WGS to predict antibiotic MICs for Neisseria gonorrhoeae

Using whole genome sequencing to identify resistance determinants and predict antimicrobial resistance phenotypes for year 2015 invasive pneumococcal disease isolates recovered in the United States

(2016) B.J. Metcalf et al.   CLINICAL MICROBIOLOGY AND INFECTION

WGS analysis and molecular resistance mechanisms of azithromycin-resistant (MIC >2 mg/L)Neisseria gonorrhoeaeisolates in Europe from 2009 to 2014

(2016) Susanne Jacobsson et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

The novel 2016 WHONeisseria gonorrhoeaereference strains for global quality assurance of laboratory investigations: phenotypic, genetic and reference genome characterization

(2016) Magnus Unemo et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Genomic Epidemiology and Molecular Resistance Mechanisms of Azithromycin-Resistant Neisseria gonorrhoeae in Canada from 1997 to 2014

(2016) Walter Demczuk et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Genomic Epidemiology of Gonococcal Resistance to Extended-Spectrum Cephalosporins, Macrolides, and Fluoroquinolones in the United States, 2000–2013

(2016) Yonatan H. Grad et al.   JOURNAL OF INFECTIOUS DISEASES

Whole-genome sequencing to determine transmission of Neisseria gonorrhoeae : an observational study

(2016) Dilrini De Silva et al.   LANCET INFECTIOUS DISEASES

Penicillin-Binding Protein Transpeptidase Signatures for Tracking and Predicting β-Lactam Resistance Levels in Streptococcus pneumoniae

(2016) Yuan Li et al.   mBio

Identifying lineage effects when controlling for population structure improves power in bacterial association studies

(2016) Sarah G. Earle et al.   Nature Microbiology

Effect of Variants of Penicillin-Binding Protein 2 on Cephalosporin and Carbapenem Susceptibilities in Neisseria gonorrhoeae

(2015) Amrita Bharat et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

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

(2015) Timothy M Walker et al.   LANCET INFECTIOUS DISEASES

Antimicrobial Resistance in Neisseria gonorrhoeae in the 21st Century: Past, Evolution, and Future

(2014) M. Unemo et al.   CLINICAL MICROBIOLOGY REVIEWS

Preparing for an era of untreatable gonorrhea

(2014) Lindley A. Barbee   CURRENT OPINION IN INFECTIOUS DISEASES

Prediction of Staphylococcus aureus Antimicrobial Resistance by Whole-Genome Sequencing

(2014) N. C. Gordon et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Genomic epidemiology of Neisseria gonorrhoeae with reduced susceptibility to cefixime in the USA: a retrospective observational study

(2014) Yonatan H Grad et al.   LANCET INFECTIOUS DISEASES

Predicting antimicrobial susceptibilities for Escherichia coli and Klebsiella pneumoniae isolates using whole genomic sequence data

(2013) N. Stoesser et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Emergence of multidrug-resistant, extensively drug-resistant and untreatable gonorrhea

(2012) Magnus Unemo et al.   Future Microbiology

Transforming clinical microbiology with bacterial genome sequencing

(2012) Xavier Didelot et al.   NATURE REVIEWS GENETICS

Is Neisseria gonorrhoeae Initiating a Future Era of Untreatable Gonorrhea?: Detailed Characterization of the First Strain with High-Level Resistance to Ceftriaxone

(2011) Makoto Ohnishi et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

High-Level Cefixime- and Ceftriaxone-Resistant Neisseria gonorrhoeae in France: NovelpenAMosaic Allele in a Successful International Clone Causes Treatment Failure

(2011) Magnus Unemo et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Emergence of a Neisseria gonorrhoeae clone showing decreased susceptibility to cefixime in England and Wales

(2011) S. A. Chisholm et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

A Novel Mechanism of High-Level, Broad-Spectrum Antibiotic Resistance Caused by a Single Base Pair Change in Neisseria gonorrhoeae

(2011) E. A. Ohneck et al.   mBio

High-Level Azithromycin Resistance Occurs in Neisseria gonorrhoeae as a Result of a Single Point Mutation in the 23S rRNA Genes

(2010) S. A. Chisholm et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Identification of TEM-135  -Lactamase in Penicillinase-Producing Neisseria gonorrhoeae Strains in Japan

(2010) M. Ohnishi et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Genetics of Chromosomally Mediated Intermediate Resistance to Ceftriaxone and Cefixime in Neisseria gonorrhoeae

(2009) S. Zhao et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Phenotypic and genetic characterization of the 2008 WHO Neisseria gonorrhoeae reference strain panel intended for global quality assurance and quality control of gonococcal antimicrobial resistance surveillance for public health purposes

(2009) M. Unemo et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Clinically relevant mutations that cause derepression of theNeisseria gonorrhoeaeMtrC-MtrD-MtrE Efflux pump system confer different levels of antimicrobial resistance andin vivofitness

(2008) Douglas M. Warner et al.   MOLECULAR MICROBIOLOGY