Laboratory diagnosis and surveillance of human respiratory viruses by PCR in Victoria, Australia, 2002-2003

Virology Department, Victorian Infectious Diseases Reference Laboratory, 10 Wreckyn Street, North Melbourne 3051, Victoria, Australia.
Journal of Medical Virology (Impact Factor: 2.35). 02/2005; 75(1):122-9. DOI: 10.1002/jmv.20246
Source: PubMed


Respiratory viruses were identified by the polymerase chain reaction (PCR) in more than 4,200 specimens collected during 2002 and 2003 in Victoria, Australia from patients admitted to hospitals or participating in an influenza surveillance program. Influenza viruses and picornaviruses were important causes of morbidity in both years. Additional testing of picornavirus-positive samples suggested that rhinoviruses but not enteroviruses were more likely to be associated with respiratory symptoms, irrespective of the season in which they circulated. Detection of influenza viruses was strongly associated with the clinical symptoms of cough, fever, and fatigue; but each of the other respiratory viruses occasionally caused these symptoms or was responsible for symptoms severe enough to require hospitalization. Human coronaviruses HCoV-OC43 and HCoV-229E circulated at low levels throughout the study period with peak activity in winter, but overall did not circulate as widely as has often been reported for these agents. Evidence for the human metapneumovirus (hMPV) was only sought in the second year of the study and revealed low-level circulation of this virus, mainly in the cooler months among the very young and adult populations. The detection rate of all viruses declined with increasing age of the patient, particularly in hospital patients. Infection with more than one respiratory virus occurred in a small number of patients; picornaviruses were most commonly implicated in these dual infections.

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    • "Specimens positive for HCoV-OC43 were tested for coinfection with other respiratory viruses, including HCoV-229E, HCoV-NL63, HCoV-HKU1, Flu A and B (influenza A and B viruses, respectively), PIV 1, 2, 3 (parainfluenza virus types 1, 2 and 3, respectively), RSV (respiratory syncytial virus), hMPV (human metapneumovirus), adenovirus and picornaviruses (including enterovirus and rhinovirus), as described previously [30], [35]. "
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    ABSTRACT: To determine the prevalence, epidemiology and genetic diversity of human coronavirus OC43 (HCoV-OC43) among adult patients with acute respiratory infections (ARI) in Beijing,five hundred and fifty-nine nasopharyngeal swab samples were collected from adult patients with ARI in Beijing. The prevalence of HCoV-OC43 infection among these patients was assessed using two different OneStep reverse transcription polymerase chain reaction (RT-PCR) assays. The epidemiological profiles of the patients with HCoV-OC43 infection were described. Partial S and N genes of HCoV-OC43 circulating strains were sequenced followed by phylogenetic analysis and amino acid alignment. Our results showed that the prevalence of HCoV-OC43 infection was 12.52% (95% CI: 9.78-15.26%), and the epidemic peak occurred in autumn. Fifty partial S and 40 partial N fragments were obtained from these patients. Phylogenetic analysis based on neighbour-joining method showed that at least three distinct clusters (A, B, C/D) of HCoV-OC43 strains were circulating among adult patients with ARI in Beijing. In addition, some novel unique clusters (UNT) of HCoV-OC43 were found in the S- and N-based phylogenetic trees. Furthermore, consensus amino acids substitutes for each cluster were also found after alignment of partial S or N sequence coding region in this study. In conclusion, we herein describe the prevalence of HCoV-OC43 among adult patients and provide substantial evidence for the genetic diversity of HCoV-OC43 circulating in Beijing.
    PLoS ONE 07/2014; 9(7):e100781. DOI:10.1371/journal.pone.0100781 · 3.23 Impact Factor
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    • "Nucleic acid testing (NAT) using inhouse PCRs assay tested for influenza.11 Other respiratory pathogens tested included parainfluenza viruses, respiratory syncytial virus, picornavirus (enterovirus, rhinovirus), adenovirus, coronaviruses 229E and OC43 and human metapneumovirus using a published method.12 "
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    Heart (British Cardiac Society) 08/2013; 99(24). DOI:10.1136/heartjnl-2013-304320 · 5.60 Impact Factor
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    • "From 272 samples collected from hospitalized children because of ARI, 54.4% presented viral etiology. These data are in accordance with previous studies that reported respiratory viruses as the main cause of ARI, consisting of rates averaging from 30 to 75.5% (7, 11, 26). "
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