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Rapid genomic first- and second-line drug resistance prediction from clinical Mycobacterium tuberculosis specimens using Deeplex®-MycTB

Silke Feuerriegel, Thomas A. Kohl, Christian Utpatel, Sönke Andres, Florian P. Maurer, Jan Heyckendorf, Agathe Jouet, Nelly Badalato, Lynda Foray, Rashidatu Fouad Kamara, Osman S. Conteh, Philip Supply, Stefan Niemann
European Respiratory Journal 2020; DOI: 10.1183/13993003.01796-2020
Silke Feuerriegel
1Molecular and Experimental Mycobacteriology, Research Centre Borstel, Borstel, Germany
2German Centre for Infection Research (DZIF), Partner site Hamburg-Lübeck-Borstel, Borstel, Germany
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Thomas A. Kohl
1Molecular and Experimental Mycobacteriology, Research Centre Borstel, Borstel, Germany
2German Centre for Infection Research (DZIF), Partner site Hamburg-Lübeck-Borstel, Borstel, Germany
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  • ORCID record for Thomas A. Kohl
Christian Utpatel
1Molecular and Experimental Mycobacteriology, Research Centre Borstel, Borstel, Germany
2German Centre for Infection Research (DZIF), Partner site Hamburg-Lübeck-Borstel, Borstel, Germany
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Sönke Andres
3National and WHO Supranational Reference Centre for Mycobacteria, Research Centre Borstel, Borstel, Germany
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Florian P. Maurer
3National and WHO Supranational Reference Centre for Mycobacteria, Research Centre Borstel, Borstel, Germany
4Institute of Medical Microbiology, Virology and Hygiene, University Medical Centre Hamburg-Eppendorf, Hamburg, Germany
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  • ORCID record for Florian P. Maurer
Jan Heyckendorf
2German Centre for Infection Research (DZIF), Partner site Hamburg-Lübeck-Borstel, Borstel, Germany
5Clinical Infectious Diseases, Research Centre Borstel, Borstel, Germany
6International Health/Infectious Diseases, University of Lübeck, Lübeck, Germany
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  • ORCID record for Jan Heyckendorf
Agathe Jouet
7Genoscreen, Campus de l'Institut Pasteur de Lille, Lille, France
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Nelly Badalato
7Genoscreen, Campus de l'Institut Pasteur de Lille, Lille, France
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Lynda Foray
8National Tuberculosis Control Programme, Ministry of Health and Sanitation, Freetown, Sierra Leone
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Rashidatu Fouad Kamara
8National Tuberculosis Control Programme, Ministry of Health and Sanitation, Freetown, Sierra Leone
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Osman S. Conteh
9National Reference Laboratory, Lakka Government Hospital, Freetown, Sierra Leone
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Philip Supply
10Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 9017 - CIIL - Center for Infection and Immunity of Lille, Lille, France
11Philip Supply and Stefan Niemann contributed equally to the study
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Stefan Niemann
1Molecular and Experimental Mycobacteriology, Research Centre Borstel, Borstel, Germany
2German Centre for Infection Research (DZIF), Partner site Hamburg-Lübeck-Borstel, Borstel, Germany
11Philip Supply and Stefan Niemann contributed equally to the study
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  • For correspondence: sniemann@fz-borstel.de
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Footnotes

This manuscript has recently been accepted for publication in the European Respiratory Journal. It is published here in its accepted form prior to copyediting and typesetting by our production team. After these production processes are complete and the authors have approved the resulting proofs, the article will move to the latest issue of the ERJ online. Please open or download the PDF to view this article.

Conflict of interest: Dr. Andres has nothing to disclose.

Conflict of interest: Dr. Badalato reports personal fees from GenoScreen, during the conduct of the study; personal fees from GenoScreen, outside the submitted work.

Conflict of interest: Dr. Conteh has nothing to disclose.

Conflict of interest: Dr. Feuerriegel has nothing to disclose.

Conflict of interest: Dr. Foray has nothing to disclose.

Conflict of interest: Dr. Fouad Kamara has nothing to disclose.

Conflict of interest: Dr. Heyckendorf has nothing to disclose.

Conflict of interest: Dr. Jouet reports personal fees from GenoScreen, during the conduct of the study.

Conflict of interest: Dr. Kohl has nothing to disclose.

Conflict of interest: Dr. Maurer has nothing to disclose.

Conflict of interest: Dr. Niemann reports grants from German Center for Infection Research, grants from Excellenz Cluster Precision Medicine in Chronic Inflammation EXC 2167, grants from Leibniz Science Campus Evolutionary Medicine of the LUNG (EvoLUNG), during the conduct of the study.

Conflict of interest: Dr. Supply reports personal fees from Genoscreen, during the conduct of the study.

Conflict of interest: Dr. Utpatel has nothing to disclose.

This is a PDF-only article. Please click on the PDF link above to read it.

  • Received May 1, 2020.
  • Accepted June 24, 2020.
  • Copyright ©ERS 2020
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Rapid genomic first- and second-line drug resistance prediction from clinical Mycobacterium tuberculosis specimens using Deeplex®-MycTB
Silke Feuerriegel, Thomas A. Kohl, Christian Utpatel, Sönke Andres, Florian P. Maurer, Jan Heyckendorf, Agathe Jouet, Nelly Badalato, Lynda Foray, Rashidatu Fouad Kamara, Osman S. Conteh, Philip Supply, Stefan Niemann
European Respiratory Journal Jan 2020, 2001796; DOI: 10.1183/13993003.01796-2020

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Rapid genomic first- and second-line drug resistance prediction from clinical Mycobacterium tuberculosis specimens using Deeplex®-MycTB
Silke Feuerriegel, Thomas A. Kohl, Christian Utpatel, Sönke Andres, Florian P. Maurer, Jan Heyckendorf, Agathe Jouet, Nelly Badalato, Lynda Foray, Rashidatu Fouad Kamara, Osman S. Conteh, Philip Supply, Stefan Niemann
European Respiratory Journal Jan 2020, 2001796; DOI: 10.1183/13993003.01796-2020
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