The genetic portrait of an outbreak strain

Tuberculosis

Volumn 86, Issue 5, 2006, Pages 357-362

  Yesilkaya, Hasan ^a   Forbes, Ken J ^b   Shafi, Jamila ^a   Smith, Rebecca ^a   Dale, Jeremy W ^c   Rajakumar, Kumar ^a,d   Barer, Michael R ^a,d   Andrew, Peter W ^a  

^a UNIVERSITY OF LEICESTER   (United Kingdom)

^b UNIVERSITY OF ABERDEEN   (United Kingdom)

^c UNIVERSITY OF SURREY   (United Kingdom)

^d UNIVERSITY HOSPITALS OF LEICESTER NHS TRUST   (United Kingdom)

Author keywords

CH strain; Deletion; Insertion; IS6110; Mycobacterium tuberculosis; Outbreak

Indexed keywords

ARTICLE; BACTERIAL GENETICS; BACTERIAL GENOME; BACTERIAL STRAIN; BACTERIAL VIRULENCE; EPIDEMIC; GENE DELETION; GENE INSERTION; GENE MUTATION; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PHENOTYPE; PRIORITY JOURNAL; UNITED KINGDOM;

DISEASE OUTBREAKS; ENGLAND; GENOME, BACTERIAL; HUMANS; MUTAGENESIS, INSERTIONAL; MUTATION; MYCOBACTERIUM TUBERCULOSIS; POLYMERASE CHAIN REACTION; TUBERCULOSIS;

EID: 33747035322     PISSN: 14729792     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tube.2005.08.019     Document Type: Article

References (34)

