The Metafind (Metagenomics for Infectious Diseases) Project: Developing Clinical Metagenomicsto Improve the Healthcare of Patients With Infections

Exploration of the genomic diversity of third-generation cephalosporin-resistant Escherichia coli in Australian clinical settings

M Maqbool, NL Sherry, JC Kwong, BP Howden, CL Gorrie, DJ Ingle

2026-01-01

Escherichia coli resistant to third-generation cephalosporins (3GCs) is a WHO priority pathogen due to its antimicrobial resistanc..

Rifaximin prophylaxis causes resistance to the last-resort antibiotic daptomycin

AM Turner, L Li, IR Monk, JYH Lee, DJ Ingle, S Portelli, NL Sherry, N Isles, T Seemann, LK Sharkey, CJ Walsh, GE Reid, S Nie, BA Eijkelkamp, NE Holmes, B Collis, S Vogrin, A Hiergeist, D Weber, A Gessner

2024-11-28

Multidrug-resistant bacterial pathogens like vancomycin-resistant Enterococcus faecium (VREfm) are a critical threat to human heal..

Resistance to first-line antibiotic therapy among patients with uncomplicated acute cystitis in Melbourne, Australia: Prevalence, predictors and clinical impact

SJ Curtis, JC Kwong, YL Chaung, D Mazza, CJ Walsh, KY Chua, AJ Stewardson

2024-02-01

Background: Australian guidelines recommend trimethoprim or nitrofurantoin as first-line agents for uncomplicated urinary tract in..

Optimising genomic approaches for identifying vancomycin-resistant Enterococcus faecium transmission in healthcare settings

C Higgs, NL Sherry, T Seemann, K Horan, H Walpola, P Kinsella, K Bond, DA Williamson, C Marshall, JC Kwong, ML Grayson, TP Stinear, CL Gorrie, BP Howden

2022-12-01

Vancomycin-resistant Enterococcus faecium (VREfm) is a major nosocomial pathogen. Identifying VREfm transmission dynamics permits ..

Search and Contain: Impact of an Integrated Genomic and Epidemiological Surveillance and Response Program for Control of Carbapenemase-producing Enterobacterales

CR Lane, J Brett, M Schultz, CL Gorrie, K Stevens, DRM Cameron, S St George, A Van Diemen, M Easton, RL Stuart, M Sait, AY Peleg, AJ Stewardson, AC Cheng, DW Spelman, MJ Waters, SA Ballard, NL Sherry, DA Williamson, F Romanes

2021-12-01

Background: Multiresistant organisms (MROs) pose a critical threat to public health. Population-based programs for control of MROs..

Key parameters for genomics-based real-time detection and tracking of multidrug-resistant bacteria: a systematic analysis

CL Gorrie, AG Da Silva, DJ Ingle, C Higgs, T Seemann, TP Stinear, DA Williamson, JC Kwong, ML Grayson, NL Sherry, BP Howden

2021-11-01

Background: Pairwise single nucleotide polymorphisms (SNPs) are a cornerstone of genomic approaches to the inference of transmissi..

Staff to staff transmission as a driver of healthcare worker infections with COVID-19

CL Gordon, JA Trubiano, NE Holmes, KYL Chua, J Feldman, G Young, NL Sherry, ML Grayson, JC Kwong

2021-11-01

Background: High rates of healthcare worker (HCW) infections due to COVID-19 have been attributed to several factors, including in..

Multi-site assessment of rapid, point-of-care antigen testing for the diagnosis of SARS-CoV-2 infection in a low-prevalence setting: A validation and implementation study

S Muhi, N Tayler, T Hoang, SA Ballard, M Graham, A Rojek, JC Kwong, JA Trubiano, O Smibert, G Drewett, F James, E Gardiner, S Chea, N Isles, M Sait, S Pasricha, G Taiaroa, J McAuley, E Williams, KB Gibney

2021-04-01

Background: In Australia, COVID-19 diagnosis relies on RT-PCR testing which is relatively costly and time-consuming. To date, few ..

Bridging of Neisseria gonorrhoeae lineages across sexual networks in the HIV pre-exposure prophylaxis era

DA Williamson, EPF Chow, CL Gorrie, T Seemann, DJ Ingle, N Higgins, M Easton, G Taiaroa, YH Grad, JC Kwong, CK Fairley, MY Chen, BP Howden

2019-12-01

Whole genome sequencing (WGS) has been used to investigate transmission of Neisseria gonorrhoeae, but to date, most studies have n..

Co-circulation of Multidrug-resistant Shigella among Men Who Have Sex with Men in Australia

DJ Ingle, M Easton, M Valcanis, T Seemann, JC Kwong, N Stephens, GP Carter, A Gonçalves Da Silva, J Adamopoulos, SL Baines, KE Holt, EPF Chow, CK Fairley, MY Chen, MD Kirk, BP Howden, DA Williamson

2019-10-15

In urban Australia, the burden of shigellosis is either in returning travelers from shigellosis-endemic regions or in men who have..

Genomics for molecular epidemiology and detecting transmission of carbapenemase-producing enterobacterales in Victoria, Australia, 2012 to 2016

NL Sherry, CR Lane, JC Kwong, M Schultz, M Sait, K Stevens, S Ballard, AG Da Silva, T Seemann, CL Gorrie, TP Stinear, DA Williamson, J Brett, A Van Diemen, M Easton, BP Howden

2019-01-01

Carbapenemase-producing Enterobacterales (CPE) are being increasingly reported in Australia, and integrated clinical and genomic s..

Reconstruction of the Genomes of Drug-Resistant Pathogens for Outbreak Investigation through Metagenomic Sequencing

Andre Mu, Jason C Kwong, Nicole S Isles, Anders Goncalves da Silva, Mark B Schultz, Susan A Ballard, Courtney R Lane, Glen P Carter, Deborah A Williamson, Torsten Seemann, Timothy P Stinear, Benjamin P Howden

2019-01-01

Culture-independent methods that target genome fragments have shown promise in identifying certain pathogens, but the holy grail o..

Beyond penicillin: Rapid desensitization for specific flucloxacillin hypersensitivity

JC Kwong, K Urbancic, JA Trubiano

2018-12-01

Beta-lactam therapy for severe staphylococcal infections is associated with superior outcomes, compared to non-beta-lactam therapy..

The changing landscape of vancomycin-resistant Enterococcus faecium in Australia: A population-level genomic study

RS Lee, A Gonçalves Da Silva, SL Baines, J Strachan, S Ballard, GP Carter, JC Kwong, MB Schultz, DM Bulach, T Seemann, TP Stinear, BP Howden

2018-12-01

Background Vancomycin-resistant Enterococcus faecium (VREfm) represent a major source of nosocomial infection worldwide. In Austra..