug; 30 (8): 2025-2028
29. Jonas V, Alden MJ, Curry JI, et al. Detection and identification of Mycobacterium tuberculosis directly from sputum sediments by amplification of rRNA. J Clin Microbiol 1993 Sep; 31 (9): 2410-2416 (Pubitemid 23254210)
30. Andersen AB, Hansen EB. Structure and mapping of antigenic domains of protein antigen b, a 38,000-molecular-weight protein of Mycobacterium tuberculosis. Infect Immun 1989 Aug; 57 (8): 2481-2488
31. Ausina V, Gamboa F, Gazapo E, et al. Evaluation of the semiautomated Abbott LCx Mycobacterium tuberculosis assay for direct detection of Mycobacterium tuberculosis in respiratory specimens. J Clin Microbiol 1997 Aug; 35 (8): 1996-2002 (Pubitemid 27318692)
32. Toønjum T, Welty DB, Jantzen E, et al. Differentiation of Mycobacterium ulcerans, M. marinum, and M. haemophilum: mapping of their relationships to M. tuberculosis by fatty acid profile analysis, DNA-DNA hybridization, and 16S rRNA gene sequence analysis. J Clin Microbiol 1998 Apr; 36 (4): 918-925 (Pubitemid 28146269)
33. Yuen KY, Yam WC, Wong LP, et al. Comparison of two automated DNA amplification systems with a manual one-tube nested PCR assay for diagnosis of pulmonary tuberculosis. J Clin Microbiol 1997 Jun; 35 (6): 1385-1389
34. Bruijnesteijn Van Coppenraet ES, Lindeboom JA, Prins JM, et al. Real-time PCR assay using fine-needle aspirates and tissue biopsy specimens for rapid diagnosis of mycobacterial lymphadenitis in children. J Clin Microbiol 2004 Jun; 42 (6): 2644-2650
35. Querol JM, Minguez J, Garcia-Sanchez E, et al. Rapid diagnosis of pleural tuberculosis by polymerase chain reaction. Am J Respir Crit Care Med 1995 Dec; 152 (6 Pt 1): 1977-1981
36. Mitarai S, Shishido H, Kurashima A, et al. Comparative study of amplicor Mycobacterium PCR and conventional methods for the diagnosis of pleuritis caused by mycobacterial infection. Int J Tuberc LungDis 2000 Sep; 4 (9): 871-876 (Pubitemid 30692754)
37. Villegas MV, Labrada LA, Saravia NG. Evaluation of polymerase chain reaction, adenosine deaminase, and interferon-gamma in pleural fluid for the differential diagnosis of pleural tuberculosis. Chest 2000 Nov; 118 (5): 1355-1364
38. Nagesh BS, Sehgal S, Jindal SK, et al. Evaluation of polymerase chain reaction for detection of Mycobacterium tuberculosis in pleural fluid. Chest 2001 Jun; 119 (6): 1737-1741 (Pubitemid 32744930)
39. Pai M, Flores LL, Hubbard A, et al. Nucleic acid amplification tests in the diagnosis of tuberculous pleuritis: a systematic review and meta-analysis. BMC Infect Dis 2004 Feb 23; 4 (6): 6 (Pubitemid 38671474)
40. Hasaneen NA, Zaki ME, Shalaby HM, et al. Polymerase chain reaction of pleural biopsy is a rapid and sensitive method for the diagnosis of tuberculous pleural effusion. Chest 2003 Dec; 124 (6): 2105-2111
41. Campos M, Quartin A, Mendes E, et al. Feasibility of shortening respiratory isolation with a single sputum nucleic acid amplification test. Am J Respir Crit Care Med 2008 Aug 1; 178 (3): 300-305
42. Lang AM, Feris-Iglesias J, Pena C, et al. Clinical evaluation of the Gen- Probe Amplified Direct Test for detection of Mycobacterium tuberculosis complex organisms in cerebrospinal fluid. J Clin Microbiol 1998 Aug; 36 (8): 2191-2194 (Pubitemid 28324064)
