Comparative mutational analyses of influenza A viruses
Identifieur interne : 000583 ( Main/Exploration ); précédent : 000582; suivant : 000584Comparative mutational analyses of influenza A viruses
Auteurs : Peter Pak-Hang Cheung [Hong Kong] ; Igor B. Rogozin [États-Unis] ; Ka-Tim Choy [Hong Kong] ; Hoi Yee Ng [Hong Kong] ; Joseph Sriyal Malik Peiris [Hong Kong] ; Hui-Ling Yen [Hong Kong]Source :
- RNA [ 1355-8382 ] ; 2015.
Abstract
The error-prone RNA-dependent RNA polymerase (RdRP) and external selective pressures are the driving forces for RNA viral diversity. When confounded by selective pressures, it is difficult to assess if influenza A viruses (IAV) that have a wide host range possess comparable or distinct spontaneous mutational frequency in their RdRPs. We used in-depth bioinformatics analyses to assess the spontaneous mutational frequencies of two RdRPs derived from human seasonal (A/Wuhan/359/95; Wuhan) and H5N1 (A/Vietnam/1203/04; VN1203) viruses using the mini-genome system with a common firefly luciferase reporter serving as the template. High-fidelity reverse transcriptase was applied to generate high-quality mutational spectra which allowed us to assess and compare the mutational frequencies and mutable motifs along a target sequence of the two RdRPs of two different subtypes. We observed correlated mutational spectra (τ correlation
Url:
DOI: 10.1261/rna.045369.114
PubMed: 25404565
PubMed Central: 4274636
Affiliations:
Links toward previous steps (curation, corpus...)
- to stream Pmc, to step Corpus: 000768
- to stream Pmc, to step Curation: 000768
- to stream Pmc, to step Checkpoint: 000415
- to stream Ncbi, to step Merge: 000A99
- to stream Ncbi, to step Curation: 000A99
- to stream Ncbi, to step Checkpoint: 000A99
- to stream Main, to step Merge: 000584
- to stream Main, to step Curation: 000583
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Comparative mutational analyses of influenza A viruses</title>
<author><name sortKey="Cheung, Peter Pak Hang" sort="Cheung, Peter Pak Hang" uniqKey="Cheung P" first="Peter Pak-Hang" last="Cheung">Peter Pak-Hang Cheung</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Rogozin, Igor B" sort="Rogozin, Igor B" uniqKey="Rogozin I" first="Igor B." last="Rogozin">Igor B. Rogozin</name>
<affiliation wicri:level="1"><nlm:aff id="af2">National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894-6075, USA</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894-6075</wicri:regionArea>
<wicri:noRegion>Maryland 20894-6075</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Choy, Ka Tim" sort="Choy, Ka Tim" uniqKey="Choy K" first="Ka-Tim" last="Choy">Ka-Tim Choy</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Ng, Hoi Yee" sort="Ng, Hoi Yee" uniqKey="Ng H" first="Hoi Yee" last="Ng">Hoi Yee Ng</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Peiris, Joseph Sriyal Malik" sort="Peiris, Joseph Sriyal Malik" uniqKey="Peiris J" first="Joseph Sriyal Malik" last="Peiris">Joseph Sriyal Malik Peiris</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Yen, Hui Ling" sort="Yen, Hui Ling" uniqKey="Yen H" first="Hui-Ling" last="Yen">Hui-Ling Yen</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PMC</idno>
<idno type="pmid">25404565</idno>
<idno type="pmc">4274636</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4274636</idno>
<idno type="RBID">PMC:4274636</idno>
<idno type="doi">10.1261/rna.045369.114</idno>
<date when="2015">2015</date>
<idno type="wicri:Area/Pmc/Corpus">000768</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000768</idno>
<idno type="wicri:Area/Pmc/Curation">000768</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000768</idno>
<idno type="wicri:Area/Pmc/Checkpoint">000415</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000415</idno>
<idno type="wicri:Area/Ncbi/Merge">000A99</idno>
<idno type="wicri:Area/Ncbi/Curation">000A99</idno>
<idno type="wicri:Area/Ncbi/Checkpoint">000A99</idno>
<idno type="wicri:doubleKey">1355-8382:2015:Cheung P:comparative:mutational:analyses</idno>
<idno type="wicri:Area/Main/Merge">000584</idno>
<idno type="wicri:Area/Main/Curation">000583</idno>
<idno type="wicri:Area/Main/Exploration">000583</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Comparative mutational analyses of influenza A viruses</title>
<author><name sortKey="Cheung, Peter Pak Hang" sort="Cheung, Peter Pak Hang" uniqKey="Cheung P" first="Peter Pak-Hang" last="Cheung">Peter Pak-Hang Cheung</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Rogozin, Igor B" sort="Rogozin, Igor B" uniqKey="Rogozin I" first="Igor B." last="Rogozin">Igor B. Rogozin</name>
