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Whole-Genome Phylogenetic Analysis of Influenza B/Phuket/3073/2013-Like Viruses and Unique Reassortants Detected in Malaysia between 2012 and 2014

Reassortment of genetic segments between and within influenza B lineages (Victoria and Yamagata) has been shown to generate novel reassortants with unique genetic characteristics. Based on hemagglutinin (HA) and neuraminidase (NA) genes, recent surveillance study has identified reassortment properti...

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Main Authors: Oong, X.Y., Ng, K.T., Tan, J.L., Chan, Kok Gan, Kamarulzaman, Adeeba, Chan, Yoke Fun, Sam, I-Ching, Tee, Kok Keng
Format: Article
Language:English
Published: Public Library of Science 2017
Subjects:
Q Science (General)
QH Natural history
R Medicine
Online Access:http://eprints.um.edu.my/19069/1/Whole-Genome_Phylogenetic_Analysis_of.pdf
http://eprints.um.edu.my/19069/
http://dx.doi.org/10.1371/journal.pone.0170610
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spelling my.um.eprints.190692019-12-23T06:23:44Z http://eprints.um.edu.my/19069/ Whole-Genome Phylogenetic Analysis of Influenza B/Phuket/3073/2013-Like Viruses and Unique Reassortants Detected in Malaysia between 2012 and 2014 Oong, X.Y. Ng, K.T. Tan, J.L. Chan, Kok Gan Kamarulzaman, Adeeba Chan, Yoke Fun Sam, I-Ching Tee, Kok Keng Q Science (General) QH Natural history R Medicine Reassortment of genetic segments between and within influenza B lineages (Victoria and Yamagata) has been shown to generate novel reassortants with unique genetic characteristics. Based on hemagglutinin (HA) and neuraminidase (NA) genes, recent surveillance study has identified reassortment properties in B/Phuket/3073/2013-like virus, which is currently used in the WHO-recommended influenza vaccine. To understand the potential reassortment patterns for all gene segments, four B/Phuket/3073/2013-like viruses and two unique reassortants (one each from Yamagata and Victoria) detected in Malaysia from 2012-2014 were subjected to whole-genome sequencing. Each gene was phylogenetically classified into lineages, clades and sub-clades. Three B/Phuket/3073/2013-like viruses from Yamagata lineage were found to be intra-clade reassortants, possessing PA and NA genes derived from Stockholm/12-like sub-clade, while the remaining genes from Wisconsin/ 01-like sub-clade (both sub-clades were within Yamagata Clade 3/Yam-3). However, the other B/Phuket/3073/2013-like virus had NS gene that derived from Stockholm/12-like sub-clade instead of Wisconsin/01-like sub-clade. One inter-clade reassortant had Yamagata Clade 2/Yam-2-derived HA and NP, and its remaining genes were Yam-3-derived. Within Victoria Clade 1/Vic-1 in Victoria lineage, one virus had intra-clade reassortment properties: HA and PB2 from Vic-1B sub-clade, MP and NS from a unique sub-clade "Vic- 1C", and the remaining genes from Vic-1A sub-clade. Although random reassortment event may generate unique reassortants, detailed phylogenetic classification of gene segments showed possible genetic linkage between PA and NA genes in B/Phuket/3073/2013-like viruses, which requires further investigation. Understanding on reassortment patterns in influenza B evolution may contribute to future vaccine design. Public Library of Science 2017 Article PeerReviewed application/pdf en http://eprints.um.edu.my/19069/1/Whole-Genome_Phylogenetic_Analysis_of.pdf Oong, X.Y. and Ng, K.T. and Tan, J.L. and Chan, Kok Gan and Kamarulzaman, Adeeba and Chan, Yoke Fun and Sam, I-Ching and Tee, Kok Keng (2017) Whole-Genome Phylogenetic Analysis of Influenza B/Phuket/3073/2013-Like Viruses and Unique Reassortants Detected in Malaysia between 2012 and 2014. PLoS ONE, 12 (1). e0170610. ISSN 1932-6203 http://dx.doi.org/10.1371/journal.pone.0170610 doi:10.1371/journal.pone.0170610
institution Universiti Malaya
building UM Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Malaya
