A Single Nucleotide Polymorphism at the TaqMan Probe-Binding Site Impedes Real-Time Reverse Transcription-PCR-Based Detection of Norovirus GII.4 Sydney

Ran Zhuo; Maria Eloisa Hasing; Team of Molecular Diagnostics; Xiaoli Pang

doi:10.1128/JCM.01044-15

A Single Nucleotide Polymorphism at the TaqMan Probe-Binding Site Impedes Real-Time Reverse Transcription-PCR-Based Detection of Norovirus GII.4 Sydney

J Clin Microbiol. 2015 Oct;53(10):3353-4. doi: 10.1128/JCM.01044-15. Epub 2015 Jul 22.

Authors

Ran Zhuo¹, Maria Eloisa Hasing¹; Team of Molecular Diagnostics; Xiaoli Pang²

Affiliations

¹ Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, Alberta, Canada.
² Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, Alberta, Canada Provincial Laboratory for Public Health (ProvLab), Edmonton, Alberta, Canada xiao-li.pang@albertahealthservices.ca.

Abstract

A single nucleotide polymorphism (SNP) in the TaqMan probe-binding site resulted in decreased sensitivity of real-time reverse transcription-PCR (RT-rtPCR) for detection of norovirus genogroup II genotype 4 (GII.4) Sydney. A new degenerate probe was designed that improved the sensitivity of the detection while not interfering with the detection of other GII and GI strains.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Australia
Caliciviridae Infections / diagnosis*
Caliciviridae Infections / virology
False Negative Reactions*
Genotype
Humans
Molecular Diagnostic Techniques / methods*
Norovirus / classification
Norovirus / genetics
Norovirus / isolation & purification*
Oligonucleotide Probes / genetics
Polymorphism, Single Nucleotide*
Real-Time Polymerase Chain Reaction / methods*
Reverse Transcriptase Polymerase Chain Reaction / methods*
Sensitivity and Specificity

Substances

Oligonucleotide Probes