43. Jonsson B, Ridell M. The Cobas Amplicor MTB test for detection of Mycobacterium tuberculosis complex from respiratory and non-respiratory clinical specimens. Scand J Infect Dis 2003; 35 (6-7): 372-377 (Pubitemid 37038629)
44. Pai M, Flores LL, Pai N, et al. Diagnostic accuracy of nucleic acid amplification tests for tuberculous meningitis: a systematic review and metaanalysis. Lancet Infect Dis 2003 Oct; 3 (10): 633-643 (Pubitemid 37210227)
45. Desai MM, Pal RB. Polymerase chain reaction for the rapid diagnosis of tuberculous meningitis. Indian J Med Sci 2002 Nov; 56 (11): 546-552 (Pubitemid 39655350)
46. Diaz ML, Herrera T, Lopez-Vidal Y, et al. Polymerase chain reaction for the detection of Mycobacterium tuberculosis DNA in tissue and assessment of its utility in the diagnosis of hepatic granulomas. J Lab Clin Med 1996 Apr; 127 (4): 359-363 (Pubitemid 126657318)
47. Alcantara-Payawal DE, Matsumura M, Shiratori Y, et al. Direct detection of Mycobacterium tuberculosis using polymerase chain reaction assay among patients with hepatic granuloma. J Hepatol 1997 Oct; 27 (4): 620-627 (Pubitemid 27448745)
48. Moussa OM, Eraky I, El-Far MA, et al. Rapid diagnosis of genitourinary tuberculosis by polymerase chain reaction and non-radioactive DNA hybridization. J Urol 2000 Aug; 164 (2): 584-588 (Pubitemid 30481988)
49. Kafwabulula M, Ahmed K, Nagatake T, et al. Evaluation of PCR-based methods for the diagnosis of tuberculosis by identification of mycobacterial DNA in urine samples. Int J Tuberc Lung Dis 2002 Aug; 6 (8): 732-737 (Pubitemid 34832155)
50. Arora SK, Kumar B, Sehgal S. Development of a polymerase chain reaction dot-blotting system for detecting cutaneous tuberculosis. Br JDermatol 2000 Jan; 142 (1): 72-76 (Pubitemid 30074473)
51. Quiros E, Bettinardi A, Quiros A, et al. Detection of mycobacterial DNA in papulonecrotic tuberculid lesions by polymerase chain reaction. J Clin Lab Anal 2000; 14 (4): 133-135 (Pubitemid 30480175)
52. Schluger NW, Condos R, Lewis S, et al. Amplification of DNA of Mycobacterium tuberculosis from peripheral blood of patients with pulmonary tuberculosis. Lancet 1994 Jul 23; 344 (8917): 232-233 (Pubitemid 24229011)
53. Folgueira L, DelgadoR, Palenque E, et al. Rapid diagnosis of Mycobacterium tuberculosis bacteremia by PCR. J Clin Microbiol 1996 Mar; 34 (3): 512-515 (Pubitemid 26065765)
54. Honore S, Vincensini JP, Hocqueloux L, et al. Diagnostic value of a nested polymerase chain reaction assay on peripheral bloodmononuclear cells from patients with pulmonary and extra-pulmonary tuberculosis. Int J Tuberc Lung Dis 2001 Aug; 5 (8): 754-762 (Pubitemid 32720560)
55. Lombard EH, Victor T, Jordaan A, et al. The detection of Mycobacterium tuberculosis in bone marrow aspirate using the polymerase chain reaction [published erratum appears in Tuber Lung Dis 1995 Oct; 76 (5): 471]. Tuber Lung Dis 1994 Feb; 75 (1): 65-69
56. Akcan Y, Tuncer S, Hayran M, et al. PCR on disseminated tuberculosis in bone marrow and liver biopsy specimens: correlation to histopathological and clinical diagnosis. Scand J Infect Dis 1997; 29 (3): 271-274 (Pubitemid 27358952)
57. Sumi MG, Mathai A, Sheela R, et al. Diagnostic utility of polymerase chain reaction and immunohistochemical techniques for the laboratory diagnosis of intracranial tuberculoma. Clin Neuropathol 2001 Jul-Aug; 20 (4): 176-180 (Pubitemid 32642851)
