Punctuated Evolution of Influenza Virus Neuraminidase (A/H1N1) under Opposing Migration and Vaccination Pressures
Identifieur interne : 000685 ( Main/Exploration ); précédent : 000684; suivant : 000686Punctuated Evolution of Influenza Virus Neuraminidase (A/H1N1) under Opposing Migration and Vaccination Pressures
Auteurs : J. C. Phillips [États-Unis]Source :
- BioMed Research International [ 2314-6133 ] ; 2014.
Abstract
Influenza virus contains two highly variable envelope glycoproteins, hemagglutinin (HA) and neuraminidase (NA). The structure and properties of HA, which is responsible for binding the virus to the cell that is being infected, change significantly when the virus is transmitted from avian or swine species to humans. Here we focus first on the simpler problem of the much smaller human individual evolutionary amino acid mutational changes in NA, which cleaves sialic acid groups and is required for influenza virus replication. Our thermodynamic panorama shows that very small amino acid changes can be monitored very accurately across many historic (1945–2011) Uniprot and NCBI strains using hydropathicity scales to quantify the roughness of water film packages. Quantitative sequential analysis is most effective with the fractal differential hydropathicity scale based on protein self-organized criticality (SOC). Our analysis shows that large-scale vaccination programs have been responsible for a very large convergent reduction in common influenza severity in the last century. Hydropathic analysis is capable of interpreting and even predicting trends of functional changes in mutation prolific viruses directly from amino acid sequences alone. An engineered strain of NA1 is described which could well be significantly less virulent than current circulating strains.
Url:
DOI: 10.1155/2014/907381
PubMed: 25143953
PubMed Central: 4124202
Affiliations:
Links toward previous steps (curation, corpus...)
- to stream Pmc, to step Corpus: 000924
- to stream Pmc, to step Curation: 000924
- to stream Pmc, to step Checkpoint: 000472
- to stream Ncbi, to step Merge: 000A76
- to stream Ncbi, to step Curation: 000A76
- to stream Ncbi, to step Checkpoint: 000A76
- to stream Main, to step Merge: 000686
- to stream Main, to step Curation: 000685
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Punctuated Evolution of Influenza Virus Neuraminidase (A/H1N1) under Opposing Migration and Vaccination Pressures</title><author><name sortKey="Phillips, J C" sort="Phillips, J C" uniqKey="Phillips J" first="J. C." last="Phillips">J. C. Phillips</name><affiliation wicri:level="4"><nlm:aff id="I1">Department of Physics and Astronomy, Rutgers University, Piscataway, NJ 08854, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Physics and Astronomy, Rutgers University, Piscataway, NJ 08854</wicri:regionArea><placeName><region type="state">New Jersey</region><settlement type="city">New Brunswick (New Jersey)</settlement></placeName><orgName type="university">Université Rutgers</orgName></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">25143953</idno><idno type="pmc">4124202</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4124202</idno><idno type="RBID">PMC:4124202</idno><idno type="doi">10.1155/2014/907381</idno><date when="2014">2014</date><idno type="wicri:Area/Pmc/Corpus">000924</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000924</idno><idno type="wicri:Area/Pmc/Curation">000924</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000924</idno><idno type="wicri:Area/Pmc/Checkpoint">000472</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000472</idno><idno type="wicri:Area/Ncbi/Merge">000A76</idno><idno type="wicri:Area/Ncbi/Curation">000A76</idno><idno type="wicri:Area/Ncbi/Checkpoint">000A76</idno><idno type="wicri:doubleKey">2314-6133:2014:Phillips J:punctuated:evolution:of</idno><idno type="wicri:Area/Main/Merge">000686</idno><idno type="wicri:Area/Main/Curation">000685</idno><idno type="wicri:Area/Main/Exploration">000685</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Punctuated Evolution of Influenza Virus Neuraminidase (A/H1N1) under Opposing Migration and Vaccination Pressures</title><author><name sortKey="Phillips, J C" sort="Phillips, J C" uniqKey="Phillips J" first="J. C." last="Phillips">J. C. Phillips</name><affiliation wicri:level="4"><nlm:aff id="I1">Department of Physics and Astronomy, Rutgers University, Piscataway, NJ 08854, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Physics and Astronomy, Rutgers University, Piscataway, NJ 08854</wicri:regionArea><placeName><region type="state">New Jersey</region><settlement type="city">New Brunswick (New Jersey)</settlement></placeName><orgName