content_source UM Research Repository
url_provider http://eprints.um.edu.my/
language English
topic Q Science (General)
QH Natural history
R Medicine
spellingShingle Q Science (General)
QH Natural history
R Medicine
Oong, X.Y.
Ng, K.T.
Tan, J.L.
Chan, Kok Gan
Kamarulzaman, Adeeba
Chan, Yoke Fun
Sam, I-Ching
Tee, Kok Keng
Whole-Genome Phylogenetic Analysis of Influenza B/Phuket/3073/2013-Like Viruses and Unique Reassortants Detected in Malaysia between 2012 and 2014
description Reassortment of genetic segments between and within influenza B lineages (Victoria and Yamagata) has been shown to generate novel reassortants with unique genetic characteristics. Based on hemagglutinin (HA) and neuraminidase (NA) genes, recent surveillance study has identified reassortment properties in B/Phuket/3073/2013-like virus, which is currently used in the WHO-recommended influenza vaccine. To understand the potential reassortment patterns for all gene segments, four B/Phuket/3073/2013-like viruses and two unique reassortants (one each from Yamagata and Victoria) detected in Malaysia from 2012-2014 were subjected to whole-genome sequencing. Each gene was phylogenetically classified into lineages, clades and sub-clades. Three B/Phuket/3073/2013-like viruses from Yamagata lineage were found to be intra-clade reassortants, possessing PA and NA genes derived from Stockholm/12-like sub-clade, while the remaining genes from Wisconsin/ 01-like sub-clade (both sub-clades were within Yamagata Clade 3/Yam-3). However, the other B/Phuket/3073/2013-like virus had NS gene that derived from Stockholm/12-like sub-clade instead of Wisconsin/01-like sub-clade. One inter-clade reassortant had Yamagata Clade 2/Yam-2-derived HA and NP, and its remaining genes were Yam-3-derived. Within Victoria Clade 1/Vic-1 in Victoria lineage, one virus had intra-clade reassortment properties: HA and PB2 from Vic-1B sub-clade, MP and NS from a unique sub-clade "Vic- 1C", and the remaining genes from Vic-1A sub-clade. Although random reassortment event may generate unique reassortants, detailed phylogenetic classification of gene segments showed possible genetic linkage between PA and NA genes in B/Phuket/3073/2013-like viruses, which requires further investigation. Understanding on reassortment patterns in influenza B evolution may contribute to future vaccine design.
format Article
author Oong, X.Y.
Ng, K.T.
Tan, J.L.
Chan, Kok Gan
Kamarulzaman, Adeeba
Chan, Yoke Fun
Sam, I-Ching
Tee, Kok Keng
author_facet Oong, X.Y.
Ng, K.T.
Tan, J.L.
Chan, Kok Gan
Kamarulzaman, Adeeba
Chan, Yoke Fun
Sam, I-Ching
Tee, Kok Keng
author_sort Oong, X.Y.
title Whole-Genome Phylogenetic Analysis of Influenza B/Phuket/3073/2013-Like Viruses and Unique Reassortants Detected in Malaysia between 2012 and 2014
title_short Whole-Genome Phylogenetic Analysis of Influenza B/Phuket/3073/2013-Like Viruses and Unique Reassortants Detected in Malaysia between 2012 and 2014
title_full Whole-Genome Phylogenetic Analysis of Influenza B/Phuket/3073/2013-Like Viruses and Unique Reassortants Detected in Malaysia between 2012 and 2014
title_fullStr Whole-Genome Phylogenetic Analysis of Influenza B/Phuket/3073/2013-Like Viruses and Unique Reassortants Detected in Malaysia between 2012 and 2014
title_full_unstemmed Whole-Genome Phylogenetic Analysis of Influenza B/Phuket/3073/2013-Like Viruses and Unique Reassortants Detected in Malaysia between 2012 and 2014
title_sort whole-genome phylogenetic analysis of influenza b/phuket/3073/2013-like viruses and unique reassortants detected in malaysia between 2012 and 2014
publisher Public Library of Science
publishDate 2017
url http://eprints.um.edu.my/19069/1/Whole-Genome_Phylogenetic_Analysis_of.pdf
http://eprints.um.edu.my/19069/
http://dx.doi.org/10.1371/journal.pone.0170610
_version_ 1654960687319875584
score 13.211869

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