58. Park DY, Kim JY, Choi KU, et al. Comparison of polymerase chain reaction with histopathologic features for diagnosis of tuberculosis in formalin-fixed, paraffin-embedded histologic specimens. Arch Pathol Lab Med 2003 Mar; 127 (3): 326-330
59. Cohen RA, Muzaffar S, Schwartz D, et al. Diagnosis of pulmonary tuberculosis using PCR assays on sputum collected within 24 hours of hospital admission. Am J Respir Crit Care Med 1998 Jan; 157 (1): 156-161 (Pubitemid 28071277)
60. Catanzaro A, Perry S, Clarridge JE, et al. The role of clinical suspicion in evaluating a new diagnostic test for active tuberculosis: results of a multicenter prospective trial. JAMA 2000 Feb 2; 283 (5): 639-645 (Pubitemid 30069180)
61. Huang TS, Liu YC, Lin HH, et al. Comparison of the Roche Amplicor Mycobacterium assay and Digene SHARP Signal System with in-house PCR and culture for detection of Mycobacterium tuberculosis in respiratory specimens. J Clin Microbiol 1996 Dec; 34 (12): 3092-3096
62. Pfyffer GE, Kissling P, Jahn EM, et al. Diagnostic performance of amplified Mycobacterium tuberculosis direct test with cerebrospinal fluid, other nonrespiratory, and respiratory specimens. J Clin Microbiol 1996 Apr; 34 (4): 834-841 (Pubitemid 26091492)
63. Forbes BA, Hicks KE. Direct detection of Mycobacterium tuberculosis in respiratory specimens in a clinical laboratory by polymerase chain reaction. J Clin Microbiol 1993 Jul; 31 (7): 1688-1694 (Pubitemid 23182559)
64. Grzybowski S, Barnett GD, Styblo K. Contacts of cases of active pulmonary tuberculosis. Bull Int Union Tuberc 1975; 50 (1): 90-106
65. Loudon RG, Williamson J, Johnson JM. An analysis of 3,485 tuberculosis contacts in the city of Edinburgh during 1954-1955. Am Rev Tuberc 1958 Apr; 77 (4): 623-643
66. Almeida LM, Barbieri MA, Da Paixao AC, et al. Use of purified protein derivative to assess the risk of infection in children in close contact with adults with tuberculosis in a population with high Calmette-Guerin bacillus coverage. Pediatr Infect Dis J 2001 Nov; 20 (11): 1061-1065
67. Lienhardt C, Fielding K, Sillah J, et al. Risk factors for tuberculosis infection in sub-Saharan Africa: a contact study in The Gambia. Am J Respir Crit Care Med 2003 Aug 15; 168 (4): 448-455 (Pubitemid 37046874)
68. Ussery XT, Valway SE, McKenna M, et al. Epidemiology of tuberculosis among children in the United States: 1985 to 1994. Pediatr Infect Dis J 1996 Aug; 15 (8): 697-704
69. Van Zwanenberg D. The influence of the number of bacilli on the development of tuberculous disease in children. Am Rev Respir Dis 1960 Jul; 82: 31-44
70. Kim JH, Langston AA, Gallis HA. Miliary tuberculosis: epidemiology, clinical manifestations, diagnosis, and outcome. Rev Infect Dis 1990 Jul- Aug; 12 (4): 583-590
71. Hussey G, Chisholm T, Kibel M. Miliary tuberculosis in children: a review of 94 cases. Pediatr Infect Dis J 1991 Nov; 10 (11): 832-836
72. Kumar D,Watson JM, Charlett A, et al. Tuberculosis in England and Wales in 1993: results of a national survey. Public Health Laboratory Service/ British Thoracic Society/Department of Health Collaborative Group. Thorax 1997 Dec; 52 (12): 1060-1067
73. Farinha NJ, Razali KA, Holzel H, et al. Tuberculosis of the central nervous system in children: a 20-year survey. J Infect 2000 Jul; 41 (1): 61-68 (Pubitemid 30649008)
