Direct Sequencing of SARS-Coronavirus S and N Genes from Clinical Specimens Shows Limited Variation
Identifieur interne : 005578 ( Main/Exploration ); précédent : 005577; suivant : 005579Direct Sequencing of SARS-Coronavirus S and N Genes from Clinical Specimens Shows Limited Variation
Auteurs : Suxiang Tong [Géorgie (pays), États-Unis] ; Jairam R. Lingappa [Géorgie (pays)] ; Qi Chen [Géorgie (pays)] ; Bo Shu [Géorgie (pays)] ; Ashley C. Lamonte [Géorgie (pays)] ; Byron T. Cook [Géorgie (pays)] ; Charryse Birge [Géorgie (pays)] ; Shur-Wern Wang Chern [Géorgie (pays)] ; Xin Liu [Géorgie (pays)] ; Renee Galloway [Géorgie (pays)] ; Mai Le Quynh [Viêt Nam] ; Fu Ng Wai [République populaire de Chine] ; Jyh-Yuan Yang [Taïwan] ; Jagdish Butany [Canada] ; James A. Comer [Géorgie (pays)] ; Stephan S. Monroe [Géorgie (pays)] ; Suzanne R. Beard [Géorgie (pays)] ; Thomas G. Ksiazek [Géorgie (pays)] ; Dean Erdman [Géorgie (pays)] ; Paul A. Rota [Géorgie (pays)] ; Mark A. Pallansch [Géorgie (pays)] ; Larry J. Anderson [Géorgie (pays)]Source :
- The Journal of Infectious Diseases [ 0022-1899 ] ; 2004.
Descripteurs français
- KwdFr :
- ARN viral (génétique), ARN viral (isolement et purification), Glycoprotéine de spicule des coronavirus, Glycoprotéines membranaires (génétique), Génome viral, Humains, Mutation faux-sens, Mutation ponctuelle, Polymorphisme génétique, Protéines de l'enveloppe virale (génétique), Protéines nucléocapside (génétique), Substitution d'acide aminé (génétique), Syndrome respiratoire aigu sévère (virologie), Virus du SRAS (génétique), Virus du SRAS (isolement et purification).
- MESH :
- génétique : ARN viral, Glycoprotéines membranaires, Protéines de l'enveloppe virale, Protéines nucléocapside, Substitution d'acide aminé, Virus du SRAS.
- isolement et purification : ARN viral, Virus du SRAS.
- virologie : Syndrome respiratoire aigu sévère.
- Glycoprotéine de spicule des coronavirus, Génome viral, Humains, Mutation faux-sens, Mutation ponctuelle, Polymorphisme génétique.
- Pascal (Inist)
English descriptors
- KwdEn :
- Amino Acid Substitution (genetics), Clinical isolate, Gene, Genome, Viral, Humans, Infection, Membrane Glycoproteins (genetics), Microbiology, Mutation, Missense, Nucleocapsid Proteins (genetics), Point Mutation, Polymorphism, Genetic, RNA, Viral (genetics), RNA, Viral (isolation & purification), SARS Virus (genetics), SARS Virus (isolation & purification), Sequencing, Severe Acute Respiratory Syndrome (virology), Severe acute respiratory syndrome virus, Spike Glycoprotein, Coronavirus, Viral Envelope Proteins (genetics).
- MESH :
- chemical , genetics : Membrane Glycoproteins, Nucleocapsid Proteins, RNA, Viral, Viral Envelope Proteins.
- genetics : Amino Acid Substitution, SARS Virus.
- chemical , isolation & purification : RNA, Viral, SARS Virus.
- virology : Severe Acute Respiratory Syndrome.
- Genome, Viral, Humans, Mutation, Missense, Point Mutation, Polymorphism, Genetic, Spike Glycoprotein, Coronavirus.
Abstract
Severe acute respiratory syndrome-associated coronavirus (SARS-CoV) emerged, in November 2002, as a novel agent causing severe respiratory illness. To study sequence variation in the SARS-CoV genome, we determined the nucleic acid sequence of the S and N genes directly from clinical specimens from 10 patients—1 specimen with no matched SARS-CoV isolate, from 2 patients; multiple specimens from 3 patients; and matched clinical-specimen/ cell-culture-isolate pairs from 6 patients. We identified 3 nucleotide substitutions that were most likely due to natural variation and 2 substitutions that arose after cell-culture passage of the virus. These data demonstrate the overall stability of the S and N genes of SARS-CoV over 3 months during which a minimum of 4 generations for transmission events occurred. These findings are a part of the expanding investigation of the evolution of how this virus adapts to a new host.
