Molecular Evolution of Human H1N1 and H3N2 Influenza A Virus in Thailand, 2006–2009
Identifieur interne : 000E51 ( Main/Exploration ); précédent : 000E50; suivant : 000E52Molecular Evolution of Human H1N1 and H3N2 Influenza A Virus in Thailand, 2006–2009
Auteurs : Kamol Suwannakarn [Thaïlande] ; Thaweesak Chieochansin [Thaïlande] ; Chitima Thongmee [Thaïlande] ; Jarika Makkoch [Thaïlande] ; Kesmanee Praianantathavorn [Thaïlande] ; Apiradee Theamboonlers [Thaïlande] ; Srinand Sreevatsan [États-Unis] ; Yong Poovorawan [Thaïlande]Source :
- PLoS ONE [ 1932-6203 ] ; 2010.
Abstract
Annual seasonal influenza outbreaks are associated with high morbidity and mortality.
To index and document evolutionary changes among influenza A H1N1 and H3N2 viruses isolated from Thailand during 2006–2009, using complete genome sequences.
Nasopharyngeal aspirates were collected from patients diagnosed with respiratory illness in Thailand during 2006–2009. All samples were screened for Influenza A virus. A total of 13 H1N1 and 21 H3N2 were confirmed and whole genome sequenced for the evolutionary analysis using standard phylogenetic approaches.
Phylogenetic analysis of HA revealed a clear diversification of seasonal from vaccine strain lineages. H3N2 seasonal clusters were closely related to the WHO recommended vaccine strains in each season. Most H1N1 isolates could be differentiated into 3 lineages. The A/Brisbane/59/2007 lineage, a vaccine strain for H1N1 since 2008, is closely related with the H1N1 subtypes circulating in 2009. HA sequences were conserved at the receptor-binding site. Amino acid variations in the antigenic site resulted in a possible N-linked glycosylation motif. Recent H3N2 isolates had higher genetic variations compared to H1N1 isolates. Most substitutions in the NP protein were clustered in the T-cell recognition domains.
In this study we performed evolutionary genetic analysis of influenza A viruses in Thailand between 2006–2009. Although the current vaccine strain is efficient for controlling the circulating outbreak subtypes, surveillance is necessary to provide unambiguous information on emergent viruses. In summary, the findings of this study contribute the understanding of evolution in influenza A viruses in humans and is useful for routine surveillance and vaccine strain selection.
Url:
DOI: 10.1371/journal.pone.0009717
PubMed: 20300536
PubMed Central: 2838802
Affiliations:
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sortKey="Makkoch, Jarika" sort="Makkoch, Jarika" uniqKey="Makkoch J" first="Jarika" last="Makkoch">Jarika Makkoch</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Center of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand</addr-line></nlm:aff><country xml:lang="fr">Thaïlande</country><wicri:regionArea>Center of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok</wicri:regionArea><wicri:noRegion>Bangkok</wicri:noRegion></affiliation></author><author><name sortKey="Praianantathavorn, Kesmanee" sort="Praianantathavorn, Kesmanee" uniqKey="Praianantathavorn K" first="Kesmanee" last="Praianantathavorn">Kesmanee Praianantathavorn</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Center of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand</addr-line></nlm:aff><country xml:lang="fr">Thaïlande</country><wicri:regionArea>Center of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok</wicri:regionArea><wicri:noRegion>Bangkok</wicri:noRegion></affiliation></author><author><name sortKey="Theamboonlers, Apiradee" sort="Theamboonlers, Apiradee" uniqKey="Theamboonlers A" first="Apiradee" last="Theamboonlers">Apiradee Theamboonlers</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Center of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand</addr-line></nlm:aff><country xml:lang="fr">Thaïlande</country><wicri:regionArea>Center of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok</wicri:regionArea><wicri:noRegion>Bangkok</wicri:noRegion></affiliation></author><author><name sortKey="Sreevatsan, Srinand" sort="Sreevatsan, Srinand" uniqKey="Sreevatsan S" first="Srinand" last="Sreevatsan">Srinand Sreevatsan</name><affiliation wicri:level="2"><nlm:aff id="aff2"><addr-line>Departments of Veterinary Population Medicine and Veterinary and Biomedical Sciences, University of Minnesota, Saint Paul, Minnesota, United States of America</addr-line></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Departments