Molecular characterization of Mycobacterium tuberculosis isolates from North Indian patients with extrapulmonary tuberculosis

Tuberculosis

Volumn 93, Issue 1, 2013, Pages 75-83

  Sankar, Manimuthu Mani ^a   Singh, Jitendra ^a   Angelin Diana, Selvaraj Cynthiya ^a   Singh, Sarman ^a  

^a ALL INDIA INSTITUTE OF MEDICAL SCIENCES   (India)

Author keywords

Drug resistance; Extrapulmonary tuberculosis; Mycobacterium tuberculosis; Spoligotyping

Indexed keywords

BACTERIAL DNA;

ADOLESCENT; ADULT; ANTIBIOTIC RESISTANCE; ARTICLE; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIUM ISOLATE; BACTERIUM ISOLATION; BONE; CEREBROSPINAL FLUID; CHILD; EXTRAPULMONARY TUBERCULOSIS; FEMALE; GENE LOCUS; GENOTYPE; HUMAN; HUMAN TISSUE; INDIA; INTERSPERSED REPEAT; JOINT; LYMPH NODE; MAJOR CLINICAL STUDY; MALE; MICROBIAL SENSITIVITY TEST; MULTIDRUG RESISTANCE; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PHYLOGENETIC TREE; PLEURA FLUID; PRIORITY JOURNAL; SCHOOL CHILD; UROGENITAL SYSTEM;

ADOLESCENT; ADULT; BACTERIAL TYPING TECHNIQUES; DRUG RESISTANCE, MULTIPLE, BACTERIAL; FEMALE; GENE FREQUENCY; GENOTYPE; GENOTYPING TECHNIQUES; HUMANS; INDIA; INTERSPERSED REPETITIVE SEQUENCES; MALE; MIDDLE AGED; MYCOBACTERIUM TUBERCULOSIS; TUBERCULOSIS; TUBERCULOSIS, MULTIDRUG-RESISTANT; YOUNG ADULT;

EID: 84874520864     PISSN: 14729792     EISSN: 1873281X     Source Type: Journal    
DOI: 10.1016/j.tube.2012.10.005     Document Type: Article

References (53)