74. Abadco DL, Steiner P. Gastric lavage is better than bronchoalveolar lavage for isolation of Mycobacterium tuberculosis in childhood pulmonary tuberculosis. Pediatr Infect Dis J 1992 Sep; 11 (9): 735-738
75. Somu N, Swaminathan S, Paramasivan CN, et al. Value of bronchoalveolar lavage and gastric lavage in the diagnosis of pulmonary tuberculosis in children. Tuber Lung Dis 1995 Aug; 76 (4): 295-299
76. Starke JR. Tuberculosis in children. Semin Respir Crit Care Med 2004 Jun; 25 (3): 353-364
77. Behr MA, Wilson MA, Gill WP, et al. Comparative genomics of BCG vaccines by whole-genome DNA microarray. Science 1999 May 28; 284 (5419): 1520-1523 (Pubitemid 129524431)
78. Lalvani A,Nagvenkar P, Udwadia Z, et al. Enumeration of T cells specific for RD1-encoded antigens suggests a high prevalence of latent Mycobacterium tuberculosis infection in healthy urban Indians. J Infect Dis 2001 Feb 1; 183 (3): 469-477 (Pubitemid 32105605)
79. Kimerling ME, Barker JT, Bruce F, et al. Preventable childhood tuberculosis in Alabama: implications and opportunity. Pediatrics 2000 Apr; 105 (4): E53
80. van derWeert EM, Hartgers NM, Schaaf HS, et al. Comparison of diagnostic criteria of tuberculous meningitis in human immunodeficiency virus-infected and uninfected children. Pediatr Infect Dis J 2006 Jan; 25 (1): 65-69
81. Pfyffer GE, Brown-Elliott BA, Wallace Jr RJ. Mycobacterium: general characteristics, isolation, and staining procedures. In: Murray PR, Baron EJ, Jorgensen JH, et al., editors. Manual of clinical microbiology. 8th ed. Washington, DC: ASM Press, 2003: 532-559
82. Griffith DE, Aksamit T, Brown-Elliott BA, et al. An official ATS/IDSA statement: diagnosis, treatment, and prevention of nontuberculous mycobacterial diseases. Am J Respir Crit Care Med 2007 Feb 15; 175 (4): 367-416
83. Glassroth J. Pulmonary disease due to nontuberculous mycobacteria. Chest 2008 Jan; 133 (1): 243-251
84. Koh WJ, Kwon OJ, Lee KS. Nontuberculous mycobacterial pulmonary diseases in immunocompetent patients. Korean J Radiol 2002 Jul-Sep; 3 (3): 145-157
85. Stout JE. Evaluation and management of patients with pulmonary nontuberculousmycobacterial infections. Expert RevAnti Infect Ther 2006 Dec; 4 (6): 981-993
86. Nolt D,Michaels MG, Wald ER. Intrathoracic disease from nontuberculous mycobacteria in children: two cases and a review of the literature. Pediatrics 2003 Nov; 112 (5): e434
87. Esther Jr CR, Henry MM, Molina PL, et al. Nontuberculous mycobacterial infection in young children with cystic fibrosis. Pediatr Pulmonol 2005 Jul; 40 (1): 39-44
88. Cheng VC, Yew WW, Yuen KY. Molecular diagnostics in tuberculosis. Eur J Clin Microbiol Infect Dis 2005 Nov; 24 (11): 711-720
89. Wade MM, Zhang Y. Mechanisms of drug resistance in Mycobacterium tuberculosis. Front Biosci 2004 Jan 1; 9: 975-994 (Pubitemid 39043767)
90. Kim BJ, Lee KH, Park BN, et al. Detection of rifampin-resistant Mycobacterium tuberculosis in sputa by nested PCR-linked single-strand conformation polymorphism and DNA sequencing. J Clin Microbiol 2001 Jul; 39 (7): 2610-2617
91. Nash KA, Gaytan A, Inderlied CB. Detection of rifampin resistance in Mycobacterium tuberculosis by use of a rapid, simple, and specific RNA/RNA mismatch assay. J Infect Dis 1997 Aug; 176 (2): 533-536 (Pubitemid 27328783)