of Veterinary Population Medicine and Veterinary and Biomedical Sciences, University of Minnesota, Saint Paul, Minnesota</wicri:regionArea><placeName><region type="state">Minnesota</region></placeName></affiliation></author><author><name sortKey="Poovorawan, Yong" sort="Poovorawan, Yong" uniqKey="Poovorawan Y" first="Yong" last="Poovorawan">Yong Poovorawan</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Center of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand</addr-line></nlm:aff><country xml:lang="fr">Thaïlande</country><wicri:regionArea>Center of Excellence in Clinical Virology, Faculty of Medicine, Chulalongkorn University, Bangkok</wicri:regionArea><wicri:noRegion>Bangkok</wicri:noRegion></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2010">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Annual seasonal influenza outbreaks are associated with high morbidity and mortality.</p></sec><sec><title>Objective</title><p>To index and document evolutionary changes among influenza A H1N1 and H3N2 viruses isolated from Thailand during 2006–2009, using complete genome sequences.</p></sec><sec><title>Methods</title><p>Nasopharyngeal aspirates were collected from patients diagnosed with respiratory illness in Thailand during 2006–2009. All samples were screened for Influenza A virus. A total of 13 H1N1 and 21 H3N2 were confirmed and whole genome sequenced for the evolutionary analysis using standard phylogenetic approaches.</p></sec><sec><title>Results</title><p>Phylogenetic analysis of HA revealed a clear diversification of seasonal from vaccine strain lineages. H3N2 seasonal clusters were closely related to the WHO recommended vaccine strains in each season. Most H1N1 isolates could be differentiated into 3 lineages. The A/Brisbane/59/2007 lineage, a vaccine strain for H1N1 since 2008, is closely related with the H1N1 subtypes circulating in 2009. HA sequences were conserved at the receptor-binding site. Amino acid variations in the antigenic site resulted in a possible N-linked glycosylation motif. Recent H3N2 isolates had higher genetic variations compared to H1N1 isolates. Most substitutions in the NP protein were clustered in the T-cell recognition domains.</p></sec><sec><title>Conclusion</title><p>In this study we performed evolutionary genetic analysis of influenza A viruses in Thailand between 2006–2009. Although the current vaccine strain is efficient for controlling the circulating outbreak subtypes, surveillance is necessary to provide unambiguous information on emergent viruses. In summary, the findings of this study contribute the understanding of evolution in influenza A viruses in humans and is useful for routine surveillance and vaccine strain selection.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Webster, Rg" uniqKey="Webster R">RG Webster</name></author><author><name sortKey="Bean, Wj" uniqKey="Bean W">WJ Bean</name></author><author><name sortKey="Gorman, Ot" uniqKey="Gorman O">OT Gorman</name></author><author><name sortKey="Chambers, Tm" uniqKey="Chambers T">TM Chambers</name></author><author><name sortKey="Kawaoka, Y" uniqKey="Kawaoka Y">Y Kawaoka</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Cox, Nj" uniqKey="Cox N">NJ Cox</name></author><author><name sortKey="Subbarao, K" uniqKey="Subbarao K">K Subbarao</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Webby, Rj" uniqKey="Webby R">RJ Webby</name></author><author><name sortKey="Webster, Rg" uniqKey="Webster R">RG Webster</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Peiris, Js" uniqKey="Peiris J">JS Peiris</name></author><author><name sortKey="Yu, Wc" uniqKey="Yu W">WC Yu</name></author><author><name sortKey="Leung, Cw" uniqKey="Leung C">CW Leung</name></author><author><name sortKey="Cheung, Cy" uniqKey="Cheung C">CY Cheung</name></author><author><name sortKey="Ng, Wf" uniqKey="Ng W">WF Ng</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Lin, Yp" uniqKey="Lin Y">YP Lin</name></author><author><name sortKey="Gregory, V" uniqKey="Gregory V">V Gregory</name></author><author><name sortKey="Bennett, M" uniqKey="Bennett M">M Bennett</name></author><author><name sortKey="Hay, A" uniqKey="Hay A">A Hay</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hampson, Aw" uniqKey="Hampson A">AW Hampson</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Suwannakarn, K" uniqKey="Suwannakarn K">K