Phylogenomics and bioinformatics of SARS-CoV
Identifieur interne : 005212 ( Main/Exploration ); précédent : 005211; suivant : 005213Phylogenomics and bioinformatics of SARS-CoV
Auteurs : Pietro Li [Royaume-Uni] ; Nick Goldman [Royaume-Uni]Source :
- Trends in Microbiology [ 0966-842X ] ; 2004.
Descripteurs français
- KwdFr :
- Biologie informatique, Glycoprotéine de spicule des coronavirus, Glycoprotéines membranaires (), Glycoprotéines membranaires (génétique), Génome viral, Phylogénie, Protéines de l'enveloppe virale (), Protéines de l'enveloppe virale (génétique), Syndrome respiratoire aigu sévère (virologie), Virus du SRAS (), Virus du SRAS (génétique).
- MESH :
- génétique : Glycoprotéines membranaires, Protéines de l'enveloppe virale, Virus du SRAS.
- virologie : Syndrome respiratoire aigu sévère.
- Biologie informatique, Glycoprotéine de spicule des coronavirus, Glycoprotéines membranaires, Génome viral, Phylogénie, Protéines de l'enveloppe virale, Virus du SRAS.
English descriptors
- KwdEn :
- Computational Biology, Genome, Viral, Membrane Glycoproteins (chemistry), Membrane Glycoproteins (genetics), Phylogeny, SARS Virus (chemistry), SARS Virus (classification), SARS Virus (genetics), Severe Acute Respiratory Syndrome (virology), Spike Glycoprotein, Coronavirus, Viral Envelope Proteins (chemistry), Viral Envelope Proteins (genetics).
- MESH :
- chemical , chemistry : Membrane Glycoproteins, Viral Envelope Proteins.
- chemical , genetics : Membrane Glycoproteins, Viral Envelope Proteins.
- chemistry : SARS Virus.
- classification : SARS Virus.
- genetics : SARS Virus.
- virology : Severe Acute Respiratory Syndrome.
- Computational Biology, Genome, Viral, Phylogeny, Spike Glycoprotein, Coronavirus.
Abstract
Tracing the history of molecular changes in coronaviruses using phylogenetic methods can provide powerful insights into the patterns of modification to sequences that underlie alteration to selective pressure and molecular function in the SARS-CoV (severe acute respiratory syndrome coronavirus) genome. The topology and branch lengths of the phylogenetic relationships among the family
Url:
DOI: 10.1016/j.tim.2004.01.005
PubMed: 15058277
PubMed Central: 7119090
Affiliations:
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Le document en format XML
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Avenue, UK CB3 0FD</nlm:aff><country>Royaume-Uni</country><wicri:regionArea>Computer Laboratory, University of Cambridge, 15 JJ Thomson Avenue</wicri:regionArea><orgName type="university">Université de Cambridge</orgName><placeName><settlement type="city">Cambridge</settlement><region type="country">Angleterre</region><region type="région" nuts="1">Angleterre de l'Est</region></placeName></affiliation></author><author><name sortKey="Goldman, Nick" sort="Goldman, Nick" uniqKey="Goldman N" first="Nick" last="Goldman">Nick Goldman</name><affiliation wicri:level="1"><nlm:aff id="AFF1">EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, UK CB10 1SD</nlm:aff><country>Royaume-Uni</country><wicri:regionArea>EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton</wicri:regionArea><wicri:noRegion>Hinxton</wicri:noRegion></affiliation></author></analytic><series><title level="j">Trends in Microbiology</title><idno type="ISSN">0966-842X</idno><idno type="eISSN">1878-4380</idno><imprint><date when="2004">2004</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Computational Biology</term><term>Genome, Viral</term><term>Membrane Glycoproteins (chemistry)</term><term>Membrane Glycoproteins (genetics)</term><term>Phylogeny</term><term>SARS Virus (chemistry)</term><term>SARS Virus (classification)</term><term>SARS Virus (genetics)</term><term>Severe Acute Respiratory Syndrome (virology)</term><term>Spike Glycoprotein, Coronavirus</term><term>Viral Envelope Proteins (chemistry)</term><term>Viral Envelope Proteins (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Biologie informatique</term><term>Glycoprotéine de spicule des coronavirus</term><term>Glycoprotéines membranaires ()</term><term>Glycoprotéines membranaires (génétique)</term><term>Génome viral</term><term>Phylogénie</term><term>Protéines de l'enveloppe virale ()</term><term>Protéines de l'enveloppe virale (génétique)</term><term>Syndrome respiratoire aigu sévère (virologie)</term><term>Virus du SRAS ()</term><term>Virus du SRAS (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Membrane Glycoproteins</term><term>Viral Envelope Proteins</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Membrane Glycoproteins</term><term>Viral Envelope Proteins</term></keywords><keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Glycoprotéines membranaires</term><term>Protéines de l'enveloppe virale</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Syndrome respiratoire aigu sévère</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Severe Acute Respiratory Syndrome</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Computational Biology</term><term>Genome, Viral</term><term>Phylogeny</term><term>Spike Glycoprotein, Coronavirus</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Biologie informatique</term><term>Glycoprotéine de spicule des coronavirus</term><term>Glycoprotéines membranaires</term><term>Génome viral</term><term>Phylogénie</term><term>Protéines de l'enveloppe virale</term><term>Virus du SRAS</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Tracing the history of molecular changes in coronaviruses using phylogenetic methods can provide powerful insights into the patterns of modification to sequences that underlie alteration to selective pressure and molecular function in the SARS-CoV (severe acute respiratory syndrome coronavirus) genome. The topology and branch lengths of the phylogenetic relationships among the family <italic>Coronaviridae</italic>, including SARS-CoV, have been estimated using the replicase polyprotein. The spike protein fragments S1 (involved in receptor-binding) and S2 (involved in membrane fusion) have been found to have different mutation rates. Fragment S1 can be further divided into two regions (S1A, which comprises approximately the first 400 nucleotides, and S1B, comprising the next 280) that also show different rates of mutation. The phylogeny presented on the basis of S1B shows that SARS-CoV is closely related to MHV (murine hepatitis virus), which is known to bind the murine receptor CEACAM1. The predicted structure, accessibility and mutation rate of the S1B region is also presented. Because anti-SARS drugs based on S2 heptads have short half-lives and are difficult to manufacture, our findings suggest that the S1B region might be of interest for anti-SARS drug discovery.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Whelan, S" uniqKey="Whelan S">S. Whelan</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Marra, M A" uniqKey="Marra M">M.A. Marra</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Rota, P A" uniqKey="Rota P">P.A. Rota</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Butler, P J G" uniqKey="Butler P">P.J.G. Butler</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Russell, R B" uniqKey="Russell R">R.B. Russell</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Thorne, J L" uniqKey="Thorne J">J.L. 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Yang</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Royaume-Uni</li></country><region><li>Angleterre</li><li>Angleterre de l'Est</li></region><settlement><li>Cambridge</li></settlement><orgName><li>Université de Cambridge</li></orgName></list><tree><country name="Royaume-Uni"><noRegion><name sortKey="Li, Pietro" sort="Li, Pietro" uniqKey="Li P" first="Pietro" last="Li">Pietro Li</name></noRegion><name sortKey="Goldman, Nick" sort="Goldman, Nick" uniqKey="Goldman N" first="Nick" last="Goldman">Nick Goldman</name><name sortKey="Li, Pietro" sort="Li, Pietro" uniqKey="Li P" first="Pietro" last="Li">Pietro Li</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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