1. North R.J., and Jung Y.J. Immunity to tuberculosis. Annu Rev Immunol 22 (2004) 599-623
2. Lopez B., Aguilar D., Orozco H., et al. A marked difference in pathogenesis and immune response induced by different Mycobacterium tuberculosis genotypes. Clin Exp Immunol 133 (2003) 30-37
3. Bifani P.J., Mathema B., Kurepina N.E., and Kreiswirth B.N. Global dissemination of the Mycobacterium tuberculosis W-Beijing family strains. Trends Microbiol 10 (2002) 45-52
4. Reed M.B., Domenech P., Manca C., et al. A glycolipid of hypervirulent tuberculosis strains that inhibits the innate immune response. Nature 431 (2004) 84-87
5. Manca C., Tsenova L., Bergtold A., et al. Virulence of a Mycobacterium tuberculosis clinical isolate in mice is determined by failure to induce Th1 type immunity and is associated with induction of IFN-alpha /beta. Proc Natl Acad Sci USA 98 (2001) 5752-5757
6. Sreevatsan S., Pan X., Zhang Y., Deretic V., and Musser J.M. Analysis of the oxyR-ahpC region in isoniazid-resistant and susceptible Mycobacterium tuberculosis complex organisms recovered from diseased humans and animals in diverse localities. Antimicrob Agents Chemother 41 (1997) 600-606
7. Gutacker M.M., Smoot J.C., Migliaccio C.A.L., et al. Genome-wide analysis of synonymous single nucleotide polymorphisms in Mycobacterium tuberculosis complex organisms: resolution of genetic relationships among closely related microbial strains. Genetics 162 (2002) 1533-1543
8. Baker L., Brown T., Maiden M.C., and Drobniewski F. Silent nucleotide polymorphisms and a phylogeny for Mycobacterium tuberculosis. Emerg Infect Dis 10 (2004) 1568-1577
9. Yesilkaya H., Thomson A., Doig C., Watt B., Dale J.W., and Forbes K.J. Locating transposable element polymorphisms in bacterial genomes. J Microbiol Methods 53 (2003) 355-363
10. Yesilkaya H, Dale JW, Strachan NJC, Forbes KJ. Natural transposon mutagenesis of clinical isolates of Mycobacterium tuberculosis: how many genes does a pathogen need? J Bacteriol 2005, in press.
11. Fang Z., Morrison N., Watt B., Doig C., and Forbes K.J. IS6110 transposition and evolutionary scenario of the direct repeat locus in a group of closely related Mycobacterium tuberculosis strains. J Bacteriol 180 (1998) 2102-2109
12. Sampson S.L., Warren R.M., Richardson M., van der Spuy G.D., and Van Helden P.D. Disruption of coding regions by IS6110 insertion in Mycobacterium tuberculosis. Tuber Lung Dis 79 (1999) 349-359
13. Soto C.Y., Menendez M.C., Perez E., et al. IS6110 mediates increased transcription of the phoP virulence gene in a multidrug-resistant clinical isolate responsible for tuberculosis outbreaks. J Clin Microbiol 42 (2004) 212-219
14. Behr M.A., Wilson M.A., Gill W.P., et al. Comparative genomics of BCG vaccines by whole-genome DNA microarray. Science 284 (1999) 1520-1523
15. Gordon S.V., Brosch R., Billault A., Garnier T., Eiglmeier K., and Cole S.T. Identification of variable regions in the genomes of tubercle bacilli using bacterial artificial chromosome arrays. Mol Microbiol 32 (1999) 643-655
16. Kato-Maeda M., Rhee J.T., Gingeras T.R., et al. Comparing genomes within the species Mycobacterium tuberculosis. Genome Res 11 (2001) 547-554
17. Mahairas G.G., Sabo P.J., Hickey M.J., Singh D.C., and Stover C.K. Molecular analysis of genetic differences between Mycobacterium bovis BCG and virulent M. bovis. J Bacteriol 178 (1996) 1274-1282
18. Tsolaki A.G., Hirsh A.E., DeRiemer K., et al. Functional and evolutionary genomics of Mycobacterium tuberculosis: Insights from genomic deletions in 100 strains. Proc Natl Acad Sci USA 101 (2004) 4865-4870
19. Rajakumar K., Shafi J., Smith R.J., et al. Use of genome level-informed PCR as a new Investigational approach for analysis of outbreak-associated Mycobacterium tuberculosis isolates. J Clin Microbiol 42 (2004) 1890-1896
20. Belisle J.T., and Sonnenberg M.G. Isolation of genomic DNA from mycobacteria. Methods Mol Biol 101 (1998) 31-44
21. Cole S.T., Brosch R., Parkhill J., et al. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature 393 (1998) 537-544
22. Fleischmann R.D., Alland D., Eisen J.A., et al. Whole-genome comparison of Mycobacterium tuberculosis clinical and laboratory strains. J Bacteriol 184 (2002) 5479-5490
23. Rutherford K., Parkhill J., Crook J., et al. Artemis: sequence visualization and annotation. Bioinformatics 16 (2000) 944-945
24. Beggs M.L., Eisenach K.D., and Cave M.D. Mapping of IS6110 insertion sites in two epidemic strains of Mycobacterium tuberculosis. J Clin Microbiol 38 (2000) 2923-2928
25. Ho T.B., Robertson B.D., Taylor G.M., Shaw R.J., and Young D.B. Comparison of Mycobacterium tuberculosis genomes reveals frequent deletions in a 20 kb variable region in clinical isolates. Yeast 17 (2000) 272-282
26. Raynaud C., Guilhot C., Rauzier J., et al. Phospholipases C are involved in the virulence of Mycobacterium tuberculosis. Mol Microbiol 45 (2002) 203-217
27. Sassetti C.M., Boyd D.H., and Rubin E.J. Genes required for mycobacterial growth defined by high density mutagenesis. Mol Microbiol 48 (2003) 77-84
28. Dubnau E., Fontan P., Manganelli R., Soares-Appel S., and Smith I. Mycobacterium tuberculosis genes induced during infection of human macrophages. Infect Immun 70 (2002) 2787-2795
29. Schnappinger D., Ehrt S., Voskuil M.I., et al. Transcriptional adaptation of Mycobacterium tuberculosis within macrophages: insights into the phagosomal environment. J Exp Med 198 (2003) 693-704
30. Bernaschi M., and Castiglione F. Selection of escape mutants from immune recognition during HIV infection. Immunol Cell Biol 80 (2002) 307-313
31. Lamichhane G., Zignol M., Blades N.J., et al. A postgenomic method for predicting essential genes at subsaturation levels of mutagenesis: Application to Mycobacterium tuberculosis. Proc Natl Acad Sci USA 100 (2003) 7213-7218
32. Sassetti C.M., and Rubin E.J. Genetic requirements for mycobacterial survival during infection. Proc Natl Acad Sci USA 100 (2003) 12989-12994
33. Marmiesse M., Brodin P., Buchrieser C., et al. Macro-array and bioinformatic analyses reveal mycobacterial 'core' genes, variation in the ESAT-6 gene family and new phylogenetic markers for the Mycobacterium tuberculosis complex. Microbiology 150 (2004) 483-496
34. Day W.A.J., Fernandez R.E., and Maurelli A.T. Pathoadaptive mutations that enhance virulence: genetic organization of the cadA regions of Shigella spp. Infect Immun 69 (2001) 7471-7480