Suwannakarn</name></author><author><name sortKey="Payungporn, S" uniqKey="Payungporn S">S Payungporn</name></author><author><name sortKey="Chieochansin, T" uniqKey="Chieochansin T">T Chieochansin</name></author><author><name sortKey="Samransamruajkit, R" uniqKey="Samransamruajkit R">R Samransamruajkit</name></author><author><name sortKey="Amonsin, A" uniqKey="Amonsin A">A Amonsin</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hoffmann, E" uniqKey="Hoffmann E">E Hoffmann</name></author><author><name sortKey="Stech, J" uniqKey="Stech J">J Stech</name></author><author><name sortKey="Guan, Y" uniqKey="Guan Y">Y Guan</name></author><author><name sortKey="Webster, Rg" uniqKey="Webster R">RG Webster</name></author><author><name sortKey="Perez, Dr" uniqKey="Perez D">DR 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Jung</name></author><author><name sortKey="Brunak, S" uniqKey="Brunak S">S Brunak</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zhang, M" uniqKey="Zhang M">M Zhang</name></author><author><name sortKey="Gaschen, B" uniqKey="Gaschen B">B Gaschen</name></author><author><name sortKey="Blay, W" uniqKey="Blay W">W Blay</name></author><author><name sortKey="Foley, B" uniqKey="Foley B">B Foley</name></author><author><name sortKey="Haigwood, N" uniqKey="Haigwood N">N Haigwood</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Chutinimitkul, S" uniqKey="Chutinimitkul S">S Chutinimitkul</name></author><author><name sortKey="Chieochansin, T" uniqKey="Chieochansin T">T Chieochansin</name></author><author><name sortKey="Payungporn, S" uniqKey="Payungporn S">S Payungporn</name></author><author><name sortKey="Samransamruajkit, R" uniqKey="Samransamruajkit R">R Samransamruajkit</name></author><author><name sortKey="Hiranras, T" 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W" uniqKey="Gerhard W">W Gerhard</name></author></analytic></biblStruct><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Parrish, Cr" uniqKey="Parrish C">CR Parrish</name></author><author><name sortKey="Kawaoka, Y" uniqKey="Kawaoka Y">Y Kawaoka</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bui, Hh" uniqKey="Bui H">HH Bui</name></author><author><name sortKey="Peters, B" uniqKey="Peters B">B Peters</name></author><author><name sortKey="Assarsson, E" uniqKey="Assarsson E">E Assarsson</name></author><author><name sortKey="Mbawuike, I" uniqKey="Mbawuike I">I Mbawuike</name></author><author><name sortKey="Sette, A" uniqKey="Sette A">A Sette</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Townsend, Ar" uniqKey="Townsend A">AR Townsend</name></author><author><name sortKey="Skehel, Jj" uniqKey="Skehel J">JJ Skehel</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Winter, G" uniqKey="Winter G">G Winter</name></author><author><name sortKey="Fields, S" uniqKey="Fields S">S Fields</name></author></analytic></biblStruct><biblStruct></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Thaïlande</li><li>États-Unis</li></country><region><li>Minnesota</li></region></list><tree><country name="Thaïlande"><noRegion><name sortKey="Suwannakarn, Kamol" sort="Suwannakarn, Kamol" uniqKey="Suwannakarn K" first="Kamol" last="Suwannakarn">Kamol Suwannakarn</name></noRegion><name sortKey="Chieochansin, Thaweesak" sort="Chieochansin, Thaweesak" uniqKey="Chieochansin T" first="Thaweesak" last="Chieochansin">Thaweesak Chieochansin</name><name sortKey="Makkoch, Jarika" sort="Makkoch, Jarika" uniqKey="Makkoch J" first="Jarika" last="Makkoch">Jarika Makkoch</name><name sortKey="Poovorawan, Yong" sort="Poovorawan, Yong" uniqKey="Poovorawan Y" first="Yong" last="Poovorawan">Yong Poovorawan</name><name sortKey="Praianantathavorn, Kesmanee" sort="Praianantathavorn, Kesmanee" uniqKey="Praianantathavorn K" first="Kesmanee" last="Praianantathavorn">Kesmanee Praianantathavorn</name><name sortKey="Theamboonlers, Apiradee" sort="Theamboonlers, Apiradee" uniqKey="Theamboonlers A" first="Apiradee" last="Theamboonlers">Apiradee Theamboonlers</name><name sortKey="Thongmee, Chitima" sort="Thongmee, Chitima" uniqKey="Thongmee C" first="Chitima" last="Thongmee">Chitima Thongmee</name></country><country name="États-Unis"><region name="Minnesota"><name sortKey="Sreevatsan, Srinand" sort="Sreevatsan, Srinand" uniqKey="Sreevatsan S" first="Srinand" last="Sreevatsan">Srinand Sreevatsan</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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