Unique and Conserved Features of Genome and Proteome of SARS-coronavirus, an Early Split-off From the Coronavirus Group 2 Lineage
Identifieur interne : 005D24 ( Main/Exploration ); précédent : 005D23; suivant : 005D25Unique and Conserved Features of Genome and Proteome of SARS-coronavirus, an Early Split-off From the Coronavirus Group 2 Lineage
Auteurs : Eric J. Snijder [Pays-Bas] ; Peter J. Bredenbeek [Pays-Bas] ; Jessika C. Dobbe [Pays-Bas] ; Volker Thiel [Allemagne] ; John Ziebuhr [Allemagne] ; Leo L. M. Poon [République populaire de Chine] ; Yi Guan [République populaire de Chine] ; Mikhail Rozanov [États-Unis] ; Willy J. M. Spaan [Pays-Bas] ; Alexander E. Gorbalenya [Pays-Bas]Source :
- Journal of Molecular Biology [ 0022-2836 ] ; 2003.
Descripteurs français
- KwdFr :
- ARN messager (génétique), ARN messager (métabolisme), ARN viral (génétique), ARN viral (métabolisme), Animaux, Cadres ouverts de lecture, Cellules Vero, Coronavirus (), Coronavirus (génétique), Coronavirus (métabolisme), Données de séquences moléculaires, Génome viral, Humains, Maturation post-transcriptionnelle des ARN, Phylogénie, Protéines virales (), Protéines virales (génétique), Protéines virales (métabolisme), Protéome, RNA replicase (), RNA replicase (génétique), RNA replicase (métabolisme), Similitude de séquences d'acides aminés, Sous-unités de protéines, Structure tertiaire des protéines, Séquence conservée, Séquence d'acides aminés, Virus du SRAS (), Virus du SRAS (génétique), Virus du SRAS (métabolisme), Évolution moléculaire.
- MESH :
- génétique : ARN messager, ARN viral, Coronavirus, Protéines virales, RNA replicase, Virus du SRAS.
- métabolisme : ARN messager, ARN viral, Coronavirus, Protéines virales, RNA replicase, Virus du SRAS.
- Animaux, Cadres ouverts de lecture, Cellules Vero, Coronavirus, Données de séquences moléculaires, Génome viral, Humains, Maturation post-transcriptionnelle des ARN, Phylogénie, Protéines virales, Protéome, RNA replicase, Similitude de séquences d'acides aminés, Sous-unités de protéines, Structure tertiaire des protéines, Séquence conservée, Séquence d'acides aminés, Virus du SRAS, Évolution moléculaire.
English descriptors
- KwdEn :
- Amino Acid Sequence, Animals, Chlorocebus aethiops, Conserved Sequence, Coronavirus (classification), Coronavirus (genetics), Coronavirus (metabolism), Evolution, Molecular, Genome, Viral, Humans, Molecular Sequence Data, Open Reading Frames, Phylogeny, Protein Structure, Tertiary, Protein Subunits, Proteome, RNA Processing, Post-Transcriptional, RNA Replicase (chemistry), RNA Replicase (genetics), RNA Replicase (metabolism), RNA, Messenger (genetics), RNA, Messenger (metabolism), RNA, Viral (genetics), RNA, Viral (metabolism), SARS Virus (classification), SARS Virus (genetics), SARS Virus (metabolism), Sequence Homology, Amino Acid, Vero Cells, Viral Proteins (chemistry), Viral Proteins (genetics), Viral Proteins (metabolism).
- MESH :
- chemical , chemistry : RNA Replicase, Viral Proteins.
- chemical , genetics : RNA Replicase, RNA, Messenger, RNA, Viral, Viral Proteins.
- chemical , metabolism : RNA Replicase, RNA, Messenger, RNA, Viral, Viral Proteins.
- chemical : Protein Subunits, Proteome.
- classification : Coronavirus, SARS Virus.
- genetics : Coronavirus, SARS Virus.
- metabolism : Coronavirus, SARS Virus.
- Amino Acid Sequence, Animals, Chlorocebus aethiops, Conserved Sequence, Evolution, Molecular, Genome, Viral, Humans, Molecular Sequence Data, Open Reading Frames, Phylogeny, Protein Structure, Tertiary, RNA Processing, Post-Transcriptional, Sequence Homology, Amino Acid, Vero Cells.
