Molecular typing of Mycobacterium Abscessus isolated from cystic fibrosis patients

International Journal of Mycobacteriology

Volumn 6, Issue 2, 2017, Pages 138-141

  Trovato, Alberto ^a   Baldan, Rossella ^a   Costa, Danila ^b   Simonetti, Tullia M ^c   Cirillo, Daniela M ^a   Tortoli, Enrico ^a  

^a SAN RAFFAELE HOSPITAL   (Italy)

^b POLICLINICO   (Italy)

^c CAREGGI UNIVERSITY HOSPITAL   (Italy)

Author keywords

Cystic fibrosis; Mycobacterium abscessus; VNRT; whole genome sequencing

Indexed keywords

ARTICLE; CLINICAL ARTICLE; CYSTIC FIBROSIS; GENOTYPE; HUMAN; INTERMETHOD COMPARISON; MOLECULAR TYPING; MYCOBACTERIOSIS; MYCOBACTERIUM ABSCESSUS; NONHUMAN; PHYLOGENETIC TREE; PRIORITY JOURNAL; VARIABLE NUMBER OF TANDEM REPEAT; WHOLE GENOME SEQUENCING; BACTERIUM IDENTIFICATION; CLASSIFICATION; ENZYMOLOGY; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; PHYLOGENY; SPUTUM;

BACTERIAL PROTEIN; DNA DIRECTED RNA POLYMERASE;

BACTERIAL PROTEINS; BACTERIAL TYPING TECHNIQUES; CYSTIC FIBROSIS; DNA-DIRECTED RNA POLYMERASES; GENOTYPE; HUMANS; MINISATELLITE REPEATS; MYCOBACTERIUM ABSCESSUS; PHYLOGENY; SPUTUM;

EID: 85027457188     PISSN: 22125531     EISSN: 2212554X     Source Type: Journal    
DOI: 10.4103/ijmy.ijmy_33_17     Document Type: Article

References (25)

1. Tortoli E. Clinical manifestations of nontuberculous mycobacteria infections. Clin Microbiol Infect 2009;15:906-10.
2. Falkinham JO 3rd. Ecology of nontuberculous mycobacteria - Where do human infections come from? Semin Respir Crit Care Med 2013;34:95-102.
3. Thomson R, Tolson C, Sidjabat H, Huygens F, Hargreaves M. Mycobacterium abscessus isolated from municipal water - A potential source of human infection. BMC Infect Dis 2013;13:241.
4. Donohue MJ, Mistry JH, Donohue JM, O'Connell K, King D, Byran J, et al. Increased frequency of nontuberculous mycobacteria detection at potable water taps within the United States. Environ Sci Technol 2015;49:6127-33.
5. Bryant JM, Grogono DM, Rodriguez-Rincon D, Everall I, Brown KP, Moreno P, et al. Emergence and spread of a human-transmissible multidrug-resistant nontuberculous mycobacterium. Science 2016;354:751-7.
6. Benwill JL, Wallace RJ Jr. Mycobacterium abscessus: Challenges in diagnosis and treatment. Curr Opin Infect Dis 2014;27:506-10.
7. van Dorn A. Multidrug-resistant Mycobacterium abscessus threatens patients with cystic fibrosis. Lancet Respir Med 2017;5:15.
8. Seddon P, Fidler K, Raman S, Wyatt H, Ruiz G, Elston C, et al. Prevalence of nontuberculous mycobacteria in cystic fibrosis clinics, United Kingdom, 2009. Emerg Infect Dis 2013;19:1128-30.
9. Tortoli E, Kohl TA, Brown-Elliott BA, Trovato A, Leão SC, Garcia MJ, et al. Emended description of Mycobacterium abscessus, Mycobacterium abscessus subsp. abscessus and Mycobacterium abscessus subsp. bolletii and designation of Mycobacterium abscessus subsp. massiliense comb. nov. Int J Syst Evol Microbiol 2016;66:4471-9.
10. Nash KA, Brown-Elliott BA, Wallace RJ Jr. A novel gene, erm(41), confers inducible macrolide resistance to clinical isolates of Mycobacterium abscessus but is absent from Mycobacterium chelonae. Antimicrob Agents Chemother 2009;53:1367-76.
11. Bryant JM, Grogono DM, Greaves D, Foweraker J, Roddick I, Inns T, et al. Whole-genome sequencing to identify transmission of Mycobacterium abscessus between patients with cystic fibrosis: A retrospective cohort study. Lancet 2013;381:1551-60.
12. Jönsson BE, Gilljam M, Lindblad A, Ridell M, Wold AE, Welinder-Olsson C. Molecular epidemiology of Mycobacterium abscessus, with focus on cystic fibrosis. J Clin Microbiol 2007;45:1497-504.
13. Matsumoto CK, Chimara E, Bombarda S, Duarte RS, Leão SC. Diversity of pulsed-field gel electrophoresis patterns of Mycobacterium abscessus type 2 clinical isolates. J Clin Microbiol 2011;49:62-8.
14. Harris KA, Kenna DT. Mycobacterium abscessus infection in cystic fibrosis: Molecular typing and clinical outcomes. J Med Microbiol 2014;63(Pt 10):1241-6.
15. Kim SY, Kang YA, Bae IK, Yim JJ, Park MS, Kim YS, et al. Standardization of multilocus sequence typing scheme for Mycobacterium abscessus and Mycobacterium massiliense. Diagn Microbiol Infect Dis 2013;77:143-9.
16. Sassi M, Ben Kahla I, Drancourt M. Mycobacterium abscessus multispacer sequence typing. BMC Microbiol 2013;13:3.
17. Choi GE, Chang CL, Whang J, Kim HJ, Kwon OJ, Koh WJ, et al. Efficient differentiation of Mycobacterium abscessus complex isolates to the species level by a novel PCR-based variable-number tandem-repeat assay. J Clin Microbiol 2011;49:1107-9.
18. Harris KA, Kenna DT, Blauwendraat C, Hartley JC, Turton JF, Aurora P, et al. Molecular fingerprinting of Mycobacterium abscessus strains in a cohort of pediatric cystic fibrosis patients. J Clin Microbiol 2012;50:1758-61.
19. Wong YL, Ong CS, Ngeow YF. Molecular typing of Mycobacterium abscessus based on tandem-repeat polymorphism. J Clin Microbiol 2012;50:3084-8.
20. Shin SJ, Choi GE, Cho SN, Woo SY, Jeong BH, Jeon K, et al. Mycobacterial genotypes are associated with clinical manifestation and progression of lung disease caused by Mycobacterium abscessus and Mycobacterium massiliense. Clin Infect Dis 2013;57:32-9.
21. Adékambi T, Colson P, Drancourt M. rpoB-based identification of nonpigmented and late-pigmenting rapidly growing mycobacteria. J Clin Microbiol 2003;41:5699-708.
22. Hunter PR, Gaston MA. Numerical index of the discriminatory ability of typing systems: An application of Simpson's index of diversity. J Clin Microbiol 1988;26:2465-6.
23. Li H, Durbin R. Fast and accurate short read alignment with burrows-wheeler transform. Bioinformatics 2009;25:1754-60.
24. McKenna A, Hanna M, Banks E, Sivachenko A, Cibulskis K, Kernytsky A, et al. The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res 2010;20:1297-303.
25. Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, et al. The sequence alignment/map format and SAMtools. Bioinformatics 2009;25:2078-9.