1. World Health Organization Global tuberculosis control report 2011 World Health Organization Geneva Retrieved from: http://www.who.int/tb/publications/ global-report/2011/gtbr11-full.pdf
2. K. Gopinath, S. Kumar, and S. Singh Prevalence of mycobacteremia in Indian HIV-infected patients detected by the MB/Bact automated culture system Eur J Clin Microbiol Infect Dis 27 2008 423 431
3. S.K. Sharma, and A. Mohan Extrapulmonary tuberculosis Indian J Med Res 120 2004 316 353
4. T.R. Sterling, S.E. Dorman, R.E. Chaisson, L. Ding, J. Hackman, K. Moore, and S.M. Holland Human immunodeficiency virus-seronegative adults with extrapulmonary tuberculosis have abnormal innate immune response Clin Infect Dis 33 2001 976 982
5. Z. Yang, Y. Kong, F. Wilson, B. Foxman, A.H. Fowler, C.F. Mars, M.D. cave, and J.H. Bates Identification of risk factors for extrapulmonary tuberculosis Clin Infect Dis 38 2004 199 205
6. L.A.M. te Beek, M.J. van der Werf, C. Richter, and M.W. Borgdorff Extrapulmonary tuberculosis by nationality, the Netherlands, 1993-2001 Emerg Infect Dis 12 2006 1375 1382
7. F. Wares, R. Balasubraminan, A. Mohan, and S.K. Sharma Extrapulmonary tuberculosis: management and control S.P. Agarwal, L.S. Chauhan, Tuberculosis control in India 2005 Ministry of Health and Family Welfare New Delhi 95 114
8. P.F. Barnes, and M.D. Cave Molecular epidemiology of tuberculosis N Engl J Med 349 2003 1149 1156
9. S.T. Cole, R. Brosch, J. Parkhill, T. Garnier, C. Churcher, D. Harris, S.V. Gordon, K. Eiglmeier, S. Gas, C.E. Barry 3rd, F. Tekaia, K. Badcock, D. Basham, D. Brown, T. Chillingworth, R. Connor, R. Davies, K. Devlin, T. Feltwell, S. Gentles, N. Hamlin, S. Holroyd, T. Hornsby, K. Jagels, A. Krogh, J. McLean, S. Moule, L. Murphy, K. Oliver, J. Osborne, M.A. Quail, M.A. Rajandream, J. Rogers, S. Rutter, K. Seeger, J. Skelton, R. Squares, S. Squares, J.E. Sulston, K. Taylor, S. Whitehead, and B.G. Barrell Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence Nature 393 1998 537 544
10. K. Kremer, D. van Soolingen, R. Frothingham, W.H. Haas, P.W. Hermans, C. Martin, P. Palittapongampim, B.B. Plikaytis, L.W. Riley, M.A. Yakrus, J.M. Musser, and J.D. van Embden 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 1999 2607 2618
11. M.C. Gutierrez, N. Ahmed, E. Willery, S. Narayanan, S.E. Hasnain, D.S. Chauhan, V.M. Katoch, V. Vincent, C. Locht, and P. Supply Predominance of ancestral lineages of Mycobacterium tuberculosis in India Emerg Infect Dis 12 2006 1367 1374
12. P.T. Kent, and G.P. Kubica Public health mycobacteriology: a guide for level III laboratory 1985 US Department of Health and Human Services Washington, DC
13. A. Telenti, F. Marchesi, M. Balz, F. Bally, E.C. Böttger, and T. Bodmer Rapid identification of mycobacteria to the species level by polymerase chain reaction and enzyme analysis J Clin Microbiol 31 1993 175 178
14. S. Singh, K. Gopinath, S. Shahdad, M. Kaur, B. Singh, and P. Sharma Non tuberculosis mycobacterial infections in Indian AIDS patients detected by a novel set of ESAT-6 polymerase chain reactions Primers Jpn J Infect Dis 60 2007 14 18
15. H. Park, H. Jang, C. Kim, B. Chung, C.L. Chang, S.K. Park, and S. Song Detection and identification of myco-bacteria by amplification of the internal transcribed spacer regions with genus and species-specific PCR primers J Clin Microbiol 38 2000 4080 4085
