Ecology and evolution of Mycobacterium tuberculosis

S Gagneux - Nature Reviews Microbiology, 2018 - nature.com
Tuberculosis (TB) is the number one cause of human death due to an infectious disease.
The causative agents of TB are a group of closely related bacteria known as the …

From theory to practice: translating whole-genome sequencing (WGS) into the clinic

F Balloux, OB Brynildsrud, L Van Dorp, LP Shaw… - Trends in …, 2018 - cell.com
Hospitals worldwide are facing an increasing incidence of hard-to-treat infections. Limiting
infections and providing patients with optimal drug regimens require timely strain …

Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis

F Coll, J Phelan, GA Hill-Cawthorne, MB Nair… - Nature …, 2018 - nature.com
To characterize the genetic determinants of resistance to antituberculosis drugs, we
performed a genome-wide association study (GWAS) of 6,465 Mycobacterium tuberculosis …

MTBseq: a comprehensive pipeline for whole genome sequence analysis of Mycobacterium tuberculosis complex isolates

TA Kohl, C Utpatel, V Schleusener, MR De Filippo… - PeerJ, 2018 - peerj.com
Analyzing whole-genome sequencing data of Mycobacterium tuberculosis complex (MTBC)
isolates in a standardized workflow enables both comprehensive antibiotic resistance …

Machine learning and structural analysis of Mycobacterium tuberculosis pan-genome identifies genetic signatures of antibiotic resistance

ES Kavvas, E Catoiu, N Mih, JT Yurkovich… - Nature …, 2018 - nature.com
Mycobacterium tuberculosis is a serious human pathogen threat exhibiting complex
evolution of antimicrobial resistance (AMR). Accordingly, the many publicly available …

Frequent transmission of the Mycobacterium tuberculosis Beijing lineage and positive selection for the EsxW Beijing variant in Vietnam

KE Holt, P McAdam, PVK Thai, NTT Thuong, DTM Ha… - Nature …, 2018 - nature.com
To examine the transmission dynamics of Mycobacterium tuberculosis (Mtb) isolated from
tuberculosis patients in Ho Chi Minh City, Vietnam, we sequenced the whole genomes of …

Outbreak of multidrug-resistant tuberculosis in South Africa undetected by WHO-endorsed commercial tests: an observational study

NA Makhado, E Matabane, M Faccin… - The Lancet Infectious …, 2018 - thelancet.com
Background Global roll-out of rapid molecular assays is revolutionising the diagnosis of
rifampicin resistance, predictive of multidrug-resistance, in tuberculosis. However, 30% of …

Global expansion of Mycobacterium tuberculosis lineage 4 shaped by colonial migration and local adaptation

OB Brynildsrud, CS Pepperell, P Suffys… - Science …, 2018 - science.org
On the basis of population genomic and phylogeographic analyses of 1669 Mycobacterium
tuberculosis lineage 4 (L4) genomes, we find that dispersal of L4 has been completely …

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 …

China's tuberculosis epidemic stems from historical expansion of four strains of Mycobacterium tuberculosis

Q Liu, A Ma, L Wei, Y Pang, B Wu, T Luo… - Nature ecology & …, 2018 - nature.com
A small number of high-burden countries account for the majority of tuberculosis cases
worldwide. Detailed data are lacking from these regions. To explore the evolutionary history …