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Comparative genetic analyses of Human Rhinovirus C (HRV-C) complete genome from Malaysia


Yam, Sim Khaw and Yoke, Fun Chan and Jafar, Faizatul Lela and Othman, Norlijah and Hui, Yee Chee (2016) Comparative genetic analyses of Human Rhinovirus C (HRV-C) complete genome from Malaysia. Frontiers in Microbiology , 7. art. no. 543. pp. 1-13. ISSN 1664-302X; ESSN: 1664-302X


Human rhinovirus-C (HRV-C) has been implicated in more severe illnesses than HRV-A and HRV-B, however, the limited number of HRV-C complete genomes (complete 5' and 3' non-coding region and open reading frame sequences) has hindered the in-depth genetic study of this virus. This study aimed to sequence seven complete HRV-C genomes from Malaysia and compare their genetic characteristics with the 18 published HRV-Cs. Seven Malaysian HRV-C complete genomes were obtained with newly redesigned primers. The seven genomes were classified as HRV-C6, C12, C22, C23, C26, C42, and pat16 based on the VP4/VP2 and VP1 pairwise distance threshold classification. Five of the seven Malaysian isolates, namely, 3430-MY-10/C22, 8713-MY-10/C23, 8097-MY-11/C26, 1570-MY-10/C42, and 7383-MY-10/pat16 are the first newly sequenced complete HRV-C genomes. All seven Malaysian isolates genomes displayed nucleotide similarity of 63-81% among themselves and 63-96% with other HRV-Cs. Malaysian HRV-Cs had similar putative immunogenic sites, putative receptor utilization and potential antiviral sites as other HRV-Cs. The genomic features of Malaysian isolates were similar to those of other HRV-Cs. Negative selections were frequently detected in HRV-Cs complete coding sequences indicating that these sequences were under functional constraint. The present study showed that HRV-Cs from Malaysia have diverse genetic sequences but share conserved genomic features with other HRV-Cs. This genetic information could provide further aid in the understanding of HRV-C infection.

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Additional Metadata

Item Type: Article
Divisions: Faculty of Medicine and Health Science
DOI Number: https://doi.org/10.3389/fmicb.2016.00543
Publisher: Frontiers
Keywords: HRV-C; Malaysia; Complete genome; Genomic feature; Negative selection; Phylogenetic
Depositing User: Mohd Hafiz Che Mahasan
Date Deposited: 07 Nov 2017 02:32
Last Modified: 07 Nov 2017 02:32
Altmetrics: http://www.altmetric.com/details.php?domain=psasir.upm.edu.my&doi=10.3389/fmicb.2016.00543
URI: http://psasir.upm.edu.my/id/eprint/55324
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