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Your search keyword '"Jean-Luc, Berland"' showing total 5 results
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5 results on '"Jean-Luc, Berland"'

1. Mycobacterium tuberculosis genetic features associated with pulmonary tuberculosis severity

Author

Charlotte Genestet, Guislaine Refrégier, Elisabeth Hodille, Rima Zein-Eddine, Adrien Le Meur, Fiona Hak, Alexia Barbry, Emilie Westeel, Jean-Luc Berland, Astrid Engelmann, Isabelle Verdier, Gérard Lina, Florence Ader, Stéphane Dray, Laurent Jacob, François Massol, Samuel Venner, and Oana Dumitrescu

Subjects
Genetic heterogeneity, Genome-wide association study, Mycobacterium tuberculosis, Pulmonary tuberculosis, Structural equation modeling, Whole genome sequencing, Infectious and parasitic diseases, RC109-216
Abstract

ABSTRACT: Objectives: Mycobacterium tuberculosis (Mtb) infections result in a wide spectrum of clinical presentations but without proven Mtb genetic determinants. Herein, we hypothesized that the genetic features of Mtb clinical isolates, such as specific polymorphisms or microdiversity, may be linked to tuberculosis (TB) severity. Methods: A total of 234 patients with pulmonary TB (including 193 drug-susceptible and 14 monoresistant cases diagnosed between 2017 and 2020 and 27 multidrug-resistant cases diagnosed between 2010 and 2020) were stratified according to TB disease severity, and Mtb genetic features were explored using whole genome sequencing, including heterologous single-nucleotide polymorphism (SNP), calling to explore microdiversity. Finally, we performed a structural equation modeling analysis to relate TB severity to Mtb genetic features. Results: The clinical isolates from patients with mild TB carried mutations in genes associated with host-pathogen interaction, whereas those from patients with moderate/severe TB carried mutations associated with regulatory mechanisms. Genome-wide association study identified an SNP in the promoter of the gene coding for the virulence regulator espR, statistically associated with moderate/severe disease. Structural equation modeling and model comparisons indicated that TB severity was associated with the detection of Mtb microdiversity within clinical isolates and to the espR SNP. Conclusion: Taken together, these results provide a new insight to better understand TB pathophysiology and could provide a new prognosis tool for pulmonary TB severity.

Published
2022
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3. Genome Sequences of 25 SARS-CoV-2 Sublineage B.1.1.529 Omicron Strains in Bangladesh

Author

Omar Hamza Bin Manjur, Mokibul Hassan Afrad, Manjur Hossain Khan, Mohabbat Hossain, Zannat Kawser, Ahmed Nawsher Alam, Nandita Banik, Saruar Alam, Mallick Masum Billah, Nawroz Afreen, Farhana Khanam, Taufiqur Rahman Bhuiyan, Mohammed Ziaur Rahman, Emilie Westeel, Jean-Luc Berland, Florence Komurian-Pradel, Sayera Banu, Mustafizur Rahman, Nicholas R. Thompson, Firdausi Qadri, and Tahmina Shirin

Subjects
Immunology and Microbiology (miscellaneous), Genetics, Molecular Biology
Abstract

We report the coding-complete genome sequences of 25 severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) sublineage B.1.1.529 Omicron strains obtained from Bangladeshi individuals in samples collected between December 2021 and January 2022. Genomic data were generated by Nanopore sequencing using the amplicon sequencing approach developed by the ARTIC Network.

Published
2022

4. Within-host genetic micro-diversity of Mycobacterium tuberculosis and the link with tuberculosis disease features

Author

Oana Dumitrescu, Stéphane Dray, Emilie Westeel, Jean-Luc Berland, Alexia Barbry, Gerard Lina, Laurent Jacob, Elisabeth Hodille, Samuel Venner, Charlotte Genestet, Florence Ader, François Massol, Guislaine Refrégier, Centre International de Recherche en Infectiologie (CIRI), École normale supérieure de Lyon (ENS de Lyon)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Université Jean Monnet - Saint-Étienne (UJM)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Bactériologie de l'Hôpital de la Croix-Rousse, Hospices Civils de Lyon (HCL), Évolution, Écologie et Paléontologie (Evo-Eco-Paleo) - UMR 8198 (Evo-Eco-Paléo (EEP)), Université de Lille-Centre National de la Recherche Scientifique (CNRS), Centre d’Infection et d’Immunité de Lille - INSERM U 1019 - UMR 9017 - UMR 8204 (CIIL), Institut Pasteur de Lille, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Lille-Centre Hospitalier Régional Universitaire [Lille] (CHRU Lille)-Centre National de la Recherche Scientifique (CNRS), Institut de Biologie Intégrative de la Cellule (I2BC), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Ecologie Systématique et Evolution (ESE), AgroParisTech-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Fondation Mérieux, Service des Maladies Infectieuses et Tropicales [Lyon], Hôpital de la Croix-Rousse [CHU - HCL], Hospices Civils de Lyon (HCL)-Hospices Civils de Lyon (HCL), Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), Département PEGASE [LBBE] (PEGASE), Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Baobab, Université de Lyon-Université de Lyon-Institut National de Recherche en Informatique et en Automatique (Inria)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Equipe de recherche européenne en algorithmique et biologie formelle et expérimentale (ERABLE), Inria Grenoble - Rhône-Alpes, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria), Centre International de Recherche en Infectiologie - UMR (CIRI), Institut National de la Santé et de la Recherche Médicale (INSERM)-École normale supérieure - Lyon (ENS Lyon)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS), Évolution, Écologie et Paléontologie (Evo-Eco-Paleo) - UMR 8198 (Evo-Eco-Paléo), Centre National de la Recherche Scientifique (CNRS)-Centre Hospitalier Régional Universitaire [Lille] (CHRU Lille)-Université de Lille-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut Pasteur de Lille, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), and Institute for Integrative Biology of the Cell [Gif-sur-Yvette] (I2BC)

