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A diagnostic one-step real-time reverse transcription polymerase chain reaction method for accurate detection of influenza virus type A
- Source :
- Archives of Medical Science : AMS
- Publication Year :
- 2016
- Publisher :
- Termedia Sp. z.o.o., 2016.
-
Abstract
- Introduction Influenza A is known as a public health concern worldwide. In this study, a novel one-step real-time reverse transcription polymerase chain reaction (rtRT-PCR) assay was designed and optimized for the detection of influenza A viruses. Material and methods The primers and probe were designed based on the analysis of 90 matrix nucleotide sequence data of influenza type A subtypes from the GenBank database of the National Center for Biotechnology Information (NCBI). The influenza virus A/Tehran/5652/2010 (H1N1 pdm09) was used as a reference. The rtRT-PCR assay was optimized, compared with that of the World Health Organization (WHO), and its analytical sensitivity, specificity and reproducibility were evaluated. In total, 64 nasopharyngeal swabs from patients with influenza-like illness (ILI) and 41 samples without ILI symptoms were tested for the virus, using conventional cell culture, direct immunofluorescence antibody (DFA) methods, and one-step rtRT-PCR with the designed primer set and probe and the WHO’s. Results The optimized assay results were similar to the WHO’s. The optimized assay results were similar to WHO’s, with non-significant differences for 10–103 copies of viral RNA/reaction (p > 0.05). It detected 10 copies of viral RNA/reaction with high reproducibility and no cross reactivity with other respiratory viruses. A specific cytopathic effect was observed in 6/64 (9.37%) of the ILI group using conventional culture and DFA staining methods; however, it was not seen in non-ILI. Also, the results of our assay and the WHO’s were similar to those of viral isolation and DFA staining. Conclusions Given the high specificity, sensitivity and reproducibility of this novel assay, it can serve as a reliable diagnostic tool for the detection of influenza A viruses in clinical specimens and lab experiments.
- Subjects :
- 0301 basic medicine
business.industry
030106 microbiology
detection
General Medicine
medicine.disease_cause
Cross-reactivity
Virology
Virus
Reverse transcription polymerase chain reaction
one-step real-time polymerase chain reaction
03 medical and health sciences
GenBank
Influenza A virus
medicine
influenza A virus
Methods paper/New methods
Primer (molecular biology)
business
Direct fluorescent antibody
Nested polymerase chain reaction
Subjects
Details
- ISSN :
- 17341922
- Volume :
- 6
- Database :
- OpenAIRE
- Journal :
- Archives of Medical Science
- Accession number :
- edsair.doi.dedup.....2492b6e4d8b5e21e2d6292355af835ba