Sequence analysis for detection of first-line drug resistance in Mycobacterium tuberculosis strains from a high-incidence setting

BMC Microbiology

Volumn 12, Issue , 2012, Pages

  Feuerriegel, Silke ^a   Oberhauser, Barbara ^b   George, Abu Garawani ^c   Dafae, Foday ^d   Richter, Elvira ^a   Rüsch Gerdes, Sabine ^a   Niemann, Stefan ^a  

^a RESEARCH CENTER BORSTEL   (Germany)

^b Klinikum der Ludwig Maximilians Universität München   (Germany)

^c National Leprosy/TB Reference Laboratory   (Sierra Leone)

^d MINISTRY OF HEALTH AND SANITATION   (Sierra Leone)

Author keywords

[No Author keywords available]

Indexed keywords

AHPC PROTEIN; EMBB PROTEIN; ETHAMBUTOL; GIDB PROTEIN; INHA PROTEIN; ISONIAZID; KATG PROTEIN; PNCA PROTEIN; PROTEIN; PYRAZINAMIDE; RIFAMPICIN; RNA POLYMERASE BETA SUBUNIT; RPSL PROTEIN; RRS PROTEIN; STREPTOMYCIN; UNCLASSIFIED DRUG;

ANTIBIOTIC RESISTANCE; ANTIBIOTIC SENSITIVITY; ARTICLE; CONTROLLED STUDY; GENE MUTATION; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS; SIERRA LEONE;

ANTITUBERCULAR AGENTS; BACTERIAL PROTEINS; DNA, BACTERIAL; DRUG RESISTANCE, BACTERIAL; GENOTYPE; HUMANS; INCIDENCE; MICROBIAL SENSITIVITY TESTS; MYCOBACTERIUM TUBERCULOSIS; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS, DNA; SIERRA LEONE; TUBERCULOSIS;

MYCOBACTERIUM TUBERCULOSIS;

EID: 84861558524     PISSN: None     EISSN: 14712180     Source Type: Journal    
DOI: 10.1186/1471-2180-12-90     Document Type: Article

References (44)

