Whole genome sequencing of Mycobacterium tuberculosis: current standards and open issues

CJ Meehan, GA Goig, TA Kohl, L Verboven… - NATURE reviews …, 2019 - nature.com
Whole genome sequencing (WGS) of Mycobacterium tuberculosis has rapidly progressed
from a research tool to a clinical application for the diagnosis and management of …

[HTML][HTML] Deciphering drug resistance in Mycobacterium tuberculosis using whole-genome sequencing: progress, promise, and challenges

KA Cohen, AL Manson, CA Desjardins, T Abeel… - Genome medicine, 2019 - Springer
Tuberculosis (TB) is a global infectious threat that is intensified by an increasing incidence of
highly drug-resistant disease. Whole-genome sequencing (WGS) studies of Mycobacterium …

[HTML][HTML] Robust barcoding and identification of Mycobacterium tuberculosis lineages for epidemiological and clinical studies

G Napier, S Campino, Y Merid, M Abebe… - Genome medicine, 2020 - Springer
Background Tuberculosis, caused by bacteria in the Mycobacterium tuberculosis complex
(MTBC), is a major global public health burden. Strain-specific genomic diversity in the …

[HTML][HTML] The relationship between transmission time and clustering methods in Mycobacterium tuberculosis epidemiology

CJ Meehan, P Moris, TA Kohl, J Pečerska, S Akter… - …, 2018 - thelancet.com
Background Tracking recent transmission is a vital part of controlling widespread pathogens
such as Mycobacterium tuberculosis. Multiple methods with specific performance …

[HTML][HTML] Evolutionary pathway analysis and unified classification of East Asian lineage of Mycobacterium tuberculosis

E Shitikov, S Kolchenko, I Mokrousov, J Bespyatykh… - Scientific reports, 2017 - nature.com
Due to its rapid spread and association with the numerous outbreaks, the global spread of
East Asian lineage of Mycobacterium tuberculosis strains presents a global concern …

New insights into the mycobacterial PE and PPE proteins provide a framework for future research

LS Ates - Molecular microbiology, 2020 - Wiley Online Library
The PE and PPE proteins of Mycobacterium tuberculosis have been studied with great
interest since their discovery. Named after the conserved proline (P) and glutamic acid (E) …

[HTML][HTML] Whole genome phylogenies reflect the distributions of recombination rates for many bacterial species

T Sakoparnig, C Field, E van Nimwegen - Elife, 2021 - elifesciences.org
Although recombination is accepted to be common in bacteria, for many species robust
phylogenies with well-resolved branches can be reconstructed from whole genome …

[HTML][HTML] Genomic signatures of pre-resistance in Mycobacterium tuberculosis

A Torres Ortiz, J Coronel, JR Vidal, C Bonilla… - Nature …, 2021 - nature.com
Recent advances in bacterial whole-genome sequencing have resulted in a comprehensive
catalog of antibiotic resistance genomic signatures in Mycobacterium tuberculosis. With a …

The enigmatic PE/PPE multigene family of mycobacteria and tuberculosis vaccination

MJ Brennan - Infection and immunity, 2017 - Am Soc Microbiol
The genome of Mycobacterium tuberculosis, the bacterium responsible for the disease
tuberculosis, contains an unusual family of abundant antigens (PE/PPEs). To date, certain …

[HTML][HTML] The Mycobacterium tuberculosis genome at 25 years: lessons and lingering questions

BN Koleske, WR Jacobs… - The Journal of clinical …, 2023 - Am Soc Clin Investig
First achieved in 1998 by Cole et al., the complete genome sequence of Mycobacterium
tuberculosis continues to provide an invaluable resource to understand tuberculosis (TB) …