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Evaluation of the GenoType® NTM DR for subspecies identification and determination of drug resistance in clinical M. abscessus isolates

Wassilew, N; Hillemann, D; Maurer, FP; Kohl, TA; Merker, M; Brinkmann, F; Lipman, M; (2017) Evaluation of the GenoType® NTM DR for subspecies identification and determination of drug resistance in clinical M. abscessus isolates. Clinical Microbiology: Open Access , 6 (4) , Article 1000286. 10.4172/2327-5073.1000286. Green open access

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Abstract

Introduction: A new line probe assay, the GenoType® NTM DR, has been developed for subspecies identification and detection of resistance to macrolides and aminoglycosides in clinical Mycobacterium abscessus isolates. We studied the performance of the test compared to DNA sequencing and phenotypic drug susceptibility testing (pDST). Methods: 49 clinical M. abscessus isolates collected between 2015 and 2016 were identified to the subspecies level and analysed for erm(41) genotype, rrl and rrs gene mutations by Sanger sequencing. Broth microdilution was performed for pDST of clarithromycin and amikacin. The results were compared to those of the GenoType® NTM DR assay. Discordant results were further analysed by repeat pDST and whole genome sequencing (WGS). Results: 35 isolates were identified as M. abscessus subsp. abscessus, 6 as M. abscessus subsp. bolletii, and 8 as M. abscessus subsp. massiliense based on rpoB sequences. Concordance of GenoType® NTM DR results with Sanger sequencing was 92% forsubspecies identification and 100% for erm(41), rrl, and rrs genotypes, respectively. GenoType® NTM DR and pDST results matched in 98% for clarithromycin resistance and in 96% for amikacin resistance when repeat pDST results were taken into account. Conclusion: The new GenoType® NTM DR assay is a valuable test for subspecies identification of M. abscessus isolates and detection of defined mutations conferring resistance to amikacin and clarithromycin. Discrepancies between the line probe assay and pDST mainly relate to variations in phenotypic test results.

Type: Article
Title: Evaluation of the GenoType® NTM DR for subspecies identification and determination of drug resistance in clinical M. abscessus isolates
Open access status: An open access version is available from UCL Discovery
DOI: 10.4172/2327-5073.1000286
Publisher version: http://doi.org/10.4172/2327-5073.1000286
Language: English
Additional information: Copyright © 2017 Wassilew N, et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Keywords: M. abscessus; GenoType® NTM DR; Subspecies identification; Resistance testing; Whole genome sequencing
UCL classification: UCL > Provost and Vice Provost Offices
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences > Div of Medicine
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences > Div of Medicine > Respiratory Medicine
URI: http://discovery.ucl.ac.uk/id/eprint/1566587
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