16. Becton and Dickinson, USA. BACTEC™ MGIT™ 960 SIRE kit for the Antimycobacterial susceptibility Testing of Mycobacterium tuberculosis. http://www.bd.com/ds/technicalCenter/clsi/clsi-960sire.pdf.
17. J. Sambrook, E.F. Fritsch, and T. Maniatis Molecular cloning: a laboratory manual vols. 1-3 1989 Cold Spring Harbor Laboratory Press NY
18. J.D. van Embden, M.D. Cave, J.T. Crawford, J.W. Dale, K.D. Eisenach, B. Gicquel, P. Hermans, C. Martin, R. McAdam, and T.M. Shinnick Strain identification of Mycobacterium tuberculosis by DNA fingerprinting: recommendations for a standardized methodology J Clin Microbiol 31 1993 406 409
19. P. Supply, S. Lesjean, E. Savine, K. Kremer, D. van Soolingen, and C. Locht Automated high-throughput genotyping for study of global epidemiology of Mycobacterium tuberculosis based on mycobacterial interspersed repetitive units J Clin Microbiol 39 2001 3563 3571
20. R. Brosch, S.V. Gordon, M. Marmiesse, P. Brodin, C. Buchrieser, K. Eiglmeier, T. Garnier, C. Gutierrez, G. Hewinson, K. Kremer, L.M. Parsons, A.S. Pym, S. Samper, D. van Soolingen, and S.T. Cole A new evolutionary scenario for the Mycobacterium tuberculosis complex Proc Natl Acad Sci USA 99 2002 3684 3689
21. M. Hanekom, G.D. van der Spuy, N.C. Gey van Pittius, C.R. McEvoy, K.G. Hoek, S.L. Ndabambi, A.M. Jordaan, T.C. Victor, P.D. van Helden, and R.M. Warren Discordance between mycobacterial interspersed repetitive unit variable number tandem repeat typing and IS6110 restriction fragment length polymorphism genotyping for analysis of Mycobacterium tuberculosis Beijing strains in a setting of high incidence of tuberculosis J Clin Microbiol 46 2008 3338 3345
22. S. Narayanan, S. Gangneux, L. Hari, A.G. Tsolaki, S. Rajasekar, P.R. Narayanan, P.M. Small, S. Holmes, and K. Deriemer Genomic interrogation of ancestral Mycobacterium tuberculosis from South India Infect Genet Evol 8 2008 474 483
23. K. Brudey, J.R. Driscoll, L. Rigouts, W.M. Prodinger, A. Gori, S.A. Al-Hajoj, C. Allix, L. Aristimuño, J. Arora, V. Baumanis, L. Binder, P. Cafrune, A. Cataldi, S. Cheong, R. Diel, C. Ellermeier, J.T. Evans, M. Fauville-Dufaux, S. Ferdinand, D. Garcia de Viedma, C. Garzelli, L. Gazzola, H.M. Gomes, M.C. Guttierez, P.M. Hawkey, P.D. van Helden, G.V. Kadival, B.N. Kreiswirth, K. Kremer, M. Kubin, S.P. Kulkarni, B. Liens, T. Lillebaek, M.L. Ho, C. Martin, C. Martin, I. Mokrousov, O. Narvskaïa, Y.F. Ngeow, L. Naumann, S. Niemann, I. Parwati, Z. Rahim, V. Rasolofo-Razanamparany, T. Rasolonavalona, M.L. Rossetti, S. Rüsch-Gerdes, A. Sajduda, S. Samper, I.G. Shemyakin, U.B. Singh, A. Somoskovi, R.A. Skuce, D. van Soolingen, E.M. Streicher, P.N. Suffys, E. Tortoli, T. Tracevska, V. Vincent, T.C. Victor, R.M. Warren, S.F. Yap, K. Zaman, F. Portaels, N. Rastogi, and C. Sola Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology BMC Microbiol 6 2006 23
24. P.R. Hunter, and M.A. Gaston Numerical index of the discriminatory ability of typing systems: an application of Simpson's index of diversity J Clin Microbiol 26 1988 2465 2466
25. L.C.O. Lazzarini, J. Rosenfeld, R.C. Huard, V. Hill, J.R. lapa e Silva, R. DeSalle, N. Rastogi, and J.L. Ho Mycobacterium tuberculosis spoligotypes that may derive from mixed strain infections are revealed by a novel computational approach Infect Genet Evol 12 2012 798 806