92. Piana A, Orru M, Masia MD, et al. Detection of isoniazid and rifampin resistance in Mycobacterium tuberculosis strains by single-strand conformation polymorphism analysis and restriction fragment length polymorphism. New Microbiol 2003 Oct; 26 (4): 375-381 (Pubitemid 40081727)
93. Yue J, Shi W, Xie J, et al. Detection of rifampin-resistant Mycobacterium tuberculosis strains by using a specialized oligonucleotide microarray. Diagn Microbiol Infect Dis 2004 Jan; 48 (1): 47-54 (Pubitemid 38167499)
94. Watterson SA, Wilson SM, Yates MD, et al. Comparison of three molecular assays for rapid detection of rifampin resistance in Mycobacterium tuberculosis. J Clin Microbiol 1998 Jul; 36 (7): 1969-1973
95. Ruiz M, Torres MJ, Llanos AC, et al. Direct detection of rifampin- and isoniazid-resistant Mycobacterium tuberculosis in auramine-rhodaminepositive sputum specimens by real-time PCR. J Clin Microbiol 2004 Apr; 42 (4): 1585-1589 (Pubitemid 38500800)
96. Mikhailovich V, Lapa S, Gryadunov D, et al. Identification of rifampinresistant Mycobacterium tuberculosis strains by hybridization, PCR, and ligase detection reaction on oligonucleotide microchips. J Clin Microbiol 2001 Jul; 39 (7): 2531-2540 (Pubitemid 32606229)
97. Leone G, van Schijndel H, van Gemen B, et al. Molecular beacon probes combined with amplification by NASBA enable homogeneous, real-time detection of RNA. Nucleic Acids Res 1998 May 1; 26 (9): 2150-2155 (Pubitemid 28291759)
98. El-Hajj HH, Marras SA, Tyagi S, et al. Detection of rifampin resistance in Mycobacterium tuberculosis in a single tube with molecular beacons. J Clin Microbiol 2001 Nov; 39 (11): 4131-4137 (Pubitemid 33029793)
99. Bockstahler LE, Li Z, Nguyen NY, et al. Peptide nucleic acid probe detection of mutations in Mycobacterium tuberculosis genes associated with drug resistance. Biotechniques 2002 Mar; 32 (3): 508-10, 12, 14 (Pubitemid 34208067)
100. Aziz MA, Wright A, Laszlo A, et al. Epidemiology of antituberculosis drug resistance (the Global Project on Anti-Tuberculosis Drug Resistance Surveillance): an updated analysis. Lancet 2006 Dec 16; 368 (9553): 2142-2154
101. Marin M, Garcia de Viedma D, Ruiz-Serrano MJ, et al. Rapid direct detection of multiple rifampin and isoniazid resistance mutations in Mycobacterium tuberculosis in respiratory samples by real-time PCR. Antimicrob Agents Chemother 2004 Nov; 48 (11): 4293-4300 (Pubitemid 39434889)
102. Crawford JT. Genotyping in contact investigations: a CDC perspective. Int J Tuberc Lung Dis 2003; 7 (12 Suppl. 3): S453-7
103. Darwin KH, Nathan CF. Role for nucleotide excision repair in virulence of Mycobacterium tuberculosis. Infect Immun 2005 Aug; 73 (8): 4581-4587
104. Dos Vultos T, Mestre O, Tønjum T, et al. DNA repair in Mycobacterium tuberculosis revisited. FEMS Microbiol Rev 2009 May; 33 (3): 471-487
105. Oliver A, Canton R, Campo P, et al. High frequency of hypermutable Pseudomonas aeruginosa in cystic fibrosis lung infection. Science 2000 May 19; 288 (5469): 1251-1254 (Pubitemid 30367204)
106. Richardson AR, Yu Z, Popovic T, et al. Mutator clones of Neisseria meningitidis in epidemic serogroup A disease. Proc Natl Acad Sci U S A 2002 Apr 30; 99 (9): 6103-6107
