Publication: Genotypic antimicrobial resistance assays for use on E. Coli isolates and stool specimens
Submitted Date
Received Date
Accepted Date
Issued Date
2019-05-01
Copyright Date
Announcement No.
Application No.
Patent No.
Valid Date
Resource Type
Edition
Resource Version
Language
File Type
No. of Pages/File Size
ISBN
ISSN
19326203
eISSN
Scopus ID
WOS ID
Pubmed ID
arXiv ID
Call No.
Other identifier(s)
2-s2.0-85065834888
Journal Title
Volume
Issue
item.page.oaire.edition
Start Page
End Page
Access Rights
Access Status
Rights
Mahidol University
Rights Holder(s)
SCOPUS
Physical Location
Bibliographic Citation
PLoS ONE. Vol.14, No.5 (2019)
Citation
Suporn Pholwat, Jie Liu, Mami Taniuchi, Rattapha Chinli, Tawat Pongpan, Iyarit Thaipisutikul, Parntep Ratanakorn, James A. Platts-Mills, Molly Fleece, Suzanne Stroup, Jean Gratz, Esto Mduma, Buliga Mujaga, Thomas Walongo, Rosemary Nshama, Caroline Kimathi, Suporn Foongladda, Eric R. Houpt (2019). Genotypic antimicrobial resistance assays for use on E. Coli isolates and stool specimens. Retrieved from: https://repository.li.mahidol.ac.th/handle/123456789/49775.
Research Projects
Organizational Units
Authors
Journal Issue
Thesis
Title
Genotypic antimicrobial resistance assays for use on E. Coli isolates and stool specimens
Alternative Title(s)
Author's Affiliation
Author's E-mail
Editor(s)
Editor's Affiliation
Corresponding Author(s)
Creator(s)
Compiler
Advisor(s)
Illustrator(s)
Applicant(s)
Inventor(s)
Issuer
Assignee
Series
Has Part
Abstract
© 2019 Pholwat et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Antimicrobial resistance (AMR) is an emerging public health problem and methods for surveillance are needed. We designed 85 sequence-specific PCR reactions to detect 79 genes or mutations associated with resistance across 10 major antimicrobial classes, with a focus on E. coli. The 85 qPCR assays demonstrated >99.9% concordance with sequencing. We evaluated the correlation between genotypic resistance markers and phenotypic susceptibility results on 239 E. coli isolates. Both sensitivity and specificity exceeded 90% for ampicillin, ceftriaxone, cefepime, imipenem, ciprofloxacin, azithromycin, gentamicin, amikacin, trimethoprim/sulfamethoxazole, tetracycline, and chloramphenicol phenotypic susceptibility results. We then evaluated the assays on direct stool specimens and observed a sensitivity of 97% ± 5 but, as expected, a lower specificity of 75% ± 31 versus the genotype of the E. coli cultured from stool. Finally, the assays were incorporated into a convenient TaqMan Array Card (TAC) format. These assays may be useful for tracking AMR in E. coli isolates or directly in stool for targeted testing of the fecal antibiotic resistome.