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Multi-clonal evolution of MDR/XDR M. tuberculosis in a high prevalence setting in Papua New Guinea over three decades

https://doi.org/10.1101/172601
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/s40265-014-0248-yopenalex-snapshot
Evolution of Drug Resistance in Tuberculosis: Recent Progress and Implications for Diagnosis and Therapy
inferredcites →https://doi.org/10.1016/j.chom.2010.02.006openalex-snapshot
Mycobacterium tuberculosis MycP1 Protease Plays a Dual Role in Regulation of ESX-1 Secretion and Virulence
inferredcites →https://doi.org/10.1016/j.meegid.2012.02.004openalex-snapshot
SITVITWEB – A publicly available international multimarker database for studying Mycobacterium tuberculosis genetic diversity and molecular epidemiology
inferredcites →https://doi.org/10.1016/j.micinf.2014.06.012openalex-snapshot
Tuberculosis in Papua New Guinea: from yesterday until today
inferredcites →https://doi.org/10.1016/s1473-3099(12)70277-3openalex-snapshot
Whole-genome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study
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Drug-resistant tuberculosis: time for visionary political leadership
inferredcites →https://doi.org/10.1016/s2213-2600(16)00101-6openalex-snapshot
Outbreak of multidrug-resistant tuberculosis on Daru Island
inferredcites →https://doi.org/10.1038/ncomms5812openalex-snapshot
A robust SNP barcode for typing Mycobacterium tuberculosis complex strains
inferredcites →https://doi.org/10.1038/ncomms8119openalex-snapshot
Four decades of transmission of a multidrug-resistant Mycobacterium tuberculosis outbreak strain
inferredcites →https://doi.org/10.1038/ng.1038openalex-snapshot
Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes
inferredcites →https://doi.org/10.1038/ng.2656openalex-snapshot
Mycobacterium tuberculosis mutation rate estimates from different lineages predict substantial differences in the emergence of drug-resistant tuberculosis
inferredcites →https://doi.org/10.1038/ng.2743openalex-snapshot
Evolution of high-level ethambutol-resistant tuberculosis through interacting mutations in decaprenylphosphoryl-β-D-arabinose biosynthetic and utilization pathway genes
inferredcites →https://doi.org/10.1038/ng.2878openalex-snapshot
Evolution and transmission of drug-resistant tuberculosis in a Russian population
inferredcites →https://doi.org/10.1038/ng.3195openalex-snapshot
Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage
inferredcites →https://doi.org/10.1038/ng.3767openalex-snapshot
Genomic analysis of globally diverse Mycobacterium tuberculosis strains provides insights into the emergence and spread of multidrug resistance
inferredcites →https://doi.org/10.1038/ng.811openalex-snapshot
Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection
inferredcites →https://doi.org/10.1073/pnas.1424063112openalex-snapshot
Southern East Asian origin and coexpansion of Mycobacterium tuberculosis Beijing family with Han Chinese
inferredcites →https://doi.org/10.1074/jbc.m113.462036openalex-snapshot
Structure of the Mycosin-1 Protease from the Mycobacterial ESX-1 Protein Type VII Secretion System
inferredcites →https://doi.org/10.1080/10635150802429642openalex-snapshot
A Rapid Bootstrap Algorithm for the RAxML Web Servers
inferredcites →https://doi.org/10.1093/bioinformatics/bts544openalex-snapshot
SpolPred: rapid and accurate prediction of Mycobacterium tuberculosis spoligotypes from short genomic sequences
inferredcites →https://doi.org/10.1093/bioinformatics/btu170openalex-snapshot
Trimmomatic: a flexible trimmer for Illumina sequence data
inferredcites →https://doi.org/10.1093/molbev/mss243openalex-snapshot
Accurate Model Selection of Relaxed Molecular Clocks in Bayesian Phylogenetics
inferredcites →https://doi.org/10.1099/jmm.0.05343-0openalex-snapshot
Genotypic analysis of multidrug-resistant Mycobacterium tuberculosis isolates from Monterrey, Mexico
inferredcites →https://doi.org/10.1101/gr.107524.110openalex-snapshot
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
inferredcites →https://doi.org/10.1128/aac.04933-14openalex-snapshot
Analysis of embCAB Mutations Associated with Ethambutol Resistance in Multidrug-Resistant Mycobacterium tuberculosis Isolates from China
inferredcites →https://doi.org/10.1128/aac.45.7.2157-2159.2001openalex-snapshot
Novel Mutations in ndh in Isoniazid-Resistant Mycobacterium tuberculosis Isolates
inferredcites →https://doi.org/10.1128/jcm.00770-08openalex-snapshot