107. Giraud A, Matic I, Tenaillon O, et al. Costs and benefits of high mutation rates: adaptive evolution of bacteria in the mouse gut. Science 2001 Mar 30; 291 (5513): 2606-2608 (Pubitemid 32249685)
108. Boshoff HI, Reed MB, Barry III CE, et al. DnaE2 polymerase contributes to in vivo survival and the emergence of drug resistance in Mycobacterium tuberculosis. Cell 2003; 113 (2): 183-193
109. Rad ME, Bifani P, Martin C, et al. Mutations in putative mutator genes of Mycobacterium tuberculosis strains of the W-Beijing family. Emerg Infect Dis 2003; 9 (7): 838-845 (Pubitemid 36801585)
110. Lari N, Rindi L, Bonanni D, et al. Mutations in mutT genes of Mycobacterium tuberculosis isolates of Beijing genotype. J Med Microbiol 2006 May; 55 (Pt 5): 599-603
111. Cole ST, Brosch R, Parkhill J, et al. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature 1998; 393 (6685): 537-544 (Pubitemid 28319235)
112. Mira MT, Alcais A, Nguyen VT, et al. Susceptibility to leprosy is associated with PARK2 and PACRG. Nature 2004 Feb 12; 427 (6975): 636-640 (Pubitemid 38248483)
113. Hawn TR, Dunstan SJ, Thwaites GE, et al. A polymorphism in Tollinterleukin 1 receptor domain containing adaptor protein is associated with susceptibility to meningeal tuberculosis. J Infect Dis 2006 Oct 15; 194 (8): 1127-1134
114. Ragno S, Romano M, Howell S, et al. Changes in gene expression in macrophages infected with Mycobacterium tuberculosis: a combined transcriptomic and proteomic approach. Immunology 2001 Sep; 104 (1): 99-108 (Pubitemid 32955401)
115. Selvaraj P, Chandra G, Jawahar MS, et al. Regulatory role of vitamin D receptor gene variants of Bsm I, Apa I, Taq I, and Fok I polymorphisms on macrophage phagocytosis and lymphoproliferative response to Mycobacterium tuberculosis antigen in pulmonary tuberculosis. J Clin Immunol 2004 Sep; 24 (5): 523-532 (Pubitemid 39221670)
116. Uma H, Selvaraj P, Reetha AM, et al. Influence of HLA-DR antigens on lymphocyte response to Mycobacterium tuberculosis culture filtrate antigens and mitogens in pulmonary tuberculosis. Tuber Lung Dis 1999; 79 (4): 199-206 (Pubitemid 29446006)
117. Shams H, Klucar P, Weis SE, et al. Characterization of a Mycobacterium tuberculosis peptide that is recognized by human CD4+ and CD8+ T cells in the context of multiple HLA alleles. J Immunol 2004 Aug 1; 173 (3): 1966-1977 (Pubitemid 38971633)
118. Bellamy R, Ruwende C, Corrah T, et al. Variations in the NRAMP1 gene and susceptibility to tuberculosis in West Africans. N Engl J Med 1998 Mar 5; 338 (10): 640-644 (Pubitemid 28108433)
119. Lopez-Maderuelo D, Arnalich F, Serantes R, et al. Interferon-gamma and interleukin-10 gene polymorphisms in pulmonary tuberculosis. Am J Respir Crit Care Med 2003 Apr 1; 167 (7): 970-975 (Pubitemid 36408162)
120. Dos Vultos T, Mestre O, Rauzier J, et al. Evolution and diversity of clonal bacteria: the paradigm of Mycobacterium tuberculosis. PLoS ONE 2008 Feb 6; 3 (2): e1538 (Pubitemid 351836682)
121. Toønjum T, Seeberg E. Microbial fitness and genome dynamics. Trends Microbiol 2001; 9 (8): 356-358
122. Saves I, Lewis LA, Westrelin F, et al. Specificities and functions of the recA and pps1 intein genes of Mycobacterium tuberculosis and application for diagnosis of tuberculosis. J Clin Microbiol 2002 Mar; 40 (3): 943-950 (Pubitemid 34208650)