26. K. Mallard, R. McNerney, C.A. Crampin, R. Houben, R. Ndlovu, L. Munthali, R.M. Warren, N. French, and J.R. Glynn Molecular detection of Mixed infections of Mycobacterium tuberculosis strains in sputum samples from patients in Karonga District, Malawi J Clin Microbiol 48 2010 4512 4518
27. S. Cadmus, V. Hill, D. van Soolingen, and N. Rastogi Spoligotyping profile of Mycobacterium tuberculosis complex strains from HIV-positive and -negative patients in Nigeria: a comparative analysis J Clin Microbiol 49 2011 220 226
28. S. Gagneux, and P.M. Small Global phylogeography of Mycobacterium tuberculosis and implications for tuberculosis product development Lancet Infect Dis 7 2007 328 337
29. M. Kato-Maeda, J.T. Rhee, T.R. Gineras, H. Salamon, J. Drenkow, N. Smittipat, and P.M. Small Comparing genomes within the species Mycobacterium tuberculosis Genome Res 11 2001 547 554
30. U.S. Rajapaksa, T.C. Victor, A.J. Perera, R.M. Warren, and S.M. Senevirathne Molecular diversity of Mycobacterium tuberculosis isolates from patients with pulmonary tuberculosis in Sri Lanka Trans R Soc Trop Med Hyg 102 2008 997 1002
31. U.B. Singh, N. Suresh, N.V. Bhanu, J. Arora, H. Pant, S. Sinha, R.C. Aggarwal, S. Singh, J.N. Pande, C. Sola, N. Rastogi, and P. Seth Predominant tuberculosis spoligotypes, Delhi, India Emerg Infect Dis 10 2004 1138 1142
32. M. Tanveer, Z. Hasan, A.R. Siddiqui, A. Ali, A. Kanji, S. Ghebremicheal, and R. Hasan Genotyping and drug resistance patterns of M. tuberculosis strains in Pakistan BMC Infect Dis 8 2008 171
33. S. Banu, S.V. Gordon, S. Palmer, R. Islam, S. Ahmed, K.M. Alam, S.T. Cole, and R. Brosch Genotypic analysis of Mycobacterium tuberculosis in Bangladesh and prevalence of the Beijing strain J Clin Microbiol 42 2004 674 682
34. A.A. Baranov, A.O. Mariandyshev, T. Mannsaker, U.R. Dahle, and G.A. Bjune Molecular epidemiology and drug resistance of widespread genotypes of Mycobacterium tuberculosis in north western Russia Int J Tuberc Lung Dis 13 2009 1288 1293
35. T.N. Buu, M.N. Huyen, N.T. Lan, H.T. Quy, N.V. Hen, M. Zignol, M.W. Borgdorff, F.G. Cobelens, and D. van Soolingen The Beijing genotype is associated with young age and multidrug-resistant tuberculosis in rural Vietnam Int J Tuberc Lung Dis 13 2009 900 906
36. C.W. Chang, M.H. Wu, P.C. Chuang, and R. Jou Characteristics of multidrug-resistant Mycobacterium tuberculosis in Taiwan: a population-based study Infect Genet Evol 11 2011 633 639
37. V. Vadwai, A. Shetty, P. Supply, and C. Rodrigues Evaluation of 24-locus MIRU-VNTR in extrapulmonary specimens; study from a tertiary care in Mumbai Tuberculosis 92 2012 264 272
38. K. Faksri, F. Drobniewski, V. Nikolayevskyy, T. Brown, T. Prammananan, P. Palittapongarnpim, N. Prayoonwiwat, and A. Chaiprasert Epidemiological trends and clinical comparisons of Mycobacterium tuberculosis lineages in Thai TB meningitis Tuberculosis 91 2011 594 600
39. J. Yorsangsukkamol, A. Chaiprasert, T. Prammananan, P. Palittapongarnpim, S. Limsoontarakul, and N. Prayoonwiwat Molecular analysis of Mycobacterium tuberculosis from tuberculous meningitis patients in Thailand Tuberculosis 89 2009 304 309
40. Y. Kong, M.D. cave, L. Zhang, B. Foxman, C.F. Marrs, J.H. Bates, and Z.H. Yang Association between Mycobacterium tuberculosis Beijing/W lineage strain infection and extrathoracic tuberculosis: insights from epidemiologic and clinical characterization of three principal genetic groups of M. tuberculosis clinical isolates J Clin Microbiol 45 2007 409 414