Subjects
0303 health sciences, Tuberculosis, biology, 030306 microbiology, Severity symptoms, business.industry, Host (biology), media_common.quotation_subject, respiratory system, medicine.disease, biology.organism_classification, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, 3. Good health, Contagious disease, Mycobacterium tuberculosis, 03 medical and health sciences, Immunology, Medicine, Tuberculosis Disease, business, 030304 developmental biology, Diversity (politics), media_common
Abstract

Tuberculosis (TB), caused by Mycobacterium tuberculosis (Mtb) complex, is still the number one deadly contagious disease. Mtb infection results in a wide spectrum of clinical presentations and severity symptoms, but without proven Mtb genetic determinants. Thanks to a collection of 355 clinical isolates with associated patient’s clinical data, we showed that Mtb micro-diversity within patient isolates is strongly correlated with TB-associated severity scores. Interestingly, this diversity is driven by a selection pressure to adapt to different lifestyles related to the infection site. Taken together, these results provide a new insight to better understand TB pathophysiology. Furthermore, Mtb micro-diversity could be envisioned as a new prognostic tool to improve the management of TB patients.

Published
2021

5. Expanded tracking of a Beijing Mycobacterium tuberculosis strain involved in an outbreak in France

Author

Darío García de Viedma, Álvaro Chiner-Oms, Marta Herranz, Oana Dumitrescu, Sandra R Maus, Jean-Luc Berland, Isabel Portugal, Iñaki Comas, João Perdigão, Laura Pérez-Lago, Charlotte Genestet, Patricia Muñoz, Instituto de Salud Carlos III, European Commission, Comas, Iñaki, and Chiner-Oms, Alvaro

Subjects
Genotype, biology, Strain (chemistry), Public Health, Environmental and Occupational Health, Cross-border, Strain-specific PCR, Outbreak, Mycobacterium tuberculosis, biology.organism_classification, Virology, Disease Outbreaks, Infectious Diseases, Geography, Beijing, Humans, Tuberculosis, France, WGS
Abstract

14 páginas, 3 figuras, 1 tabla, Advanced epidemiological surveillance supported on genomic epidemiology were necessary to fully describe a Mycobacterium tuberculosis Beijing strain (ARA, Auvergne-Rhône-Alpes region) outbreak in France. The index case was a migrant from Cape Verde with a two-year history of tuberculosis, high bacillary load, and frequent trips within France and to Portugal. We designed an ARA-specific PCR to complete the tracking of this outbreak strain. The ARA-specific PCR was applied on 160 Beijing isolates from independent cases from the Auvergne-Rhône-Alpes region and on 25 cases from Cape Verde migrants in the Île-de-France region. No more cases were found, indicating that the previous surveillance had been exhaustive enough to capture the whole dimension of the outbreak in France. Next, we performed a cross-border surveillance, applying the PCR on 38 Beijing isolates in Portuthe gal. In all four cases (all migrants from Cape Verde) the ARA strain was identified. Whole genome sequences analysis of all ARA isolates representatives indicated a diversification of the strain into two variants present one in France and one in Portugal, This work was supported by ERANet-LAC [ELAC2015/T08-0664] and Instituto de Salud Carlos III [AC16/00057, FIS15/01554, FIS13/ 01207, CP15/00075, PI16/01449, 1PI19/00331] and cofounded by European Regional Development Funds from the European Commission: “A way of making Europe”. Miguel Servet Contract CP15/00075 and CPII20/00001) to LPL. JP [CEECIND/00394/2017] is supported by FCT through Estímulo Individual ao Emprego Cientifico.

Published
2021

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