<affiliation wicri:level="1"><nlm:aff id="af2">National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894-6075, USA</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894-6075</wicri:regionArea>
<wicri:noRegion>Maryland 20894-6075</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Choy, Ka Tim" sort="Choy, Ka Tim" uniqKey="Choy K" first="Ka-Tim" last="Choy">Ka-Tim Choy</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Ng, Hoi Yee" sort="Ng, Hoi Yee" uniqKey="Ng H" first="Hoi Yee" last="Ng">Hoi Yee Ng</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Peiris, Joseph Sriyal Malik" sort="Peiris, Joseph Sriyal Malik" uniqKey="Peiris J" first="Joseph Sriyal Malik" last="Peiris">Joseph Sriyal Malik Peiris</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Yen, Hui Ling" sort="Yen, Hui Ling" uniqKey="Yen H" first="Hui-Ling" last="Yen">Hui-Ling Yen</name>
<affiliation wicri:level="1"><nlm:aff id="af1">School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong</nlm:aff>
<country xml:lang="fr">Hong Kong</country>
<wicri:regionArea>School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam</wicri:regionArea>
<wicri:noRegion>Pokfulam</wicri:noRegion>
</affiliation>
</author>
</analytic>
<series><title level="j">RNA</title>
<idno type="ISSN">1355-8382</idno>
<idno type="eISSN">1469-9001</idno>
<imprint><date when="2015">2015</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass></textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en"><p>The error-prone RNA-dependent RNA polymerase (RdRP) and external selective pressures are the driving forces for RNA viral diversity. When confounded by selective pressures, it is difficult to assess if influenza A viruses (IAV) that have a wide host range possess comparable or distinct spontaneous mutational frequency in their RdRPs. We used in-depth bioinformatics analyses to assess the spontaneous mutational frequencies of two RdRPs derived from human seasonal (A/Wuhan/359/95; Wuhan) and H5N1 (A/Vietnam/1203/04; VN1203) viruses using the mini-genome system with a common firefly luciferase reporter serving as the template. High-fidelity reverse transcriptase was applied to generate high-quality mutational spectra which allowed us to assess and compare the mutational frequencies and mutable motifs along a target sequence of the two RdRPs of two different subtypes. We observed correlated mutational spectra (τ correlation <italic>P</italic>
< 0.0001), comparable mutational frequencies (H3N2:5.8 ± 0.9; H5N1:6.0 ± 0.5), and discovered a highly mutable motif “(A)AAG” for both Wuhan and VN1203 RdRPs. Results were then confirmed with two recombinant A/Puerto Rico/8/34 (PR8) viruses that possess RdRP derived from Wuhan or VN1203 (RG-PR8×Wuhan<sup>PB2, PB1, PA, NP</sup>
and RG-PR8×VN1203<sup>PB2, PB1, PA, NP</sup>
). Applying novel bioinformatics analysis on influenza mutational spectra, we provide a platform for a comprehensive analysis of the spontaneous mutation spectra for an RNA virus.</p>
</div>
</front>
</TEI>
<affiliations><list><country><li>Hong Kong</li>
<li>États-Unis</li>
</country>
</list>
<tree><country name="Hong Kong"><noRegion><name sortKey="Cheung, Peter Pak Hang" sort="Cheung, Peter Pak Hang" uniqKey="Cheung P" first="Peter Pak-Hang" last="Cheung">Peter Pak-Hang Cheung</name>
</noRegion>
<name sortKey="Choy, Ka Tim" sort="Choy, Ka Tim" uniqKey="Choy K" first="Ka-Tim" last="Choy">Ka-Tim Choy</name>
<name sortKey="Ng, Hoi Yee" sort="Ng, Hoi Yee" uniqKey="Ng H" first="Hoi Yee" last="Ng">Hoi Yee Ng</name>
<name sortKey="Peiris, Joseph Sriyal Malik" sort="Peiris, Joseph Sriyal Malik" uniqKey="Peiris J" first="Joseph Sriyal Malik" last="Peiris">Joseph Sriyal Malik Peiris</name>
<name sortKey="Yen, Hui Ling" sort="Yen, Hui Ling" uniqKey="Yen H" first="Hui-Ling" last="Yen">Hui-Ling Yen</name>
</country>
<country name="États-Unis"><noRegion><name sortKey="Rogozin, Igor B" sort="Rogozin, Igor B" uniqKey="Rogozin I" first="Igor B." last="Rogozin">Igor B. Rogozin</name>
</noRegion>
</country>
</tree>
</affiliations>
</record>
Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/H2N2V1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000583 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 000583 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien |wiki= Sante |area= H2N2V1 |flux= Main |étape= Exploration |type= RBID |clé= PMC:4274636 |texte= Comparative mutational analyses of influenza A viruses }}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:25404565" \ | HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \ | NlmPubMed2Wicri -a H2N2V1
This area was generated with Dilib version V0.6.33. |