Antimicrobial resistance in rivers: a review of the genes detected and new challenges

P Grenni - Environmental Toxicology and Chemistry, 2022‏ - Wiley Online Library
River ecosystems are very important parts of the water cycle and an excellent habitat, food,
and drinking water source for many organisms, including humans. Antibiotics are emerging …

[HTML][HTML] Consequences of genomic diversity in Mycobacterium tuberculosis

M Coscolla, S Gagneux - Seminars in immunology, 2014‏ - Elsevier
The causative agent of human tuberculosis, Mycobacterium tuberculosis complex (MTBC),
comprises seven phylogenetically distinct lineages associated with different geographical …

Whole-genome sequencing for prediction of Mycobacterium tuberculosis drug susceptibility and resistance: a retrospective cohort study

TM Walker, TA Kohl, SV Omar, J Hedge… - The Lancet infectious …, 2015‏ - thelancet.com
Background Diagnosing drug-resistance remains an obstacle to the elimination of
tuberculosis. Phenotypic drug-susceptibility testing is slow and expensive, and commercial …

Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages

D Stucki, D Brites, L Jeljeli, M Coscolla, Q Liu… - Nature …, 2016‏ - nature.com
Generalist and specialist species differ in the breadth of their ecological niches. Little is
known about the niche width of obligate human pathogens. Here we analyzed a global …

A sister lineage of the Mycobacterium tuberculosis complex discovered in the African Great Lakes region

JCS Ngabonziza, C Loiseau, M Marceau… - Nature …, 2020‏ - nature.com
The human-and animal-adapted lineages of the Mycobacterium tuberculosis complex
(MTBC) are thought to have expanded from a common progenitor in Africa. However, the …

Rapid antibiotic-resistance predictions from genome sequence data for Staphylococcus aureus and Mycobacterium tuberculosis

P Bradley, NC Gordon, TM Walker, L Dunn… - Nature …, 2015‏ - nature.com
The rise of antibiotic-resistant bacteria has led to an urgent need for rapid detection of drug
resistance in clinical samples, and improvements in global surveillance. Here we show how …

Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences

F Coll, R McNerney, MD Preston… - Genome medicine, 2015‏ - Springer
Mycobacterium tuberculosis drug resistance (DR) challenges effective tuberculosis disease
control. Current molecular tests examine limited numbers of mutations, and although whole …

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 …

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 …

Antibiotic resistance prediction for Mycobacterium tuberculosis from genome sequence data with Mykrobe

M Hunt, P Bradley, SG Lapierre, S Heys… - Wellcome open …, 2019‏ - pmc.ncbi.nlm.nih.gov
Two billion people are infected with Mycobacterium tuberculosis, leading to 10 million new
cases of active tuberculosis and 1.5 million deaths annually. Universal access to drug …