type="university">Université Rutgers</orgName></affiliation></author></analytic><series><title level="j">BioMed Research International</title><idno type="ISSN">2314-6133</idno><idno type="eISSN">2314-6141</idno><imprint><date when="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Influenza virus contains two highly variable envelope glycoproteins, hemagglutinin (HA) and neuraminidase (NA). The structure and properties of HA, which is responsible for binding the virus to the cell that is being infected, change significantly when the virus is transmitted from avian or swine species to humans. Here we focus first on the simpler problem of the much smaller human individual evolutionary amino acid mutational changes in NA, which cleaves sialic acid groups and is required for influenza virus replication. Our thermodynamic panorama shows that very small amino acid changes can be monitored very accurately across many historic (1945–2011) Uniprot and NCBI strains using hydropathicity scales to quantify the roughness of water film packages. Quantitative sequential analysis is most effective with the fractal differential hydropathicity scale based on protein self-organized criticality (SOC). Our analysis shows that large-scale vaccination programs have been responsible for a very large convergent reduction in common influenza severity in the last century. Hydropathic analysis is capable of interpreting and even predicting trends of functional changes in mutation prolific viruses directly from amino acid sequences alone. An engineered strain of NA1 is described which could well be significantly less virulent than current circulating strains.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Taubenberger, Jk" uniqKey="Taubenberger J">JK Taubenberger</name></author><author><name sortKey="Morens, Dm" uniqKey="Morens D">DM Morens</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Pica, N" uniqKey="Pica N">N Pica</name></author><author><name sortKey="Hai, R" uniqKey="Hai R">R Hai</name></author><author><name sortKey="Krammer, F" uniqKey="Krammer F">F Krammer</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Medina, Ra" uniqKey="Medina R">RA Medina</name></author><author><name sortKey="Manicassamy, B" uniqKey="Manicassamy B">B Manicassamy</name></author><author><name sortKey="Stertz, S" uniqKey="Stertz S">S Stertz</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Kilbourne, Ed" uniqKey="Kilbourne E">ED Kilbourne</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hashem, Am" uniqKey="Hashem A">AM Hashem</name></author><author><name sortKey="Doyle, Tm" uniqKey="Doyle T">TM Doyle</name></author><author><name sortKey="Van Domselaar, G" uniqKey="Van Domselaar G">G van Domselaar</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zhao, R" uniqKey="Zhao R">R Zhao</name></author><author><name sortKey="Cui, S" uniqKey="Cui S">S Cui</name></author><author><name sortKey="Guo, L" uniqKey="Guo L">L Guo</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Phillips, Jc" uniqKey="Phillips J">JC Phillips</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Anderson, De" uniqKey="Anderson D">DE Anderson</name></author><author><name sortKey="Becktel, Wj" uniqKey="Becktel W">WJ Becktel</name></author><author><name sortKey="Dahlquist, Fw" uniqKey="Dahlquist F">FW Dahlquist</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Verma, D" uniqKey="Verma D">D Verma</name></author><author><name sortKey="Jacobs, Dj" uniqKey="Jacobs D">DJ Jacobs</name></author><author><name sortKey="Livesay, Dr" uniqKey="Livesay D">DR Livesay</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Klenin, K" uniqKey="Klenin K">K Klenin</name></author><author><name sortKey="Strodel, B" uniqKey="Strodel B">B Strodel</name></author><author><name sortKey="Wales, Dj" uniqKey="Wales D">DJ Wales</name></author><author><name sortKey="Wenzel, W" uniqKey="Wenzel W">W Wenzel</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Kyte, J" uniqKey="Kyte J">J Kyte</name></author><author><name sortKey="Doolittle, Rf" uniqKey="Doolittle R">RF Doolittle</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Moret, Ma" uniqKey="Moret M">MA Moret</name></author><author><name sortKey="Zebende, Gf" uniqKey="Zebende G">GF Zebende</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Phillips, Jc" uniqKey="Phillips J">JC Phillips</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Phillips, Jc" uniqKey="Phillips J">JC Phillips</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Phillips, Jc" uniqKey="Phillips J">JC Phillips</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Moret, Ma" uniqKey="Moret M">MA Moret</name></author><author><name sortKey="Pereira, Hbb" uniqKey="Pereira H">HBB