Detection of a divergent Parainfluenza 4 virus in an adult patient with influenza like illness using next-generation sequencing

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• 作者：Seweryn Bialasiewicz (5) (6) (9)
  Jodie McVernon (7)
  Terry Nolan (7)
  Stephen B Lambert (5)
  Guoyan Zhao (8)
  David Wang (8)
  Michael D Nissen (5) (6)
  Theo P Sloots (5) (6)
  
  5. Queensland Children鈥檚 Medical Research Institute ; The University of Queensland ; Brisbane ; Qld ; Australia
  6. Queensland Paediatric Infectious Diseases Laboratory ; The Royal Children鈥檚 Hospital ; Brisbane ; Qld ; Australia
  9. Sir Albert Sakzewski Virus Research Centre ; Building C28 ; Back Rd ; Herston ; QLD 4029 ; Australia
  7. Murdoch Children鈥檚 Research Institute & Melbourne School of Population Health ; The University of Melbourne ; Parkville ; Vic ; Australia
  8. Departments of Molecular Microbiology and Pathology & Immunology ; Washington University School of Medicine ; St. Louis ; MO ; USA
  
• 关键词：Parainfluenza 4 ; Community infection ; Respiratory tract infection ; Influenza like illness ; Next generation sequencing ; Virus discovery ; PCR ; False negative results ; Adult
• 刊名：BMC Infectious Diseases
• 出版年：2014
• 出版时间：December 2014
• 年：2014
• 卷：14
• 期：1
• 全文大小：195 KB
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  20. The pre-publication history for this paper can be accessed here: 334/14/275/prepub" class="a-plus-plus">http://www.biomedcentral.com/1471-2334/14/275/prepub
  
• 刊物主题：Infectious Diseases; Parasitology; Medical Microbiology; Tropical Medicine; Internal Medicine;
• 出版者：BioMed Central
• ISSN：1471-2334

文摘

Background Human Parainfluenza viruses are a common cause of both upper and lower respiratory tract infections, particularly in children. Of the four Parainfluenza virus serotypes, Parainfluenza 4 is least well characterised from both the clinical, epidemiological and genetic perspectives. Methods Flocked nose or throat swabs from a previous study investigating viral prevalence in community-based adults suffering from influenza like illness were used as the basis for this study. Samples in which no virus was detected using a 16 viral respiratory pathogen real-time PCR panel were barcoded and pyrosequenced using the Roche 454 GS FLX Titanium chemistry. The sequences were analysed using the VirusHunter bioinformatic pipeline. Sanger sequencing was used to complete the detected Parainfluenza 4 coding region. Results A variant Parainfluenza 4 subtype b strain (QLD-01) was discovered in an otherwise healthy adult who presented with influenza like illness. Strain QLD-01 shared genomic similarities with both a and b subtypes. The extent of divergence of this genome from the 5 available whole Parainfluenza 4 genomes impacted the predicted binding efficiencies of the majority of published Parainfluenza 4 PCR assays. Conclusions These findings further support a possible role for Parainfluenza 4 in the aetiology of adult respiratory disease within the community setting, and highlight the caution needed to be used in designing PCR assays from limited sequence information or in using proprietary commercial PCR assays.