Molecular Genotyping of Human Rhinovirus by Using PCR and Sanger Sequencing
Human rhinovirus (HRV) is the virus most often associated with acute upper respiratory tract infections. Advances in molecular detection have shown that HRV is also the major viral cause of asthma exacerbations. Genotypic assignment and identification of HRV types are of significant value in the investigation of type-associated differences in disease outcomes, transmission, and epidemiology. Here, we describe a genotyping process involving two separate RT-PCR assays, targeted to VP4/VP2 and 5′ UTR regions of HRV genome, respectively. Together with the reference sequences of each HRV species, the generated sequences are used to construct phylogenetic tree for genotyping.
Key wordsHuman rhinovirus Genotyping VP4/VP2 5′ UTR
- 5.Lau SK, Yip CC, Tsoi HW, Lee RA, So LY, Lau YL et al (2007) Clinical features and complete genome characterization of a distinct human rhinovirus (HRV) genetic cluster, probably representing a previously undetected HRV species, HRV-C, associated with acute respiratory illness in children. J Clin Microbiol 45(11):3655–3664, PMCID: 2168475PubMedCrossRefPubMedCentralGoogle Scholar
- 8.Wisdom A, Leitch EC, Gaunt E, Harvala H, Simmonds P (2009) Screening respiratory samples for detection of human rhinoviruses (HRVs) and enteroviruses: comprehensive VP4-VP2 typing reveals high incidence and genetic diversity of HRV species C. J Clin Microbiol 47(12):3958–3967, PMCID: 2786677PubMedCrossRefPubMedCentralGoogle Scholar