Testing the hypothesis of a recombinant origin of the SARS-associated coronavirus
Identifieur interne : 000995 ( Pmc/Checkpoint ); précédent : 000994; suivant : 000996Testing the hypothesis of a recombinant origin of the SARS-associated coronavirus
Auteurs : X. W. Zhang [République populaire de Chine] ; Y. L. Yap [République populaire de Chine] ; A. Danchin [France]Source :
- Archives of Virology [ 0304-8608 ] ; 2004.
Abstract
The origin of severe acute respiratory syndrome-associated corona-virus (SARS-CoV) is still a matter of speculation, although more than one year has passed since the onset of the SARS outbreak. In this study, we implemented a 3-step strategy to test the intriguing hypothesis that SARS-CoV might have been derived from a recombinant virus. First, we blasted the whole SARS-CoV genome against a virus database to search viruses of interest. Second, we employed 7 recombination detection techniques well documented in successfully detecting recombination events to explore the presence of recombination in SARS-CoV genome. Finally, we conducted phylogenetic analyses to further explore whether recombination has indeed occurred in the course of coronaviruses history predating the emergence of SARS-CoV. Surprisingly, we found that 7 putative recombination regions, located in Replicase 1ab and Spike protein, exist between SARS-CoV and other 6 coronaviruses: porcine epidemic diarrhea virus (PEDV), transmissible gastroenteritis virus (TGEV), bovine coronavirus (BCoV), human coronavirus 229E (HCoV), murine hepatitis virus (MHV), and avian infectious bronchitis virus (IBV). Thus, our analyses substantiate the presence of recombination events in history that led to the SARS-CoV genome. Like the other coronaviruses used in the analysis, SARS-CoV is also a mosaic structure.
Url:
DOI: 10.1007/s00705-004-0413-9
PubMed: 15480857
PubMed Central: 7087341
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In this study, we implemented a 3-step strategy to test the intriguing hypothesis that SARS-CoV might have been derived from a recombinant virus. First, we blasted the whole SARS-CoV genome against a virus database to search viruses of interest. Second, we employed 7 recombination detection techniques well documented in successfully detecting recombination events to explore the presence of recombination in SARS-CoV genome. Finally, we conducted phylogenetic analyses to further explore whether recombination has indeed occurred in the course of coronaviruses history predating the emergence of SARS-CoV. Surprisingly, we found that 7 putative recombination regions, located in Replicase 1ab and Spike protein, exist between SARS-CoV and other 6 coronaviruses: porcine epidemic diarrhea virus (PEDV), transmissible gastroenteritis virus (TGEV), bovine coronavirus (BCoV), human coronavirus 229E (HCoV), murine hepatitis virus (MHV), and avian infectious bronchitis virus (IBV). Thus, our analyses substantiate the presence of recombination events in history that led to the SARS-CoV genome. Like the other coronaviruses used in the analysis, SARS-CoV is also a mosaic structure.</p></div></front></TEI><pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Arch Virol</journal-id><journal-id journal-id-type="iso-abbrev">Arch. Virol</journal-id><journal-title-group><journal-title>Archives of Virology</journal-title></journal-title-group><issn pub-type="ppub">0304-8608</issn><issn pub-type="epub">1432-8798</issn><publisher><publisher-name>Springer-Verlag</publisher-name><publisher-loc>Vienna</publisher-loc></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">15480857</article-id><article-id pub-id-type="pmc">7087341</article-id><article-id pub-id-type="publisher-id">413</article-id><article-id pub-id-type="doi">10.1007/s00705-004-0413-9</article-id><article-categories><subj-group subj-group-type="heading"><subject>Article</subject></subj-group></article-categories><title-group><article-title>Testing the hypothesis of a recombinant origin of the SARS-associated coronavirus</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Zhang</surname><given-names>X. W.