Pereira</name></author><author><name sortKey="Monteiro, Sl" uniqKey="Monteiro S">SL Monteiro</name></author><author><name sortKey="Galeao, Ac" uniqKey="Galeao A">AC Galeão</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Pinto, Cma" uniqKey="Pinto C">CMA Pinto</name></author><author><name sortKey="Mendes Lopes, A" uniqKey="Mendes Lopes A">A Mendes Lopes</name></author><author><name sortKey="Machado, Jat" uniqKey="Machado J">JAT Machado</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Moret, Ma" uniqKey="Moret M">MA Moret</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Phillips, Jc" uniqKey="Phillips J">JC Phillips</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Phillips, Jc" uniqKey="Phillips J">JC Phillips</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Elena, Sf" uniqKey="Elena S">SF Elena</name></author><author><name sortKey="Cooper, Vs" uniqKey="Cooper V">VS Cooper</name></author><author><name sortKey="Lenski, Re" uniqKey="Lenski R">RE Lenski</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Elena, Sf" uniqKey="Elena S">SF Elena</name></author><author><name sortKey="Lenski, Re" uniqKey="Lenski R">RE Lenski</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Urban, Jh" uniqKey="Urban J">JH Urban</name></author><author><name sortKey="Merten, Ca" uniqKey="Merten C">CA Merten</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Naumis, Gg" uniqKey="Naumis G">GG Naumis</name></author><author><name sortKey="Phillips, Jc" uniqKey="Phillips J">JC Phillips</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Gaydos, Jc" uniqKey="Gaydos J">JC Gaydos</name></author><author><name sortKey="Top, Fh" uniqKey="Top F">FH Top</name></author><author><name sortKey="Hodder, Ra" uniqKey="Hodder R">RA Hodder</name></author><author><name sortKey="Russell, Pk" uniqKey="Russell P">PK Russell</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Krause, R" uniqKey="Krause R">R Krause</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Kash, Jc" uniqKey="Kash J">JC Kash</name></author><author><name sortKey="Qi, L" uniqKey="Qi L">L Qi</name></author><author><name sortKey="Dugan, Vg" uniqKey="Dugan V">VG Dugan</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hirota, Y" uniqKey="Hirota Y">Y Hirota</name></author><author><name sortKey="Kaji, M" uniqKey="Kaji M">M Kaji</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Smith, Gjd" uniqKey="Smith G">GJD Smith</name></author><author><name sortKey="Vijaykrishna, D" uniqKey="Vijaykrishna D">D Vijaykrishna</name></author><author><name sortKey="Bahl, J" uniqKey="Bahl J">J Bahl</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Mamun, Mma" uniqKey="Mamun M">MMA Mamun</name></author><author><name sortKey="Huda, Akmn" uniqKey="Huda A">AKMN Huda</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bak, P" uniqKey="Bak P">P Bak</name></author><author><name sortKey="Sneppen, K" uniqKey="Sneppen K">K Sneppen</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Castoe, Ta" uniqKey="Castoe T">TA Castoe</name></author><author><name sortKey="De Koning, Apj" uniqKey="De Koning A">APJ de Koning</name></author><author><name sortKey="Kim, H M" uniqKey="Kim H">H-M Kim</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Liberles, Da" uniqKey="Liberles D">DA Liberles</name></author><author><name sortKey="Teichmann, Sa" uniqKey="Teichmann S">SA Teichmann</name></author><author><name sortKey="Bahar, I" uniqKey="Bahar I">I Bahar</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hai, R" uniqKey="Hai R">R Hai</name></author><author><name sortKey="Krammer, F" uniqKey="Krammer F">F Krammer</name></author><author><name sortKey="Tan, Gs" uniqKey="Tan G">GS Tan</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Riddle, Ds" uniqKey="Riddle D">DS Riddle</name></author><author><name sortKey="Grantcharova, Vp" uniqKey="Grantcharova V">VP Grantcharova</name></author><author><name sortKey="Santiago, Jv" uniqKey="Santiago J">JV Santiago</name></author><author><name sortKey="Alm, E" uniqKey="Alm E">E Alm</name></author><author><name sortKey="Ruczinski, I" uniqKey="Ruczinski I">I Ruczinski</name></author><author><name sortKey="Baker, D" uniqKey="Baker D">D Baker</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Garten, Rj" uniqKey="Garten R">RJ Garten</name></author><author><name sortKey="Davis, Ca" uniqKey="Davis C">CA Davis</name></author><author><name sortKey="Russell, Ca" uniqKey="Russell C">CA Russell</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Sandbulte, Mr" uniqKey="Sandbulte M">MR Sandbulte</name></author><author><name sortKey="Westgeest, Kb" uniqKey="Westgeest K">KB Westgeest</name></author><author><name sortKey="Gao, J" uniqKey="Gao J">J