Abstract
The genome organization and expression strategy of the newly identified severe acute respiratory syndrome coronavirus (SARS-CoV) were predicted using recently published genome sequences. Fourteen putative open reading frames were identified, 12 of which were predicted to be expressed from a nested set of eight subgenomic mRNAs. The synthesis of these mRNAs in SARS-CoV-infected cells was confirmed experimentally. The 4382- and 7073 amino acid residue SARS-CoV replicase polyproteins are predicted to be cleaved into 16 subunits by two viral proteinases (bringing the total number of SARS-CoV proteins to 28). A phylogenetic analysis of the replicase gene, using a distantly related torovirus as an outgroup, demonstrated that, despite a number of unique features, SARS-CoV is most closely related to group 2 coronaviruses. Distant homologs of cellular RNA processing enzymes were identified in group 2 coronaviruses, with four of them being conserved in SARS-CoV. These newly recognized viral enzymes place the mechanism of coronavirus RNA synthesis in a completely new perspective. Furthermore, together with previously described viral enzymes, they will be important targets for the design of antiviral strategies aimed at controlling the further spread of SARS-CoV.
Url:
DOI: 10.1016/S0022-2836(03)00865-9
PubMed: 12927536
PubMed Central: 7159028
Affiliations:
- Allemagne, Pays-Bas, République populaire de Chine, États-Unis
- Bavière, District de Basse-Franconie, Maryland
- Wurtzbourg
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Le document en format XML
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Snijder</name><affiliation wicri:level="1"><nlm:aff id="AFF1">Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. Box 9600, 2300 RC Leiden, The Netherlands</nlm:aff><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. Box 9600, 2300 RC Leiden</wicri:regionArea><wicri:noRegion>2300 RC Leiden</wicri:noRegion></affiliation></author><author><name sortKey="Bredenbeek, Peter J" sort="Bredenbeek, Peter J" uniqKey="Bredenbeek P" first="Peter J." last="Bredenbeek">Peter J. Bredenbeek</name><affiliation wicri:level="1"><nlm:aff id="AFF1">Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. Box 9600, 2300 RC Leiden, The Netherlands</nlm:aff><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. Box 9600, 2300 RC Leiden</wicri:regionArea><wicri:noRegion>2300 RC Leiden</wicri:noRegion></affiliation></author><author><name sortKey="Dobbe, Jessika C" sort="Dobbe, Jessika C" uniqKey="Dobbe J" first="Jessika C." last="Dobbe">Jessika C. Dobbe</name><affiliation wicri:level="1"><nlm:aff id="AFF1">Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. Box 9600, 2300 RC Leiden, The Netherlands</nlm:aff><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. Box 9600, 2300 RC Leiden</wicri:regionArea><wicri:noRegion>2300 RC Leiden</wicri:noRegion></affiliation></author><author><name sortKey="Thiel, Volker" sort="Thiel, Volker" uniqKey="Thiel V" first="Volker" last="Thiel">Volker Thiel</name><affiliation wicri:level="3"><nlm:aff id="AFF2">Institute of Virology and Immunology, University of Würzburg, Würzburg, Germany</nlm:aff><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute of Virology and Immunology, University of Würzburg, Würzburg</wicri:regionArea><placeName><region type="land" nuts="1">Bavière</region><region type="district" nuts="2">District de Basse-Franconie</region><settlement type="city">Wurtzbourg</settlement></placeName></affiliation></author><author><name sortKey="Ziebuhr, John" sort="Ziebuhr, John" uniqKey="Ziebuhr J" first="John" last="Ziebuhr">John Ziebuhr</name><affiliation wicri:level="3"><nlm:aff id="AFF2">Institute of Virology and Immunology, University of Würzburg, Würzburg, Germany</nlm:aff><country xml:lang="fr">Allemagne</country><wicri:regionArea>Institute of Virology and Immunology, University of Würzburg, Würzburg</wicri:regionArea><placeName><region type="land" nuts="1">Bavière</region><region type="district" nuts="2">District de Basse-Franconie</region><settlement type="city">Wurtzbourg</settlement></placeName></affiliation></author><author><name sortKey="Poon, Leo L M" sort="Poon, Leo L M" uniqKey="Poon L" first="Leo L. M." last="Poon">Leo L. M. Poon</name><affiliation wicri:level="1"><nlm:aff id="AFF3">Department of Microbiology and Pathology, Queen Mary Hospital, University of Hong Kong, Hong Kong SAR, People's Republic of China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology and Pathology, Queen Mary Hospital, University of Hong Kong, Hong Kong SAR</wicri:regionArea><wicri:noRegion>Hong Kong SAR</wicri:noRegion></affiliation></author><author><name sortKey="Guan, Yi" sort="Guan, Yi" uniqKey="Guan Y" first="Yi" last="Guan">Yi Guan</name><affiliation wicri:level="1"><nlm:aff id="AFF3">Department of Microbiology and Pathology, Queen Mary Hospital, University of Hong Kong, Hong Kong SAR, People's Republic of China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Department of Microbiology and Pathology, Queen Mary Hospital, University of Hong Kong, Hong Kong SAR</wicri:regionArea><wicri:noRegion>Hong