What question did this study set out to answer?

To evaluate the performance of a targeted deep-sequencing assay for culture-free prediction of Mycobacterium tuberculosis resistance to 13 anti-tuberculosis drugs directly from sputum samples.

September 17, 2020European Respiratory JournalOpen Access

Deep amplicon sequencing for culture-free prediction of susceptibility or resistance to 13 anti-tuberculous drugs

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Authors

AJAgathe Jouet CGCyril Gaudin NBNelly Badalato

Discussion

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Overview

Diagnostic study demonstrates high accuracy of targeted deep sequencing for detecting resistance to 13 anti-tuberculosis drugs in sputum samples, indicating potential for rapid tailored treatment.

Key Points

To evaluate the performance of a targeted deep-sequencing assay for culture-free prediction of Mycobacterium tuberculosis resistance to 13 anti-tuberculosis drugs directly from sputum samples.
Determined the analytical limit of detection on DNA and evaluated in silico concordance using 3,651 Mycobacterium tuberculosis complex genomes against whole-genome sequencing.
Tested clinical diagnostic accuracy on 429 culture isolates and validated direct culture-free application on clinical sputum specimens from Djibouti (N=109) and the Democratic Republic of the Congo (N=1,494).
Across 429 clinical isolates (2,369 phenotypes), the assay achieved an overall sensitivity of 95.3% and a specificity of 95.0% (95.4% and 97.1%, respectively, when excluding ethionamide).
Direct testing on 109 sputum samples matched culture-based whole-genome sequencing predictions with sensitivities of 93.1% to 98.5% and specificities of 95.3% to 98.5% across standard bioinformatics pipelines.
Direct application on 1,494 challenging sputum specimens successfully predicted 76.7% (14,902 of 19,422) of possible drug susceptibility and resistance phenotypes without bacterial culture.

Cite This Study

Jouet et al. (2020) studied this question.

synapsesocial.com/papers/6a73a14599c817e23aa73374 https://doi.org/10.1183/13993003.02338-2020

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September 17, 2020European Respiratory JournalOpen Access

Deep amplicon sequencing for culture-free prediction of susceptibility or resistance to 13 anti-tuberculous drugs

View Full Paper

Ask AI

Bookmark

Authors

AJAgathe Jouet CGCyril Gaudin NBNelly Badalato

Discussion

Member takes

Overview

Diagnostic study demonstrates high accuracy of targeted deep sequencing for detecting resistance to 13 anti-tuberculosis drugs in sputum samples, indicating potential for rapid tailored treatment.

Key Points

To evaluate the performance of a targeted deep-sequencing assay for culture-free prediction of Mycobacterium tuberculosis resistance to 13 anti-tuberculosis drugs directly from sputum samples.
Determined the analytical limit of detection on DNA and evaluated in silico concordance using 3,651 Mycobacterium tuberculosis complex genomes against whole-genome sequencing.
Tested clinical diagnostic accuracy on 429 culture isolates and validated direct culture-free application on clinical sputum specimens from Djibouti (N=109) and the Democratic Republic of the Congo (N=1,494).
Across 429 clinical isolates (2,369 phenotypes), the assay achieved an overall sensitivity of 95.3% and a specificity of 95.0% (95.4% and 97.1%, respectively, when excluding ethionamide).
Direct testing on 109 sputum samples matched culture-based whole-genome sequencing predictions with sensitivities of 93.1% to 98.5% and specificities of 95.3% to 98.5% across standard bioinformatics pipelines.
Direct application on 1,494 challenging sputum specimens successfully predicted 76.7% (14,902 of 19,422) of possible drug susceptibility and resistance phenotypes without bacterial culture.

Cite This Study

Jouet et al. (2020) studied this question.

synapsesocial.com/papers/6a73a14599c817e23aa73374 https://doi.org/10.1183/13993003.02338-2020

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