Discordance between Mycobacterial Interspersed Repetitive-Unit-Variable-Number Tandem-Repeat Typing and IS6110Restriction Fragment Length Polymorphism Genotyping for Analysis ofMycobacterium tuberculosisBeijing Strains in a Setting of High Incidence of Tuberculosis
inferredcites →https://doi.org/10.1128/jcm.01392-06openalex-snapshot
Proposal for Standardization of Optimized Mycobacterial Interspersed Repetitive Unit-Variable-Number Tandem Repeat Typing of Mycobacterium tuberculosis
inferredcites →https://doi.org/10.1128/jcm.26.11.2465-2466.1988openalex-snapshot
Numerical index of the discriminatory ability of typing systems: an application of Simpson's index of diversity
inferredcites →https://doi.org/10.1128/jcm.44.3.811-818.2006openalex-snapshot
Evaluation of MGIT 960-Based Antimicrobial Testing and Determination of Critical Concentrations of First- and Second-Line Antimicrobial Drugs with Drug-Resistant Clinical Strains of Mycobacterium tuberculosis
inferredcites →https://doi.org/10.1186/1471-2180-12-191openalex-snapshot
Drug resistance-conferring mutations in Mycobacterium tuberculosis from Madang, Papua New Guinea
inferredcites →https://doi.org/10.1186/1471-2334-13-110openalex-snapshot
Inferring patient to patient transmission of Mycobacterium tuberculosisfrom whole genome sequencing data
inferredcites →https://doi.org/10.1186/s12866-014-0307-2openalex-snapshot
Diversity of Mycobacterium tuberculosis and drug resistance in different provinces of Papua New Guinea
inferredcites →https://doi.org/10.1371/journal.pcbi.1004710openalex-snapshot
Adaptive Landscape by Environment Interactions Dictate Evolutionary Dynamics in Models of Drug Resistance
inferredcites →https://doi.org/10.1371/journal.pmed.1001880openalex-snapshot
Evolution of Extensively Drug-Resistant Tuberculosis over Four Decades: Whole Genome Sequencing and Dating Analysis of Mycobacterium tuberculosis Isolates from KwaZulu-Natal
inferredcites →https://doi.org/10.1371/journal.pone.0007815openalex-snapshot
Genotyping of Genetically Monomorphic Bacteria: DNA Sequencing in Mycobacterium tuberculosis Highlights the Limitations of Current Methodologies
inferredcites →https://doi.org/10.1371/journal.pone.0033275openalex-snapshot
Evaluation of Genetic Mutations Associated with Mycobacterium tuberculosis Resistance to Amikacin, Kanamycin and Capreomycin: A Systematic Review
inferredcites →https://doi.org/10.1371/journal.pone.0070919openalex-snapshot
Programmatically Selected Multidrug-Resistant Strains Drive the Emergence of Extensively Drug-Resistant Tuberculosis in South Africa
inferredcites →https://doi.org/10.1371/journal.pone.0082551openalex-snapshot
Whole Genome Sequencing Reveals Complex Evolution Patterns of Multidrug-Resistant Mycobacterium tuberculosis Beijing Strains in Patients
inferredcites →https://doi.org/10.1371/journal.pone.0149806openalex-snapshot
The Burden of Drug-Resistant Tuberculosis in Papua New Guinea: Results of a Large Population-Based Survey
inferredcites →https://doi.org/10.1371/journal.pone.0163612openalex-snapshot
Whole Genome Sequencing Demonstrates Limited Transmission within Identified Mycobacterium tuberculosis Clusters in New South Wales, Australia
inferredcites →https://doi.org/10.1371/journal.ppat.1002507openalex-snapshot
Phagosomal Rupture by Mycobacterium tuberculosis Results in Toxicity and Host Cell Death
inferredcites →https://doi.org/10.4161/fly.19695openalex-snapshot
A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff
inferredcites →https://doi.org/10.5588/ijtld.15.0221openalex-snapshot
Clinical implications of molecular drug resistance testing for Mycobacterium tuberculosis: a TBNET/RESIST-TB consensus statement
inferredcites →https://doi.org/10.5588/ijtld.15.0389openalex-snapshot
Mechanisms of drug resistance in Mycobacterium tuberculosis: update 2015
inferredcites →https://doi.org/10.7554/elife.05166openalex-snapshot
Large-scale whole genome sequencing of M. tuberculosis provides insights into transmission in a high prevalence area

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/j.tube.2018.06.006openalex-snapshot
Characterization of pncA mutations in multi-drug and pyrazinamide resistant Mycobacterium tuberculosis isolates cultured from Queensland migrants and Papua New Guinea residents
inferred← citeshttps://doi.org/10.1101/256719openalex-snapshot
A complete high quality nanopore-only assembly of an XDR Mycobacterium tuberculosis Beijing lineage strain identifies novel variation in repetitive PE/PPE gene regions
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