A highly conserved WDYPKCDRA epitope in the RNA directed RNA polymerase of human coronaviruses can be used as epitope-based universal vaccine design
Identifieur interne : 000A52 ( Main/Exploration ); précédent : 000A51; suivant : 000A53A highly conserved WDYPKCDRA epitope in the RNA directed RNA polymerase of human coronaviruses can be used as epitope-based universal vaccine design
Auteurs : Refat Sharmin [Bangladesh] ; Abul Bashar Mir Md Khademul Islam [Bangladesh]Source :
- BMC Bioinformatics [ 1471-2105 ] ; 2014.
Abstract
Coronaviruses are the diverse group of RNA virus. From 1960, six strains of human coronaviruses have emerged that includes SARS-CoV and the recent infection by deadly MERS-CoV which is now going to cause another outbreak. Prevention of these viruses is urgent and a universal vaccine for all strain could be a promising solution in this circumstance. In this study we aimed to design an epitope based vaccine against all strain of human coronavirus.
Multiple sequence alignment (MSA) approach was employed among spike (S), membrane (M), enveloped (E) and nucleocapsid (N) protein and replicase polyprotein 1ab to identify which one is highly conserve in all coronaviruses strains. Next, we use various
Here we suggest
Url:
DOI: 10.1186/1471-2105-15-161
PubMed: 24884408
PubMed Central: 4041900
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">A highly conserved WDYPKCDRA epitope in the RNA directed RNA polymerase of human coronaviruses can be used as epitope-based universal vaccine design</title><author><name sortKey="Sharmin, Refat" sort="Sharmin, Refat" uniqKey="Sharmin R" first="Refat" last="Sharmin">Refat Sharmin</name><affiliation wicri:level="1"><nlm:aff id="I1">Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000, Bangladesh</nlm:aff><country xml:lang="fr">Bangladesh</country><wicri:regionArea>Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000</wicri:regionArea><wicri:noRegion>Dhaka 1000</wicri:noRegion></affiliation></author><author><name sortKey="Islam, Abul Bashar Mir Md Khademul" sort="Islam, Abul Bashar Mir Md Khademul" uniqKey="Islam A" first="Abul Bashar Mir Md Khademul" last="Islam">Abul Bashar Mir Md Khademul Islam</name><affiliation wicri:level="1"><nlm:aff id="I1">Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000, Bangladesh</nlm:aff><country xml:lang="fr">Bangladesh</country><wicri:regionArea>Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000</wicri:regionArea><wicri:noRegion>Dhaka 1000</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">24884408</idno><idno type="pmc">4041900</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4041900</idno><idno type="RBID">PMC:4041900</idno><idno type="doi">10.1186/1471-2105-15-161</idno><date when="2014">2014</date><idno type="wicri:Area/Pmc/Corpus">000391</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000391</idno><idno type="wicri:Area/Pmc/Curation">000391</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000391</idno><idno type="wicri:Area/Pmc/Checkpoint">000430</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000430</idno><idno type="wicri:Area/Ncbi/Merge">000388</idno><idno type="wicri:Area/Ncbi/Curation">000388</idno><idno type="wicri:Area/Ncbi/Checkpoint">000388</idno><idno type="wicri:Area/Main/Merge">000A54</idno><idno type="wicri:Area/Main/Curation">000A52</idno><idno type="wicri:Area/Main/Exploration">000A52</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">A highly conserved WDYPKCDRA epitope in the RNA directed RNA polymerase of human coronaviruses can be used as epitope-based universal vaccine design</title><author><name sortKey="Sharmin, Refat" sort="Sharmin, Refat" uniqKey="Sharmin R" first="Refat" last="Sharmin">Refat Sharmin</name><affiliation wicri:level="1"><nlm:aff id="I1">Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000, Bangladesh</nlm:aff><country xml:lang="fr">Bangladesh</country><wicri:regionArea>Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000</wicri:regionArea><wicri:noRegion>Dhaka 1000</wicri:noRegion></affiliation></author><author><name sortKey="Islam, Abul Bashar Mir Md Khademul" sort="Islam, Abul Bashar Mir Md Khademul" uniqKey="Islam A" first="Abul Bashar Mir Md Khademul" last="Islam">Abul Bashar Mir Md Khademul Islam</name><affiliation wicri:level="1"><nlm:aff id="I1">Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000, Bangladesh</nlm:aff><country xml:lang="fr">Bangladesh</country><wicri:regionArea>Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000</wicri:regionArea><wicri:noRegion>Dhaka 1000</wicri:noRegion></affiliation></author></analytic><series><title level="j">BMC Bioinformatics</title><idno type="eISSN">1471-2105</idno><imprint><date when="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Coronaviruses are the diverse group of RNA virus. From 1960, six strains of human coronaviruses have emerged that includes SARS-CoV and the recent infection by deadly MERS-CoV which is now going to cause another outbreak. Prevention of these viruses is urgent and a universal vaccine for all strain could be a promising solution in this circumstance. In this study we aimed to design an epitope based vaccine against all strain of human coronavirus.