41. E.S. Click, P.K. Moonan, C.A. Winston, L.S. Cowan, and J.E. Oeltmann Relationship between Mycobacterium tuberculosis phylogenetic lineage and clinical site of tuberculosis Clin Infect Dis 54 2012 211 219
42. S. Gunal, Z. Yang, M. Agarwal, M. Koroglu, Z.K. Arici, and R. Durmaz Demographic and microbial characteristics of extrapulmonary tuberculosis cases diagnosed in Malatya, Turkey, 2001-2007 BMC Public Health 11 2011 154
43. M.P. Nicol, C. Sola, B. February, N. Rastogi, L. steyn, and R. Wilkinson Distribution of strain families of Mycobacterium tuberculosis causing pulmonary and extra pulmonary disease in hospitalized children in Cape Town, South Africa J Clin Microbiol 43 2005 5779 5781
44. Z. Hasan, M. Tanveer, A. Kanji, Q. Hasan, S. Ghebremichael, and R. Hasan Spoligotyping of Mycobacterium tuberculosis isolates from Pakistan reveals predominance of Central Asian Strain 1 and Beijing isolates J Clin Microbiol 44 2006 1763 1768
45. N.V. Bhanu, D. van Soolingen, J.D. van Embden, L. Dar, R.M. Pandey, and P. Seth Predominance of a novel Mycobacterium tuberculosis genotype in the Delhi region of India Tuberculosis 82 2002 105 112
46. D. van Soolingen, L. Qian, P.E. de Haas, J.T. Douglas, H. Traore, F. Portaels, H.Z. Qing, D. Enkhsaikan, P. Nymadawa, and J.D. van Embden Predominance of a single genotype of Mycobacterium tuberculosis in countries of East Asia J Clin Microbiol 33 1995 3234 3238
47. M. Hanekom, N.C.G. van Pittiu, C. McEvoy, T.C. Victor, P.D. van Helden, and R.M. Warren Mycobacterium tuberculosis Beijing genotype: a template for success Tuberculosis 91 2011 510 523
48. N.F. Mistry, A.M. Iyer, D.T. D'Souza, G.M. Taylor, D.B. Young, and N.H. Antia Spoligotyping of Mycobacterium tuberculosis isolates from multiple drug-resistant tuberculosis patients from Bombay, India J Clin Microbiol 40 2002 2677 2680
49. P. Sharma, D.S. Chauhan, P. Upadhyay, J. Faujdar, M. Mavania, S. Sachan, K. Katoch, and V.M. Katoch Molecular typing of Mycobacterium tuberculosis isolates from a rural area of Kanpur by Spoligotyping and mycobacterial interspersed repetitive units (MIRUs) typing Infect Genet Evol 8 2008 621 626
50. U.B. Singh, J. Arora, N. Suresh, H. Pant, T. Rana, C. Sola, N. Rastogi, and J.N. Pande Genetic biodiversity of Mycobacterium tuberculosis isolates from patients with pulmonary tuberculosis in India Infect Genet Evol 7 2007 441 448
51. A. Chatterjee, D. D'Souza, T. Vira, A. Bamne, G.T. Ambe, M.P. Nicol, R.J. Wilkinson, and N. Mistry Strains of Mycobacterium tuberculosis from western Maharashtra, India, exhibit a high degree of diversity of strain-specific association with drug resistance, cavity disease, and treatment failure J Clin Microbiol 48 2010 3593 3599
52. S. Narayanan, S. Swaminathan, P. Supply, S. Shanmugam, G. Narendran, L. Hari, R. Ramachandran, C. Locht, M.S. Jawahar, and P.R. Narayanan Impact of HIV infection on the recurrence of tuberculosis in South India J Infect Dis 201 2010 691 703
53. M.V. Basil, S. Kumar, J. Arora, A. Angrup, T. Zozio, J.N. Banavaliker, U.B. Singh, N. Rastogi, and M. Bose Comparison of spoligotyping, mycobacterial interspersed repetitive units typing and IS6110-RFLP in a study of genotypic diversity of Mycobacterium tuberculosis in Delhi, North India Mem Inst Oswaldo Cruz 106 2011 524 535