Genetic Variation of SARS Coronavirus in Beijing Hospital
Identifieur interne : 005344 ( Main/Exploration ); précédent : 005343; suivant : 005345Genetic Variation of SARS Coronavirus in Beijing Hospital
Auteurs : Dongping Xu [République populaire de Chine] ; Zheng Zhang [République populaire de Chine] ; Fuliang Chu [République populaire de Chine] ; Yonggang Li [République populaire de Chine] ; Lei Jin [République populaire de Chine] ; Lingxia Zhang [République populaire de Chine] ; George F. Gao [Royaume-Uni] ; Fu-Sheng Wang [République populaire de Chine]Source :
- Emerging Infectious Diseases [ 1080-6040 ] ; 2004.
Descripteurs français
- KwdFr :
- ARN viral (analyse), ARN viral (isolement et purification), Adulte, Adulte d'âge moyen, Analyse de séquence d'ADN, Chine (épidémiologie), Femelle, Flambées de maladies, Glycoprotéine de spicule des coronavirus, Glycoprotéines membranaires (génétique), Hospitalisation, Humains, Maladies transmissibles émergentes (transmission), Maladies transmissibles émergentes (virologie), Maladies transmissibles émergentes (épidémiologie), Mâle, Protéines de l'enveloppe virale (génétique), RT-PCR, Sujet âgé, Syndrome respiratoire aigu sévère (transmission), Syndrome respiratoire aigu sévère (virologie), Syndrome respiratoire aigu sévère (épidémiologie), Variation génétique, Virus du SRAS (), Virus du SRAS (génétique), Virus du SRAS (isolement et purification).
- MESH :
- analyse : ARN viral.
- génétique : Glycoprotéines membranaires, Protéines de l'enveloppe virale, Virus du SRAS.
- isolement et purification : ARN viral, Virus du SRAS.
- virologie : Maladies transmissibles émergentes, Syndrome respiratoire aigu sévère.
- épidémiologie : Chine, Maladies transmissibles émergentes, Syndrome respiratoire aigu sévère.
- Adulte, Adulte d'âge moyen, Analyse de séquence d'ADN, Femelle, Flambées de maladies, Glycoprotéine de spicule des coronavirus, Hospitalisation, Humains, Mâle, RT-PCR, Sujet âgé, Variation génétique, Virus du SRAS.
- Wicri :
- geographic : République populaire de Chine.
English descriptors
- KwdEn :
- Adult, Aged, China (epidemiology), Communicable Diseases, Emerging (epidemiology), Communicable Diseases, Emerging (transmission), Communicable Diseases, Emerging (virology), Disease Outbreaks, Female, Genetic Variation, Hospitalization, Humans, Male, Membrane Glycoproteins (genetics), Middle Aged, RNA, Viral (analysis), RNA, Viral (isolation & purification), Reverse Transcriptase Polymerase Chain Reaction, SARS Virus (classification), SARS Virus (genetics), SARS Virus (isolation & purification), Sequence Analysis, DNA, Severe Acute Respiratory Syndrome (epidemiology), Severe Acute Respiratory Syndrome (transmission), Severe Acute Respiratory Syndrome (virology), Spike Glycoprotein, Coronavirus, Viral Envelope Proteins (genetics).
- MESH :
- chemical , analysis : RNA, Viral.
- chemical , genetics : Membrane Glycoproteins, Viral Envelope Proteins.
- geographic , epidemiology : China.
- classification : SARS Virus.
- epidemiology : Communicable Diseases, Emerging, Severe Acute Respiratory Syndrome.
- genetics : SARS Virus.
- chemical , isolation & purification : RNA, Viral, SARS Virus.
- transmission : Communicable Diseases, Emerging, Severe Acute Respiratory Syndrome.
- virology : Communicable Diseases, Emerging, Severe Acute Respiratory Syndrome.
- Adult, Aged, Disease Outbreaks, Female, Genetic Variation, Hospitalization, Humans, Male, Middle Aged, Reverse Transcriptase Polymerase Chain Reaction, Sequence Analysis, DNA, Spike Glycoprotein, Coronavirus.
Abstract
To characterize genetic variation of severe acute respiratory syndrome–associated coronavirus (SARS-CoV) transmitted in the Beijing area during the epidemic outbreak of 2003, we sequenced 29 full-length S genes of SARS-CoV from 20 hospitalized SARS patients on our unit, the Beijing 302 Hospital. Viral RNA templates for the S-gene amplification were directly extracted from raw clinical samples, including plasma, throat swab, sputum, and stool, during the course of the epidemic in the Beijing area. We used a TA-cloning assay with direct analysis of nested reverse transcription–polymerase chain reaction products in sequence. One hundred thirteen sequence variations with nine recurrent variant sites were identified in analyzed S-gene sequences compared with the BJ01 strain of SARS-CoV. Among them, eight variant sites were, we think, the first documented. Our findings demonstrate the coexistence of S-gene sequences with and without substitutions (referred to BJ01) in samples analyzed from some patients.
