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

BMC Infectious Diseases

Theo P Sloots³  Michael D Nissen³  David Wang⁵  Guoyan Zhao⁵  Stephen B Lambert²  Terry Nolan¹  Jodie McVernon¹  Seweryn Bialasiewicz⁴ 

[1] Murdoch Children’s Research Institute & Melbourne School of Population Health, The University of Melbourne, Parkville, Vic, Australia;Queensland Children’s Medical Research Institute, The University of Queensland, Brisbane, Qld, Australia;Queensland Paediatric Infectious Diseases Laboratory, The Royal Children’s Hospital, Brisbane, Qld, Australia;Sir Albert Sakzewski Virus Research Centre, Building C28, Back Rd, Herston, QLD 4029, Australia;Departments of Molecular Microbiology and Pathology & Immunology, Washington University School of Medicine, St. Louis, MO, USA

关键词: Adult;    False negative results;    PCR;    Virus discovery;    Next generation sequencing;    Influenza like illness;    Respiratory tract infection;    Community infection;    Parainfluenza 4;   

Others  :  1127762
DOI  :  10.1186/1471-2334-14-275

 received in 2014-02-04, accepted in 2014-04-11,  发布年份 2014

【 摘 要 】

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.

【 授权许可】

   
2014 Bialasiewicz et al.; licensee BioMed Central Ltd.

【 图 表 】

Figure 1.

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