Gao</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="He, J" uniqKey="He J">J He</name></author><author><name sortKey="Deem, Mw" uniqKey="Deem M">MW Deem</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Pan, K" uniqKey="Pan K">K Pan</name></author><author><name sortKey="Long, J" uniqKey="Long J">J Long</name></author><author><name sortKey="Sun, H" uniqKey="Sun H">H Sun</name></author><author><name sortKey="Tobin, Gj" uniqKey="Tobin G">GJ Tobin</name></author><author><name sortKey="Nara, Pl" uniqKey="Nara P">PL Nara</name></author><author><name sortKey="Deem, Mw" uniqKey="Deem M">MW Deem</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Gamba, A" uniqKey="Gamba A">A Gamba</name></author><author><name sortKey="Nicodemi, M" uniqKey="Nicodemi M">M Nicodemi</name></author><author><name sortKey="Soriano, J" uniqKey="Soriano J">J Soriano</name></author><author><name sortKey="Ott, A" uniqKey="Ott A">A Ott</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Colman, Pm" uniqKey="Colman P">PM Colman</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Earp, Lj" uniqKey="Earp L">LJ Earp</name></author><author><name sortKey="Delos, Se" uniqKey="Delos S">SE Delos</name></author><author><name sortKey="Park, He" uniqKey="Park H">HE Park</name></author><author><name sortKey="White, Jm" uniqKey="White J">JM White</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Eames, Ktd" uniqKey="Eames K">KTD Eames</name></author><author><name sortKey="Brooks Pollock, E" uniqKey="Brooks Pollock E">E Brooks-Pollock</name></author><author><name sortKey="Paolotti, D" uniqKey="Paolotti D">D Paolotti</name></author><author><name sortKey="Perosa, M" uniqKey="Perosa M">M Perosa</name></author><author><name sortKey="Gioannini, C" uniqKey="Gioannini C">C Gioannini</name></author><author><name sortKey="Edmunds, Wj" uniqKey="Edmunds W">WJ Edmunds</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Rambaut, A" uniqKey="Rambaut A">A Rambaut</name></author><author><name sortKey="Pybus, Og" uniqKey="Pybus O">OG Pybus</name></author><author><name sortKey="Nelson, Mi" uniqKey="Nelson M">MI Nelson</name></author><author><name sortKey="Viboud, C" uniqKey="Viboud C">C Viboud</name></author><author><name sortKey="Taubenberger, Jk" uniqKey="Taubenberger J">JK Taubenberger</name></author><author><name sortKey="Holmes, Ec" uniqKey="Holmes E">EC Holmes</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Nagae, M" uniqKey="Nagae M">M Nagae</name></author><author><name sortKey="Yamaguchi, Y" uniqKey="Yamaguchi Y">Y Yamaguchi</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Tolstoguzov, V" uniqKey="Tolstoguzov V">V Tolstoguzov</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wagner, R" uniqKey="Wagner R">R Wagner</name></author><author><name sortKey="Matrosovich, M" uniqKey="Matrosovich M">M Matrosovich</name></author><author><name sortKey="Klenk, H D" uniqKey="Klenk H">H-D Klenk</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Violini, N" uniqKey="Violini N">N Violini</name></author><author><name sortKey="Orecchini, A" uniqKey="Orecchini A">A Orecchini</name></author><author><name sortKey="Paciaroni, A" uniqKey="Paciaroni A">A Paciaroni</name></author><author><name sortKey="Petrillo, C" uniqKey="Petrillo C">C Petrillo</name></author><author><name sortKey="Sacchetti, F" uniqKey="Sacchetti F">F Sacchetti</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Boolchand, P" uniqKey="Boolchand P">P Boolchand</name></author><author><name sortKey="Lucovsky, G" uniqKey="Lucovsky G">G Lucovsky</name></author><author><name sortKey="Phillips, Jc" uniqKey="Phillips J">JC Phillips</name></author><author><name sortKey="Thorpe, Mf" uniqKey="Thorpe M">MF Thorpe</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zamarin, D" uniqKey="Zamarin D">D Zamarin</name></author><author><name sortKey="Palese, P" uniqKey="Palese P">P Palese</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>New Jersey</li></region><settlement><li>New Brunswick (New Jersey)</li></settlement><orgName><li>Université Rutgers</li></orgName></list><tree><country name="États-Unis"><region name="New Jersey"><name sortKey="Phillips, J C" sort="Phillips, J C" uniqKey="Phillips J" first="J. C." last="Phillips">J. C. Phillips</name></region></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 000685 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 000685 | 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:4124202
|texte= Punctuated Evolution of Influenza Virus Neuraminidase (A/H1N1) under Opposing Migration and Vaccination Pressures
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:25143953" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a H2N2V1
| This area was generated with Dilib version V0.6.33. |  |