Url:
DOI: 10.1086/422849
Affiliations:
- Canada, Géorgie (pays), République populaire de Chine, Taïwan, Viêt Nam, États-Unis
- Géorgie (États-Unis)
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Le document en format XML
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Lingappa</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Chen, Qi" sort="Chen, Qi" uniqKey="Chen Q" first="Qi" last="Chen">Qi Chen</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Shu, Bo" sort="Shu, Bo" uniqKey="Shu B" first="Bo" last="Shu">Bo Shu</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Lamonte, Ashley C" sort="Lamonte, Ashley C" uniqKey="Lamonte A" first="Ashley C." last="Lamonte">Ashley C. Lamonte</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Cook, Byron T" sort="Cook, Byron T" uniqKey="Cook B" first="Byron T." last="Cook">Byron T. Cook</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Birge, Charryse" sort="Birge, Charryse" uniqKey="Birge C" first="Charryse" last="Birge">Charryse Birge</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Wang Chern, Shur Wern" sort="Wang Chern, Shur Wern" uniqKey="Wang Chern S" first="Shur-Wern" last="Wang Chern">Shur-Wern Wang Chern</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Liu, Xin" sort="Liu, Xin" uniqKey="Liu X" first="Xin" last="Liu">Xin Liu</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Galloway, Renee" sort="Galloway, Renee" uniqKey="Galloway R" first="Renee" last="Galloway">Renee Galloway</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Le Quynh, Mai" sort="Le Quynh, Mai" uniqKey="Le Quynh M" first="Mai" last="Le Quynh">Mai Le Quynh</name><affiliation wicri:level="1"><country xml:lang="fr">Viêt Nam</country><wicri:regionArea>Department of Virology, National Institute of Hygiene and Epidemiology, Hanoi</wicri:regionArea><wicri:noRegion>Hanoi</wicri:noRegion></affiliation></author><author><name sortKey="Wai, Fu Ng" sort="Wai, Fu Ng" uniqKey="Wai F" first="Fu Ng" last="Wai">Fu Ng Wai</name><affiliation wicri:level="1"><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Pathology, Princess Margaret Hospital and Yan Chai Hospital, Hong Kong</wicri:regionArea><wicri:noRegion>Hong Kong</wicri:noRegion></affiliation></author><author><name sortKey="Yang, Jyh Yuan" sort="Yang, Jyh Yuan" uniqKey="Yang J" first="Jyh-Yuan" last="Yang">Jyh-Yuan Yang</name><affiliation wicri:level="1"><country xml:lang="fr">Taïwan</country><wicri:regionArea>Centers for Disease Control and Prevention, Taipei</wicri:regionArea><wicri:noRegion>Taipei</wicri:noRegion></affiliation></author><author><name sortKey="Butany, Jagdish" sort="Butany, Jagdish" uniqKey="Butany J" first="Jagdish" last="Butany">Jagdish Butany</name><affiliation wicri:level="1"><country xml:lang="fr">Canada</country><wicri:regionArea>University of Toronto University Health Network/Toronto Medical Laboratories Toronto General Hospital, Toronto</wicri:regionArea><wicri:noRegion>Toronto</wicri:noRegion></affiliation></author><author><name sortKey="Comer, James A" sort="Comer, James A" uniqKey="Comer J" first="James A." last="Comer">James A. Comer</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Monroe, Stephan S" sort="Monroe, Stephan S" uniqKey="Monroe S" first="Stephan S." last="Monroe">Stephan S. Monroe</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Beard, Suzanne R" sort="Beard, Suzanne R" uniqKey="Beard S" first="Suzanne R." last="Beard">Suzanne R. Beard</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Ksiazek, Thomas G" sort="Ksiazek, Thomas G" uniqKey="Ksiazek T" first="Thomas G." last="Ksiazek">Thomas G. Ksiazek</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Erdman, Dean" sort="Erdman, Dean" uniqKey="Erdman D" first="Dean" last="Erdman">Dean Erdman</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Rota, Paul A" sort="Rota, Paul A" uniqKey="Rota P" first="Paul A." last="Rota">Paul A. Rota</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Pallansch, Mark A" sort="Pallansch, Mark A" uniqKey="Pallansch M" first="Mark A." last="Pallansch">Mark A. Pallansch</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author><author><name sortKey="Anderson, Larry