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Mycobacterium tuberculosis Diversity Exploration: A Way to Serve the Three Main Weapons against Epidemics, Hygiene, Vaccine Development and Chemotherapy
 
 
Article

Use of Whole-Genome Sequencing to Explore Mycobacterium tuberculosis Complex Circulating in a Hotspot Department in France

1
Groupe Hospitalier Paris Seine Saint-Denis, AP-HP, Hôpital Avicenne, Service de Microbiologie Clinique, 93000 Bobigny, France
2
INSERM UMR 1137, IAME, Université Sorbonne Paris Nord, 75018 Paris, France
3
Groupe Hospitalier Paris Seine Saint-Denis, AP-HP, Hôpital Jean Verdier, Service de Pédiatrie, 98140 Bondy, France
4
Groupe Hospitalier Paris Seine Saint-Denis, AP-HP, Hôpital Avicenne, Service de Maladies Infectieuses et Tropicales, 93000 Bobigny, France
*
Author to whom correspondence should be addressed.
Academic Editors: Guislaine Réfrégier and Charlotte Genestet
Microorganisms 2022, 10(8), 1586; https://doi.org/10.3390/microorganisms10081586
Received: 28 June 2022 / Revised: 18 July 2022 / Accepted: 3 August 2022 / Published: 6 August 2022
(This article belongs to the Special Issue Diversity of Mycobacterium tuberculosis)
The Seine-Saint-Denis is the French metropolitan department with the highest incidence of tuberculosis (TB). Our aim was to explore epidemiological and phylogenetic characteristics of TB strains in this hotspot department. We performed WGS on 227 strains of Mycobacterium tuberculosis complex isolated from patients at the Avicenne Hospital from 2016 to 2021 and randomly selected to represent the clinical diversity of French TB localization. Clinical and demographic data were recorded for each TB patient. The mean age of patients was 36 years old. They came from Africa (44%), Asia (27%), Europe (26%) and America (3%). Strains isolated from extrapulmonary samples were associated with Asian patients, whereas strains isolated from pulmonary samples were associated with European patients. We observed a high level of lineage diversity in line with the known worldwide diversity. Interestingly, lineage 3 was associated with lymph node TB. Additionally, the sensitivity of WGS for predicting resistance was 100% for rifampicin, isoniazid and ethambutol and 66.7% for pyrazinamide. The global concordance with drug-susceptibility testing using the phenotypic approach was 97%. In microbiology laboratories, WGS turns out to be an essential tool for better understanding local TB epidemiology, with direct access to circulating lineage identification and to drug susceptibilities to first- and second-line anti-TB drugs. View Full-Text
Keywords: Mycobacterium tuberculosis; whole-genome sequencing; hotspot region; lineage diversity Mycobacterium tuberculosis; whole-genome sequencing; hotspot region; lineage diversity
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MDPI and ACS Style

Billard-Pomares, T.; Marin, J.; Quagliaro, P.; Méchaï, F.; Walewski, V.; Dziri, S.; Carbonnelle, E. Use of Whole-Genome Sequencing to Explore Mycobacterium tuberculosis Complex Circulating in a Hotspot Department in France. Microorganisms 2022, 10, 1586. https://doi.org/10.3390/microorganisms10081586

AMA Style

Billard-Pomares T, Marin J, Quagliaro P, Méchaï F, Walewski V, Dziri S, Carbonnelle E. Use of Whole-Genome Sequencing to Explore Mycobacterium tuberculosis Complex Circulating in a Hotspot Department in France. Microorganisms. 2022; 10(8):1586. https://doi.org/10.3390/microorganisms10081586

Chicago/Turabian Style

Billard-Pomares, Typhaine, Julie Marin, Pauline Quagliaro, Frédéric Méchaï, Violaine Walewski, Samira Dziri, and Etienne Carbonnelle. 2022. "Use of Whole-Genome Sequencing to Explore Mycobacterium tuberculosis Complex Circulating in a Hotspot Department in France" Microorganisms 10, no. 8: 1586. https://doi.org/10.3390/microorganisms10081586

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