1. WHO, Report on Global Tuberculosis Control 2010 http://www.who.int/tb/ publications/global-report/2010/en/
2. Management of multidrug-resistant tuberculosis and extensively drug-resistant tuberculosis: current status and future prospects. Yew W-W, Kekkaku 2011 86 9 16 21401001
3. Tuberculosis in sub-Saharan Africa: opportunities, challenges, and change in the era of antiretroviral treatment. Corbett EL, Marston B, Churchyard GJ, De Cock KM, Lancet 2006 367 926 937 10.1016/S0140-6736(06)68383-9 16546541
4. WHO, TB country profile Sierra Leone: surveillance and epidemiology 2009 http://www.afro.who.int
5. Rapid genotypic detection of rifampin- and isoniazid-resistant Mycobacterium tuberculosis directly in clinical specimens. Bang D, Bengård Andersen A, Thomsen V J Clin Microbiol 2006 44 2605 2608 10.1128/JCM.00752-06 16825393 (Pubitemid 44092440)
6. Evaluation of the GenoType MTBDRplus assay for rifampin and isoniazid susceptibility testing of Mycobacterium tuberculosis strains and clinical specimens. Hillemann D, Rüsch-Gerdes S, Richter E, J Clin Microbiol 2007 45 2635 2640 10.1128/JCM.00521-07 17537937 (Pubitemid 47295497)
7. The catalase-peroxidase gene and isoniazid resistance of Mycobacterium tuberculosis. Zhang Y, Heym B, Allen B, Young D, Cole S, Nature 1992 358 591 593 10.1038/358591a0 1501713
8. inhA, a gene encoding a target for isoniazid and ethionamide in Mycobacterium tuberculosis. Banerjee A, Dubnau E, Quemard A, Balasubramanian V, Um KS, Wilson T, Collins D, de Lisle G, Jacobs WR, Science 1994 263 227 230 10.1126/science.8284673 8284673 (Pubitemid 24067929)
9. ahpC, a gene involved in isoniazid resistance of the Mycobacterium tuberculosis complex. Wilson TM, Collins DM, Mol Microbiol 1996 19 1025 1034 10.1046/j.1365-2958.1996.449980.x 8830260 (Pubitemid 26084428)
10. Analysis of ahpC gene mutations in isoniazid-resistant clinical isolates of Mycobacterium tuberculosis. Kelley CL, Rouse DA, Morris SL, Antimicrob Agents Chemother 1997 41 2057 2058 9303417 (Pubitemid 27383260)
11. Detection of rifampicin-resistance mutations in Mycobacterium tuberculosis. Telenti A, Imboden P, Marchesi F, Lowrie D, Cole S, Colston MJ, Matter L, Schopfer K, Bodmer T, Lancet 1993 341 647 650 10.1016/0140-6736(93) 90417-F 8095569 (Pubitemid 23083244)
12. Molecular basis of streptomycin resistance in Mycobacterium tuberculosis: alterations of the ribosomal protein S12 gene and point mutations within a functional 16S ribosomal RNA pseudoknot. Finken M, Kirschner P, Meier A, Wrede A, Böttger EC, Mol Microbiol 1993 9 1239 1246 10.1111/j.1365-2958.1993. tb01253.x 7934937 (Pubitemid 23286255)
13. Loss of a conserved 7-methylguanosine modification in 16S rRNA confers low-level streptomycin resistance in bacteria. Okamoto S, Tamaru A, Nakajima C, Nishimura K, Tanaka Y, Tokuyama S, Suzuki Y, Ochi K, Mol Microbiol 2007 63 1096 1106 10.1111/j.1365-2958.2006.05585.x 17238915 (Pubitemid 46188264)
14. Significance of mutations in embB codon 306 for prediction of ethambutol resistance in clinical Mycobacterium tuberculosis isolates. Plinke C, Rüsch-Gerdes S, Niemann S, Antimicrob Agents Chemother 2006 50 1900 1902 10.1128/AAC.50.5.1900-1902.2006 16641474
15. Molecular genetic analysis of nucleotide polymorphisms associated with ethambutol resistance in human isolates of Mycobacterium tuberculosis. Ramaswamy SV, Amin AG, Göksel S, Stager CE, Dou SJ, El Sahly H, Moghazeh SL, Kreiswirth BN, Musser JM, Antimicrob Agents Chemother 2000 44 326 336 10.1128/AAC.44.2.326-336.2000 10639358 (Pubitemid 30060727)
16. embCAB sequence variation among ethambutol-resistant Mycobacterium tuberculosis isolates without embB306 mutation. Plinke C, Cox HS, Zarkua N, Karimovich HA, Braker K, Diel R, Rüsch-Gerdes S, Feuerriegel S, Niemann S, J Antimicrob Chemother 2010 65 1359 1367 10.1093/jac/dkq120 20427375
