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 : 001950 ( PubMed/Corpus ); précédent : 001949; suivant : 001951A 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 ; Abul Bashar Mir Md Khademul IslamSource :
- BMC bioinformatics [ 1471-2105 ] ; 2014.
English descriptors
- KwdEn :
- MESH :
- chemical , chemistry : Epitopes, RNA Replicase, Viral Proteins.
- enzymology : Coronavirus.
- immunology : Coronavirus, RNA Replicase, Viral Proteins.
- Algorithms, Amino Acid Sequence, Conserved Sequence, Humans, Sequence Alignment, Viral Vaccines.
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.
DOI: 10.1186/1471-2105-15-161
PubMed: 24884408
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pubmed:24884408Le document en format XML
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<author><name sortKey="Sharmin, Refat" sort="Sharmin, Refat" uniqKey="Sharmin R" first="Refat" last="Sharmin">Refat Sharmin</name>
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<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><nlm:affiliation>Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000, Bangladesh. khademul@du.ac.bd.</nlm:affiliation>
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<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>
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<term>Amino Acid Sequence</term>
<term>Conserved Sequence</term>
<term>Coronavirus (enzymology)</term>
<term>Coronavirus (immunology)</term>
<term>Epitopes (chemistry)</term>
<term>Humans</term>
<term>RNA Replicase (chemistry)</term>
<term>RNA Replicase (immunology)</term>
<term>Sequence Alignment</term>
<term>Viral Proteins (chemistry)</term>
<term>Viral Proteins (immunology)</term>
<term>Viral Vaccines</term>
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<keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Epitopes</term>
<term>RNA Replicase</term>
<term>Viral Proteins</term>
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<term>Amino Acid Sequence</term>
<term>Conserved Sequence</term>
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<front><div type="abstract" xml:lang="en">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.</div>
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<Title>BMC bioinformatics</Title>
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<ArticleTitle>A highly conserved WDYPKCDRA epitope in the RNA directed RNA polymerase of human coronaviruses can be used as epitope-based universal vaccine design.</ArticleTitle>
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<Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">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.</AbstractText>
<AbstractText Label="RESULTS" NlmCategory="RESULTS">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 in silico 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.</AbstractText>
<AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">Here we suggest in vivo 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.</AbstractText>
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<ForeName>Abul Bashar Mir Md Khademul</ForeName>
<Initials>AB</Initials>
<AffiliationInfo><Affiliation>Department of Genetic Engineering and Biotechnology, University of Dhaka, Science Complex Building, Dhaka 1000, Bangladesh. khademul@du.ac.bd.</Affiliation>
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<ReferenceList><Reference><Citation>Respirology. 2003 Nov;8 Suppl:S9-14</Citation>
<ArticleIdList><ArticleId IdType="pubmed">15018127</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nature. 2004 Apr 1;428(6982):561-4</Citation>
<ArticleIdList><ArticleId IdType="pubmed">15024391</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Comput Chem. 2004 Oct;25(13):1605-12</Citation>
<ArticleIdList><ArticleId IdType="pubmed">15264254</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nat Med. 2005 Apr;11(4 Suppl):S5-11</Citation>
<ArticleIdList><ArticleId IdType="pubmed">15812490</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Proc Natl Acad Sci U S A. 2005 May 31;102(22):7988-93</Citation>
<ArticleIdList><ArticleId IdType="pubmed">15897467</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Immunome Res. 2006 Apr 24;2:2</Citation>
<ArticleIdList><ArticleId IdType="pubmed">16635264</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Ann N Y Acad Sci. 2006 May;1067:500-5</Citation>
<ArticleIdList><ArticleId IdType="pubmed">16804033</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>FEBS Lett. 1990 Dec 10;276(1-2):172-4</Citation>
<ArticleIdList><ArticleId IdType="pubmed">1702393</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>BMC Bioinformatics. 2007 Sep 26;8:361</Citation>
<ArticleIdList><ArticleId IdType="pubmed">17897458</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Clin Microbiol Rev. 2007 Oct;20(4):660-94</Citation>
<ArticleIdList><ArticleId IdType="pubmed">17934078</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>BMC Bioinformatics. 2008 Jan 23;9:40</Citation>
<ArticleIdList><ArticleId IdType="pubmed">18215316</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W35-41</Citation>
<ArticleIdList><ArticleId IdType="pubmed">18442995</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Antimicrob Chemother. 2008 Sep;62(3):437-41</Citation>
<ArticleIdList><ArticleId IdType="pubmed">18565970</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Vaccine. 2009 Jan 29;27(5):640-5</Citation>
<ArticleIdList><ArticleId IdType="pubmed">19059446</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Bioinformatics. 2009 May 1;25(9):1189-91</Citation>
<ArticleIdList><ArticleId IdType="pubmed">19151095</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Clin Lab Med. 2009 Dec;29(4):715-24</Citation>
<ArticleIdList><ArticleId IdType="pubmed">19892230</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nucleic Acids Res. 2010 Jan;38(Database issue):D854-62</Citation>
<ArticleIdList><ArticleId IdType="pubmed">19906713</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Expert Rev Vaccines. 2011 Nov;10(11):1597-608</Citation>
<ArticleIdList><ArticleId IdType="pubmed">22043958</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>PLoS One. 2012;7(6):e38638</Citation>
<ArticleIdList><ArticleId IdType="pubmed">22719912</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>N Engl J Med. 2012 Nov 8;367(19):1814-20</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23075143</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>MBio. 2012 Nov 20;3(6):null</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23170002</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nucleic Acids Res. 2013 Jan;41(Database issue):D36-42</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23193287</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>MBio. 2012 Dec 11;3(6):null</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23232719</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Annu Rev Med. 2013;64:189-202</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23327522</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Sci Rep. 2013;3:1686</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23594967</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Emerg Infect Dis. 2013 May;19(5):736-42B</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23693015</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Thorac Dis. 2013 Aug;5 Suppl 2:S103-8</Citation>
<ArticleIdList><ArticleId IdType="pubmed">23977429</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>MBio. 2013 Sep 10;4(5):e00650-13</Citation>
<ArticleIdList><ArticleId IdType="pubmed">24023385</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Biochemistry. 1986 Sep 23;25(19):5425-32</Citation>
<ArticleIdList><ArticleId IdType="pubmed">2430611</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Arch Virol. 2014 Jul;159(7):1575-84</Citation>
<ArticleIdList><ArticleId IdType="pubmed">24515532</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>J Virol. 1985 Sep;55(3):836-9</Citation>
<ArticleIdList><ArticleId IdType="pubmed">2991600</ArticleId>
</ArticleIdList>
</Reference>
<Reference><Citation>Nucleic Acids Res. 1994 Nov 11;22(22):4673-80</Citation>
<ArticleIdList><ArticleId IdType="pubmed">7984417</ArticleId>
</ArticleIdList>
</Reference>
</ReferenceList>
</PubmedData>
</pubmed>
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