</given-names></name><xref ref-type="aff" rid="A1">1</xref></contrib><contrib contrib-type="author"><name><surname>Yap</surname><given-names>Y. L.</given-names></name><xref ref-type="aff" rid="A1">1</xref></contrib><contrib contrib-type="author"><name><surname>Danchin</surname><given-names>A.</given-names></name><xref ref-type="aff" rid="A2">2</xref></contrib><aff id="A1"><label></label><institution-wrap><institution-id institution-id-type="GRID">grid.194645.b</institution-id><institution-id institution-id-type="ISNI">0000000121742757</institution-id><institution>HKU-Pasteur Research Centre,</institution></institution-wrap>Hong Kong, P.R. China</aff><aff id="A2"><label></label><institution-wrap><institution-id institution-id-type="GRID">grid.428999.7</institution-id><institution-id institution-id-type="ISNI">0000000123536535</institution-id><institution>Pasteur Institute, Unit Genetics of Bacterial Genomes,</institution></institution-wrap>Paris, France</aff></contrib-group><pub-date pub-type="epub"><day>11</day><month>10</month><year>2004</year></pub-date><pub-date pub-type="ppub"><year>2005</year></pub-date><volume>150</volume><issue>1</issue><fpage>1</fpage><lpage>20</lpage><history><date date-type="received"><day>27</day><month>2</month><year>2004</year></date><date date-type="accepted"><day>16</day><month>8</month><year>2004</year></date></history><permissions><copyright-statement>© Springer-Verlag/Wien 2004</copyright-statement><license><license-p>This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.</license-p></license></permissions><abstract id="Abs1"><title>Summary.</title><p>The origin of severe acute respiratory syndrome-associated corona-virus (SARS-CoV) is still a matter of speculation, although more than one year has passed since the onset of the SARS outbreak. In this study, we implemented a 3-step strategy to test the intriguing hypothesis that SARS-CoV might have been derived from a recombinant virus. First, we blasted the whole SARS-CoV genome against a virus database to search viruses of interest. Second, we employed 7 recombination detection techniques well documented in successfully detecting recombination events to explore the presence of recombination in SARS-CoV genome. Finally, we conducted phylogenetic analyses to further explore whether recombination has indeed occurred in the course of coronaviruses history predating the emergence of SARS-CoV. Surprisingly, we found that 7 putative recombination regions, located in Replicase 1ab and Spike protein, exist between SARS-CoV and other 6 coronaviruses: porcine epidemic diarrhea virus (PEDV), transmissible gastroenteritis virus (TGEV), bovine coronavirus (BCoV), human coronavirus 229E (HCoV), murine hepatitis virus (MHV), and avian infectious bronchitis virus (IBV). Thus, our analyses substantiate the presence of recombination events in history that led to the SARS-CoV genome. Like the other coronaviruses used in the analysis, SARS-CoV is also a mosaic structure.</p></abstract><kwd-group xml:lang="en"><title>Keywords</title><kwd>Porcine Epidemic Diarrhea Virus</kwd><kwd>Infectious Bronchitis Virus</kwd><kwd>Mosaic Structure</kwd><kwd>Gastroenteritis Virus</kwd><kwd>Recombination Detection</kwd></kwd-group><custom-meta-group><custom-meta><meta-name>issue-copyright-statement</meta-name><meta-value>© Springer-Verlag/Wien 2005</meta-value></custom-meta></custom-meta-group></article-meta></front></pmc><affiliations><list><country><li>France</li><li>République populaire de Chine</li></country></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Zhang, X W" sort="Zhang, X W" uniqKey="Zhang X" first="X. W." last="Zhang">X. W. Zhang</name></noRegion><name sortKey="Yap, Y L" sort="Yap, Y L" uniqKey="Yap Y" first="Y. L." last="Yap">Y. L. Yap</name></country><country name="France"><noRegion><name sortKey="Danchin, A" sort="Danchin, A" uniqKey="Danchin A" first="A." last="Danchin">A. Danchin</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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