Rapid fluoroquinolone resistance detection in Pseudomonas aeruginosa using mismatch amplification mutation assay-based real-time PCR

Loading...
Thumbnail Image
File version

Version of Record (VoR)

Author(s)
Madden, DE
McCarthy, KL
Bell, SC
Olagoke, O
Baird, T
Neill, J
Ramsay, KA
Kidd, TJ
Stewart, AG
Subedi, S
Choong, K
Fraser, TA
Sarovich, DS
Price, EP
Griffith University Author(s)
Primary Supervisor
Other Supervisors
Editor(s)
Date
2022
Size
File type(s)
Location
Abstract

Background. Antimicrobial resistance (AMR) is an ever-increasing global health concern. One crucial facet in tackling the AMR epidemic is earlier and more accurate AMR diagnosis, particularly in the dangerous and highly multi-drug-resistant ESKAPE pathogen, Pseudomonas aeruginosa. Objectives. We aimed to develop two SYBR Green-based mismatch amplification mutation assays (SYBR-MAMAs) targeting GyrA T83I (gyrA248) and GyrA D87N, D87Y and D87H (gyrA259). Together, these variants cause the majority of fluoroquinolone (FQ) AMR in P. aeruginosa. Methods. Following assay validation, the gyrA248 and gyrA259 SYBR-MAMAs were tested on 84 Australian clinical P. aeruginosa isolates, 46 of which demonstrated intermediate/full ciprofloxacin resistance according to antimicrobial susceptibility testing. Results. Our two SYBR-MAMAs correctly predicted an AMR phenotype in the majority (83%) of isolates with intermediate/full FQ resistance. All FQ-sensitive strains were predicted to have a sensitive phenotype. Whole-genome sequencing confirmed 100% concordance with SYBR-MAMA genotypes. Conclusions. Our GyrA SYBR-MAMAs provide a rapid and cost-effective method for same-day identification of FQ AMR in P. aeruginosa. An additional SYBR-MAMA targeting the GyrB S466Y/S466F variants would increase FQ AMR prediction to 91%. Clinical implementation of our assays will permit more timely treatment alterations in cases where decreased FQ susceptibility is identified, leading to improved patient outcomes and antimicrobial stewardship.

Journal Title

Journal of Medical Microbiology

Conference Title
Book Title
Edition
Volume

71

Issue

10

Thesis Type
Degree Program
School
Publisher link
Patent number
Funder(s)
Grant identifier(s)
Rights Statement
Rights Statement

© 2022 The Authors. This is an open-access article distributed under the terms of the Creative Commons Attribution NonCommercial License. This article was made open access via a Publish and Read agreement between the Microbiology Society and the corresponding author’s institution.

Item Access Status
Note
Access the data
Related item(s)
Subject

Medical microbiology

Medical bacteriology

AMR

Pseudomonas aeruginosa

SYBR-MAMA

antibiotic

ciprofloxacin

Persistent link to this record
Citation

Madden, DE; McCarthy, KL; Bell, SC; Olagoke, O; Baird, T; Neill, J; Ramsay, KA; Kidd, TJ; Stewart, AG; Subedi, S; Choong, K; Fraser, TA; Sarovich, DS; Price, EP, Rapid fluoroquinolone resistance detection in Pseudomonas aeruginosa using mismatch amplification mutation assay-based real-time PCR, Journal of Medical Microbiology, 2022, 71 (10), pp. 001593

Collections