Serotype and genetic diversity of human rhinovirus strains that circulated in Kenya in 2008

Influenza and Other Respiratory Viruses
Sylvia MilanoiWallace Bulimo

Abstract

Human rhinoviruses (HRVs) are a well-established cause of the common cold and recent studies indicated that they may be associated with severe acute respiratory illnesses (SARIs) like pneumonia, asthma, and bronchiolitis. Despite global studies on the genetic diversity of the virus, the serotype diversity of these viruses across diverse geographic regions in Kenya has not been characterized. This study sought to characterize the serotype diversity of HRV strains that circulated in Kenya in 2008. A total of 517 archived nasopharyngeal samples collected in a previous respiratory virus surveillance program across Kenya in 2008 were selected. Participants enrolled were outpatients who presented with influenza-like (ILI) symptoms. Real-time RT-PCR was employed for preliminary HRV detection. HRV-positive samples were amplified using RT-PCR and thereafter the nucleotide sequences of the amplicons were determined followed by phylogenetic analysis. Twenty-five percent of the samples tested positive for HRV. Phylogenetic analysis revealed that the Kenyan HRVs clustered into three main species comprising HRV-A (54%), HRV-B (12%), and HRV-C (35%). Overall, 20 different serotypes were identified. Intrastrain sequence homology among the Keny...Continue Reading

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Citations

Aug 8, 2019·Journal of Medical Virology·Jane KuypersJanet A Englund
Mar 12, 2021·Influenza and Other Respiratory Viruses·Sebastien KenmoeRichard Njouom
May 15, 2021·Virus Genes·Olukunle O OluwasemowoBabatunde O Motayo

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Datasets Mentioned

BETA
KR059989

Methods Mentioned

BETA
PCR
amplicon sequencing

Software Mentioned

bayes
BioEdit
dna baser
muscle
figtree

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