Url:
DOI: 10.3201/eid1005.030875
PubMed: 15200810
PubMed Central: 3323231
Affiliations:
- Royaume-Uni, République populaire de Chine
- Angleterre, Oxfordshire
- Oxford, Pékin
- Université d'Oxford
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Le document en format XML
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Respiratory Syndrome (epidemiology)</term><term>Severe Acute Respiratory Syndrome (transmission)</term><term>Severe Acute Respiratory Syndrome (virology)</term><term>Spike Glycoprotein, Coronavirus</term><term>Viral Envelope Proteins (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN viral (analyse)</term><term>ARN viral (isolement et purification)</term><term>Adulte</term><term>Adulte d'âge moyen</term><term>Analyse de séquence d'ADN</term><term>Chine (épidémiologie)</term><term>Femelle</term><term>Flambées de maladies</term><term>Glycoprotéine de spicule des coronavirus</term><term>Glycoprotéines membranaires (génétique)</term><term>Hospitalisation</term><term>Humains</term><term>Maladies transmissibles émergentes (transmission)</term><term>Maladies transmissibles émergentes (virologie)</term><term>Maladies transmissibles émergentes (épidémiologie)</term><term>Mâle</term><term>Protéines de l'enveloppe virale (génétique)</term><term>RT-PCR</term><term>Sujet 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sévère</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Communicable Diseases, Emerging</term><term>Severe Acute Respiratory Syndrome</term></keywords><keywords scheme="MESH" qualifier="épidémiologie" xml:lang="fr"><term>Chine</term><term>Maladies transmissibles émergentes</term><term>Syndrome respiratoire aigu sévère</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Adult</term><term>Aged</term><term>Disease Outbreaks</term><term>Female</term><term>Genetic Variation</term><term>Hospitalization</term><term>Humans</term><term>Male</term><term>Middle Aged</term><term>Reverse Transcriptase Polymerase Chain Reaction</term><term>Sequence Analysis, DNA</term><term>Spike Glycoprotein, Coronavirus</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Adulte</term><term>Adulte d'âge moyen</term><term>Analyse de séquence d'ADN</term><term>Femelle</term><term>Flambées de maladies</term><term>Glycoprotéine de spicule des coronavirus</term><term>Hospitalisation</term><term>Humains</term><term>Mâle</term><term>RT-PCR</term><term>Sujet âgé</term><term>Variation génétique</term><term>Virus du SRAS</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>République populaire de Chine</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>To characterize genetic variation of severe acute respiratory syndrome–associated coronavirus (SARS-CoV) transmitted in the Beijing area during the epidemic outbreak of 2003, we sequenced 29 full-length S genes of SARS-CoV from 20 hospitalized SARS patients on our unit, the Beijing 302 Hospital. Viral RNA templates for the S-gene amplification were directly extracted from raw clinical samples, including plasma, throat swab, sputum, and stool, during the course of the epidemic in the Beijing area. We used a TA-cloning assay with direct analysis of nested reverse transcription–polymerase chain reaction products in sequence. One hundred thirteen sequence variations with nine recurrent variant sites were identified in analyzed S-gene sequences compared with the BJ01 strain of SARS-CoV. Among them, eight variant sites were, we think, the first documented. Our findings demonstrate the coexistence of S-gene sequences with and without substitutions (referred to BJ01) in samples analyzed from some patients.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Royaume-Uni</li><li>République populaire de Chine</li></country><region><li>Angleterre</li><li>Oxfordshire</li></region><settlement><li>Oxford</li><li>Pékin</li></settlement><orgName><li>Université d'Oxford</li></orgName></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Xu, Dongping" sort="Xu, Dongping" uniqKey="Xu D" first="Dongping" last="Xu">Dongping Xu</name></noRegion><name sortKey="Chu, Fuliang" sort="Chu, Fuliang" uniqKey="Chu F" first="Fuliang" last="Chu">Fuliang Chu</name><name sortKey="Jin, Lei" sort="Jin, Lei" uniqKey="Jin L" first="Lei" last="Jin">Lei Jin</name><name sortKey="Li, Yonggang" sort="Li, Yonggang" uniqKey="Li Y" first="Yonggang" last="Li">Yonggang Li</name><name sortKey="Wang, Fu Sheng" sort="Wang, Fu Sheng" uniqKey="Wang F" first="Fu-Sheng" last="Wang">Fu-Sheng Wang</name><name sortKey="Zhang, Lingxia" sort="Zhang, Lingxia" uniqKey="Zhang L" first="Lingxia" last="Zhang">Lingxia Zhang</name><name sortKey="Zhang, Zheng" sort="Zhang, Zheng" uniqKey="Zhang Z" first="Zheng" last="Zhang">Zheng Zhang</name></country><country name="Royaume-Uni"><region name="Angleterre"><name sortKey="Gao, George F" sort="Gao, George F" uniqKey="Gao G" first="George F." last="Gao">George F. 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