J" sort="Anderson, Larry J" uniqKey="Anderson L" first="Larry J." last="Anderson">Larry J. Anderson</name><affiliation wicri:level="1"><country xml:lang="fr">Géorgie (pays)</country><wicri:regionArea>National Center for Infectious Diseases, Centers for Disease Control and Prevention, Atlanta</wicri:regionArea><wicri:noRegion>Atlanta</wicri:noRegion></affiliation></author></analytic><monogr></monogr><series><title level="j" type="main">The Journal of Infectious Diseases</title><title level="j" type="abbrev">The Journal of Infectious Diseases</title><idno type="ISSN">0022-1899</idno><idno type="eISSN">1537-6613</idno><imprint><publisher>The University of Chicago Press</publisher><date type="published">2004</date><biblScope unit="vol">190</biblScope><biblScope unit="issue">6</biblScope><biblScope unit="page" from="1127">1127</biblScope><biblScope unit="page" to="1131">1131</biblScope></imprint><idno type="ISSN">0022-1899</idno></series></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">0022-1899</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amino Acid Substitution (genetics)</term><term>Clinical isolate</term><term>Gene</term><term>Genome, Viral</term><term>Humans</term><term>Infection</term><term>Membrane Glycoproteins (genetics)</term><term>Microbiology</term><term>Mutation, Missense</term><term>Nucleocapsid Proteins (genetics)</term><term>Point Mutation</term><term>Polymorphism, Genetic</term><term>RNA, Viral (genetics)</term><term>RNA, Viral (isolation & purification)</term><term>SARS Virus (genetics)</term><term>SARS Virus (isolation & purification)</term><term>Sequencing</term><term>Severe Acute Respiratory Syndrome (virology)</term><term>Severe acute respiratory syndrome virus</term><term>Spike Glycoprotein, Coronavirus</term><term>Viral Envelope Proteins (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN viral (génétique)</term><term>ARN viral (isolement et purification)</term><term>Glycoprotéine de spicule des coronavirus</term><term>Glycoprotéines membranaires (génétique)</term><term>Génome viral</term><term>Humains</term><term>Mutation faux-sens</term><term>Mutation ponctuelle</term><term>Polymorphisme génétique</term><term>Protéines de l'enveloppe virale (génétique)</term><term>Protéines nucléocapside (génétique)</term><term>Substitution d'acide aminé (génétique)</term><term>Syndrome respiratoire aigu sévère (virologie)</term><term>Virus du SRAS (génétique)</term><term>Virus du SRAS (isolement et purification)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Membrane Glycoproteins</term><term>Nucleocapsid Proteins</term><term>RNA, Viral</term><term>Viral Envelope Proteins</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Amino Acid Substitution</term><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN viral</term><term>Glycoprotéines membranaires</term><term>Protéines de l'enveloppe virale</term><term>Protéines nucléocapside</term><term>Substitution d'acide aminé</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" type="chemical" qualifier="isolation & purification" xml:lang="en"><term>RNA, Viral</term><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>ARN viral</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>Genome, Viral</term><term>Humans</term><term>Mutation, Missense</term><term>Point Mutation</term><term>Polymorphism, Genetic</term><term>Spike Glycoprotein, Coronavirus</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Glycoprotéine de spicule des coronavirus</term><term>Génome viral</term><term>Humains</term><term>Mutation faux-sens</term><term>Mutation ponctuelle</term><term>Polymorphisme génétique</term></keywords><keywords scheme="Pascal" xml:lang="fr"><term>Gène</term><term>Infection</term><term>Isolat clinique</term><term>Microbiologie</term><term>Séquençage</term><term>Virus syndrome respiratoire aigu sévère</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract">Severe acute respiratory syndrome-associated coronavirus (SARS-CoV) emerged, in November 2002, as a novel agent causing severe respiratory illness. To study sequence variation in the SARS-CoV genome, we determined the nucleic acid sequence of the S and N