17. Role of embCAB gene mutations in ethambutol resistance in Mycobacterium tuberculosis isolates from India. Jadaun GPS, Das R, Upadhyay P, Chauhan DS, Sharma VD, Katoch VM, Int J Antimicrob Agents 2009 33 483 486 10.1016/j.ijantimicag.2008.10.017 19112008
18. Mutations in pncA, a gene encoding pyrazinamidase/nicotinamidase, cause resistance to the antituberculous drug pyrazinamide in tubercle bacillus. Scorpio A, Zhang Y, Nat Med 1996 2 662 667 10.1038/nm0696-662 8640557 (Pubitemid 26191953)
19. Geographic variation of the predictive values of genomic mutations associated with streptomycin resistance in Mycobacterium tuberculosis. Dobner P, Bretzel G, Rüsch-Gerdes S, Feldmann K, Rifai M, Löscher T, Rinder H, Mol Cell Probes 1997 11 123 126 10.1006/mcpr.1996.0086 9160326 (Pubitemid 27267718)
20. Characterization of rpoB mutations in rifampin-resistant Mycobacterium tuberculosis isolates from the Middle East. Ahmad S, Araj GF, Akbar PK, Fares E, Chugh TD, Mustafa AS, Diagn Microbiol Infect Dis 2000 38 227 232 10.1016/S0732-8893(00)00200-5 11146248 (Pubitemid 32056227)
21. High genetic diversity among Mycobacterium tuberculosis complex strains from Sierra Leone. Homolka S, Post E, Oberhauser B, George AG, Westman L, Dafae F, Rüsch-Gerdes S, Niemann S, BMC Microbiol 2008 8 103 10.1186/1471-2180-8- 103 18578864 (Pubitemid 351952125)
22. Occurrence and stability of insertion sequences in Mycobacterium tuberculosis complex strains: evaluation of an insertion sequence-dependent DNA polymorphism as a tool in the epidemiology of tuberculosis. van Soolingen D, Hermans PW, de Haas PE, Soll DR, van Embden JD, J Clin Microbiol 1991 29 2578 2586 1685494
23. Restricted structural gene polymorphism in the Mycobacterium tuberculosis complex indicates evolutionarily recent global dissemination. Sreevatsan S, Pan X, Stockbauer KE, Connell ND, Kreiswirth BN, Whittam TS, Musser JM, Proc Natl Acad Sci.USA 1997 94 9869 9874 10.1073/pnas.94.18.9869 9275218 (Pubitemid 27408157)
24. Molecular characterization of isoniazid-resistant clinical isolates of Mycobacterium tuberculosis from the USA. Guo H, Seet Q, Denkin S, Parsons L, Zhang Y, J Med Microbiol 2006 55 1527 1531 10.1099/jmm.0.46718-0 17030912 (Pubitemid 44713868)
25. Genomic mutations in the katG, inhA and aphC genes are useful for the prediction of isoniazid resistance in Mycobacterium tuberculosis isolates from Kwazulu Natal, South Africa. Kiepiela P, Bishop KS, Smith AN, Roux L, York DF, Tuber Lung Dis 2000 80 47 56 10.1054/tuld.1999.0231 10897383 (Pubitemid 30179493)
26. First documentation of isoniazid reversion in Mycobacterium tuberculosis. Richardson ET, Lin S-YG, Pinsky BA, Desmond E, Banaei N, Int J Tuberc Lung Dis 2009 13 1347 1354 19861005
27. Molecular characterization of drug-resistant Mycobacterium tuberculosis isolates from Ontario, Canada. Bolotin S, Alexander DC, Chedore P, Drews SJ, Jamieson F, J Antimicrob Chemother 2009 64 263 266 10.1093/jac/dkp183 19520719
28. Analysis for a limited number of gene codons can predict drug resistance of Mycobacterium tuberculosis in a high-incidence community. Van Rie A, Warren R, Mshanga I, Jordaan AM, van der Spuy GD, Richardson M, Simpson J, Gie RP, Enarson DA, Beyers N, van Helden PD, Victor TC, J Clin Microbiol 2001 39 636 641 10.1128/JCM.39.2.636-641.2001 11158121 (Pubitemid 32150832)
29. Comparison of two commercial assays for the characterization of rpoB mutations in Mycobacterium tuberculosis and description of new mutations conferring weak resistance to rifampicin. Hauck Y, Fabre M, Vergnaud G, Soler C, Pourcel C, J Antimicrob Chemother 2009 64 259 262 10.1093/jac/dkp204 19520715
30. Genetic evaluation of relationship between mutations in rpoB and resistance of Mycobacterium tuberculosis to rifampin. Zaczek A, Brzostek A, Augustynowicz-Kopec E, Zwolska Z, Dziadek J, BMC Microbiol 2009 9 10 10.1186/1471-2180-9-10 19146699