</p></sec><sec><title>Results</title><p>Multiple sequence alignment (MSA) approach was employed among spike (S), membrane (M), enveloped (E) and nucleocapsid (N) protein and replicase polyprotein 1ab to identify which one is highly conserve in all coronaviruses strains. Next, we use various <italic>in silico</italic> tools to predict consensus immunogenic and conserved peptide. We found that conserved region is present only in the RNA directed RNA polymerase protein. In this protein we identified one epitope WDYPKCDRA is highly immunogenic and 100% conserved among all available human coronavirus strains.</p></sec><sec><title>Conclusions</title><p>Here we suggest <italic>in vivo</italic> study of our identified novel peptide antigen in RNA directed RNA polymerase protein for universal vaccine – which may be the way to prevent all human coronavirus disease.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Luis, E" uniqKey="Luis E">E Luis</name></author><author><name sortKey="Isabel, S" uniqKey="Isabel S">S Isabel</name></author><author><name sortKey="Sonia, Z" uniqKey="Sonia Z">Z Sonia</name></author><author><name sortKey="Fernando, A" uniqKey="Fernando A">A Fernando</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="De Groot, Rj" uniqKey="De Groot R">RJ De Groot</name></author><author><name sortKey="Baker, Sc" uniqKey="Baker S">SC 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Nabel</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Sudhakar, A" uniqKey="Sudhakar A">A Sudhakar</name></author><author><name sortKey="Robin, G" uniqKey="Robin G">G Robin</name></author><author><name sortKey="Boyd, L" uniqKey="Boyd L">L Boyd</name></author><author><name sortKey="Agnihothram, S" uniqKey="Agnihothram S">S Agnihothram</name></author><author><name sortKey="Gopal, R" uniqKey="Gopal R">R Gopal</name></author><author><name sortKey="Yount, Bl" uniqKey="Yount B">BL Yount</name></author><author><name sortKey="Donaldson, Ef" uniqKey="Donaldson E">EF Donaldson</name></author><author><name sortKey="Menachery, Vd" uniqKey="Menachery V">VD Menachery</name></author><author><name sortKey="Graham, Rl" uniqKey="Graham R">RL Graham</name></author><author><name sortKey="Scobey, Td" uniqKey="Scobey T">TD Scobey</name></author><author><name sortKey="Gralinski, Le" uniqKey="Gralinski L">LE Gralinski</name></author><author><name sortKey="Denison, Mr" uniqKey="Denison M">MR Denison</name></author><author><name sortKey="Zambon, M" uniqKey="Zambon M">M Zambon</name></author><author><name sortKey="Baric, R" uniqKey="Baric R">R Baric</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Fernando, A" uniqKey="Fernando A">A Fernando</name></author><author><name sortKey="Marta, L" uniqKey="Marta L">L Marta</name></author><author><name sortKey="Isabel, S" uniqKey="Isabel S">S Isabel</name></author><author><name sortKey="Sonia, Z" uniqKey="Sonia Z">Z Sonia</name></author><author><name sortKey="Jose, L" uniqKey="Jose L">L Jose</name></author><author><name sortKey="Silvia, Lj" uniqKey="Silvia L">LJ Silvia</name></author><author><name sortKey="German, A" uniqKey="German A">A German</name></author><author><name sortKey="Luis, E" uniqKey="Luis E">E Luis</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Pica, N" uniqKey="Pica N">N Pica</name></author><author><name sortKey="Palese, P" uniqKey="Palese P">P Palese</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Elaine, Vj" uniqKey="Elaine V">VJ Elaine</name></author><author><name sortKey="Sharon, K" uniqKey="Sharon K">K Sharon</name></author><author><name sortKey="Timothy, Jm" uniqKey="Timothy J">JM Timothy</name></author><author><name sortKey="Albert, Pr" uniqKey="Albert P">PR Albert</name></author><author><name sortKey="Smithkline, Bc" uniqKey="Smithkline B">BC Smithkline</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Arnon, R" uniqKey="Arnon R">R Arnon</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Olesen, Of" uniqKey="Olesen O">OF Olesen</name></author><author><name sortKey="Lonnoroth, A" uniqKey="Lonnoroth A">A Lonnoroth</name></author><author><name sortKey="Mulligan, B" uniqKey="Mulligan B">B Mulligan</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Benson, Da" uniqKey="Benson D">DA Benson</name></author><author><name sortKey="Cavanaugh, M" uniqKey="Cavanaugh M">M Cavanaugh</name></author><author><name sortKey="Clark, K" uniqKey="Clark K">K Clark</name></author><author><name sortKey="Karsch Mizrachi, I" uniqKey="Karsch Mizrachi I">I Karsch-Mizrachi</name></author><author><name sortKey="Lipman, Dj" uniqKey="Lipman D">DJ Lipman</name></author><author><name sortKey="Ostell, J" uniqKey="Ostell J">J Ostell</name></author><author><name sortKey="Sayers, Ew" uniqKey="Sayers E">EW Sayers</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Bangladesh</li></country></list><tree><country name="Bangladesh"><noRegion><name sortKey="Sharmin, Refat" sort="Sharmin, Refat" uniqKey="Sharmin R" first="Refat" last="Sharmin">Refat Sharmin</name></noRegion><name sortKey="Islam, Abul Bashar Mir Md Khademul" sort="Islam, Abul Bashar Mir Md Khademul" uniqKey="Islam A" first="Abul Bashar Mir Md Khademul" last="Islam">Abul Bashar Mir Md Khademul Islam</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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