genes directly from clinical specimens from 10 patients—1 specimen with no matched SARS-CoV isolate, from 2 patients; multiple specimens from 3 patients; and matched clinical-specimen/ cell-culture-isolate pairs from 6 patients. We identified 3 nucleotide substitutions that were most likely due to natural variation and 2 substitutions that arose after cell-culture passage of the virus. These data demonstrate the overall stability of the S and N genes of SARS-CoV over 3 months during which a minimum of 4 generations for transmission events occurred. These findings are a part of the expanding investigation of the evolution of how this virus adapts to a new host.</div></front></TEI><affiliations><list><country><li>Canada</li><li>Géorgie (pays)</li><li>République populaire de Chine</li><li>Taïwan</li><li>Viêt Nam</li><li>États-Unis</li></country><region><li>Géorgie (États-Unis)</li></region></list><tree><country name="Géorgie (pays)"><noRegion><name sortKey="Tong, Suxiang" sort="Tong, Suxiang" uniqKey="Tong S" first="Suxiang" last="Tong">Suxiang Tong</name></noRegion><name sortKey="Anderson, Larry J" sort="Anderson, Larry J" uniqKey="Anderson L" first="Larry J." last="Anderson">Larry J. Anderson</name><name sortKey="Beard, Suzanne R" sort="Beard, Suzanne R" uniqKey="Beard S" first="Suzanne R." last="Beard">Suzanne R. Beard</name><name sortKey="Birge, Charryse" sort="Birge, Charryse" uniqKey="Birge C" first="Charryse" last="Birge">Charryse Birge</name><name sortKey="Chen, Qi" sort="Chen, Qi" uniqKey="Chen Q" first="Qi" last="Chen">Qi Chen</name><name sortKey="Comer, James A" sort="Comer, James A" uniqKey="Comer J" first="James A." last="Comer">James A. Comer</name><name sortKey="Cook, Byron T" sort="Cook, Byron T" uniqKey="Cook B" first="Byron T." last="Cook">Byron T. Cook</name><name sortKey="Erdman, Dean" sort="Erdman, Dean" uniqKey="Erdman D" first="Dean" last="Erdman">Dean Erdman</name><name sortKey="Galloway, Renee" sort="Galloway, Renee" uniqKey="Galloway R" first="Renee" last="Galloway">Renee Galloway</name><name sortKey="Ksiazek, Thomas G" sort="Ksiazek, Thomas G" uniqKey="Ksiazek T" first="Thomas G." last="Ksiazek">Thomas G. Ksiazek</name><name sortKey="Lamonte, Ashley C" sort="Lamonte, Ashley C" uniqKey="Lamonte A" first="Ashley C." last="Lamonte">Ashley C. Lamonte</name><name sortKey="Lingappa, Jairam R" sort="Lingappa, Jairam R" uniqKey="Lingappa J" first="Jairam R." last="Lingappa">Jairam R. Lingappa</name><name sortKey="Liu, Xin" sort="Liu, Xin" uniqKey="Liu X" first="Xin" last="Liu">Xin Liu</name><name sortKey="Monroe, Stephan S" sort="Monroe, Stephan S" uniqKey="Monroe S" first="Stephan S." last="Monroe">Stephan S. Monroe</name><name sortKey="Pallansch, Mark A" sort="Pallansch, Mark A" uniqKey="Pallansch M" first="Mark A." last="Pallansch">Mark A. Pallansch</name><name sortKey="Rota, Paul A" sort="Rota, Paul A" uniqKey="Rota P" first="Paul A." last="Rota">Paul A. Rota</name><name sortKey="Shu, Bo" sort="Shu, Bo" uniqKey="Shu B" first="Bo" last="Shu">Bo Shu</name><name sortKey="Wang Chern, Shur Wern" sort="Wang Chern, Shur Wern" uniqKey="Wang Chern S" first="Shur-Wern" last="Wang Chern">Shur-Wern Wang Chern</name></country><country name="États-Unis"><region name="Géorgie (États-Unis)"><name sortKey="Tong, Suxiang" sort="Tong, Suxiang" uniqKey="Tong S" first="Suxiang" last="Tong">Suxiang Tong</name></region></country><country name="Viêt Nam"><noRegion><name sortKey="Le Quynh, Mai" sort="Le Quynh, Mai" uniqKey="Le Quynh M" first="Mai" last="Le Quynh">Mai Le Quynh</name></noRegion></country><country name="République populaire de Chine"><noRegion><name sortKey="Wai, Fu Ng" sort="Wai, Fu Ng" uniqKey="Wai F" first="Fu Ng" last="Wai">Fu Ng Wai</name></noRegion></country><country name="Taïwan"><noRegion><name sortKey="Yang, Jyh Yuan" sort="Yang, Jyh Yuan" uniqKey="Yang J" first="Jyh-Yuan" last="Yang">Jyh-Yuan Yang</name></noRegion></country><country name="Canada"><noRegion><name sortKey="Butany, Jagdish" sort="Butany, Jagdish" uniqKey="Butany J" first="Jagdish" last="Butany">Jagdish Butany</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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