31. Mycobacterium tuberculosis strains with highly discordant rifampin susceptibility test results. Van Deun A, Barrera L, Bastian I, Fattorini L, Hoffmann H, Kam KM, Rigouts L, Rüsch-Gerdes S, Wright A, J Clin Microbiol 2009 47 3501 3506 10.1128/JCM.01209-09 19759221
32. Low-level rifampicin-resistant Mycobacterium tuberculosis strains raise a new therapeutic challenge. van Ingen J, Aarnoutse R, de Vries G, Boeree MJ, van Soolingen D, Int J Tuberc Lung Dis 2011 15 990 992 10.5588/ijtld.10.0127 21682979
33. Direct susceptibility testing for multi drug resistant tuberculosis: a meta-analysis. Bwanga F, Hoffner S, Haile M, Joloba ML, BMC Infect Dis 2009 9 67 10.1186/1471-2334-9-67 19457256
34. Multicenter evaluation of reverse line blot assay for detection of drug resistance in Mycobacterium tuberculosis clinical isolates. Mokrousov I, Bhanu NV, Suffys PN, Kadival GV, Yap S-F, Cho S-N, Jordaan AM, Narvskaya O, Singh UB, Gomes HM, Lee H, Kulkarni SP, Lim K-C, Khan BK, van Soolingen D, Victor TC, Schouls LM, J Microbiol Methods 2004 57 323 335 10.1016/j.mimet.2004.02.006 15134881 (Pubitemid 38595300)
35. Streptomycin Resistance and Lineage-Specific Polymorphisms in Mycobacterium tuberculosis gidB Gene. Spies FS, Ribeiro AW, Ramos DF, Ribeiro MO, Martin A, Palomino JC, Rossetti MLR, da Silva PEA, Zaha A, J Clin Microbiol 2011 49 2625 2630 10.1128/JCM.00168-11 21593257
36. M. tuberculosis Central Asian Strain 1 MDR isolates have more mutations in rpoB and katG genes compared with other genotypes. Ali A, Hasan Z, Moatter T, Tanveer M, Hasan R, Scand J Infect Dis 2009 41 37 44 10.1080/00365540802570519 19012077
37. Disequilibrium in distribution of resistance mutations among Mycobacterium tuberculosis Beijing and non-Beijing strains isolated from patients in Germany. Hillemann D, Kubica T, Rüsch-Gerdes S, Niemann S, Antimicrob Agents Chemother 2005 49 1229 1231 10.1128/AAC.49.3.1229-1231.2005 15728936 (Pubitemid 40327757)
38. Association of specific mutations in katG, rpoB, rpsL and rrs genes with spoligotypes of multidrug-resistant Mycobacterium tuberculosis isolates in Russia. Lipin MY, Stepanshina VN, Shemyakin IG, Shinnick TM, Clin Microbiol Infect 2007 13 620 626 10.1111/j.1469-0691.2007.01711.x 17403134 (Pubitemid 46730669)
39. Tuberculosis ethambutol resistance: concordance between phenotypic and genotypic test results. Plinke C, Cox HS, Kalon S, Doshetov D, Rüsch-Gerdes S, Niemann S, Tuberculosis (Edinb) 2009 89 448 452 10.1016/j.tube.2009.09.001
40. Rapid detection of ethambutol-resistant Mycobacterium tuberculosis strains by PCR-RFLP targeting embB codons 306 and 497 and iniA codon 501 mutations. Ahmad S, Mokaddas E, Jaber A-A, Mol Cell Probes 2004 18 299 306 10.1016/j.mcp.2004.04.001 15294317 (Pubitemid 39061035)
41. Allelic exchange and mutant selection demonstrate that common clinical embCAB gene mutations only modestly increase resistance to ethambutol in Mycobacterium tuberculosis. Safi H, Fleischmann RD, Peterson SN, Jones MB, Jarrahi B, Alland D, Antimicrob Agents Chemother 2010 54 103 108 10.1128/AAC.01288-09 19822701
42. Pyrazinamide resistance and pncA gene mutations in Mycobacterium tuberculosis. Juréen P, Werngren J, Toro J-C, Hoffner S, Antimicrob Agents Chemother 2008 52 1852 1854 10.1128/AAC.00110-08 18316515 (Pubitemid 351614686)
43. Pyrazinamide resistance among South African multidrug-resistant Mycobacterium tuberculosis isolates. Mphahlele M, Syre H, Valvatne H, Stavrum R, Mannsåker T, Muthivhi T, Weyer K, Fourie PB, Grewal HMS, J Clin Microbiol 2008 46 3459 3464 10.1128/JCM.00973-08 18753350
44. Effect of pyrazinamidase activity on pyrazinamide resistance in Mycobacterium tuberculosis. Sheen P, Ferrer P, Gilman RH, Lápez-Llano J, Fuentes P, Valencia E, Zimic MJ, Tuberculosis (Edinb) 2009 89 109 113 10.1016/j.tube.2009.01.004