Kong SAR</wicri:noRegion></affiliation></author><author><name sortKey="Rozanov, Mikhail" sort="Rozanov, Mikhail" uniqKey="Rozanov M" first="Mikhail" last="Rozanov">Mikhail Rozanov</name><affiliation wicri:level="2"><nlm:aff id="AFF4">National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD</wicri:regionArea><placeName><region type="state">Maryland</region></placeName></affiliation></author><author><name sortKey="Spaan, Willy J M" sort="Spaan, Willy J M" uniqKey="Spaan W" first="Willy J. M." last="Spaan">Willy J. M. Spaan</name><affiliation wicri:level="1"><nlm:aff id="AFF1">Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. Box 9600, 2300 RC Leiden, The Netherlands</nlm:aff><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. Box 9600, 2300 RC Leiden</wicri:regionArea><wicri:noRegion>2300 RC Leiden</wicri:noRegion></affiliation></author><author><name sortKey="Gorbalenya, Alexander E" sort="Gorbalenya, Alexander E" uniqKey="Gorbalenya A" first="Alexander E." last="Gorbalenya">Alexander E. Gorbalenya</name><affiliation wicri:level="1"><nlm:aff id="AFF1">Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. Box 9600, 2300 RC Leiden, The Netherlands</nlm:aff><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Molecular Virology Laboratory, Department of Medical Microbiology, Leiden University Medical Center, Room L4-34, Albinusdreef 2, P.O. 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Replicase (genetics)</term><term>RNA Replicase (metabolism)</term><term>RNA, Messenger (genetics)</term><term>RNA, Messenger (metabolism)</term><term>RNA, Viral (genetics)</term><term>RNA, Viral (metabolism)</term><term>SARS Virus (classification)</term><term>SARS Virus (genetics)</term><term>SARS Virus (metabolism)</term><term>Sequence Homology, Amino Acid</term><term>Vero Cells</term><term>Viral Proteins (chemistry)</term><term>Viral Proteins (genetics)</term><term>Viral Proteins (metabolism)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN messager (génétique)</term><term>ARN messager (métabolisme)</term><term>ARN viral (génétique)</term><term>ARN viral (métabolisme)</term><term>Animaux</term><term>Cadres ouverts de lecture</term><term>Cellules Vero</term><term>Coronavirus ()</term><term>Coronavirus (génétique)</term><term>Coronavirus (métabolisme)</term><term>Données de séquences moléculaires</term><term>Génome viral</term><term>Humains</term><term>Maturation post-transcriptionnelle des ARN</term><term>Phylogénie</term><term>Protéines virales ()</term><term>Protéines virales (génétique)</term><term>Protéines virales (métabolisme)</term><term>Protéome</term><term>RNA replicase ()</term><term>RNA replicase (génétique)</term><term>RNA replicase (métabolisme)</term><term>Similitude de séquences d'acides aminés</term><term>Sous-unités de protéines</term><term>Structure tertiaire des protéines</term><term>Séquence conservée</term><term>Séquence d'acides aminés</term><term>Virus du SRAS ()</term><term>Virus du SRAS (génétique)</term><term>Virus du SRAS (métabolisme)</term><term>Évolution moléculaire</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>RNA Replicase</term><term>Viral Proteins</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA Replicase</term><term>RNA, Messenger</term><term>RNA, Viral</term><term>Viral Proteins</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>RNA Replicase</term><term>RNA, Messenger</term><term>RNA, Viral</term><term>Viral Proteins</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>Protein Subunits</term><term>Proteome</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Coronavirus</term><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Coronavirus</term><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN messager</term><term>ARN viral</term><term>Coronavirus</term><term>Protéines virales</term><term>RNA replicase</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Coronavirus</term><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>ARN messager</term><term>ARN viral</term><term>Coronavirus</term><term>Protéines virales</term><term>RNA replicase</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Amino Acid Sequence</term><term>Animals</term><term>Chlorocebus aethiops</term><term>Conserved Sequence</term><term>Evolution, Molecular</term><term>Genome, Viral</term><term>Humans</term><term>Molecular Sequence Data</term><term>Open Reading Frames</term><term>Phylogeny</term><term>Protein Structure, Tertiary</term><term>RNA Processing, Post-Transcriptional</term><term>Sequence Homology, Amino Acid</term><term>Vero Cells</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Animaux</term><term>Cadres ouverts de lecture</term><term>Cellules Vero</term><term>Coronavirus</term><term>Données de séquences moléculaires</term><term>Génome viral</term><term>Humains</term><term>Maturation post-transcriptionnelle des ARN</term><term>Phylogénie</term><term>Protéines virales</term><term>Protéome</term><term>RNA replicase</term><term>Similitude de séquences d'acides aminés</term><term>Sous-unités de protéines</term><term>Structure tertiaire des protéines</term><term>Séquence conservée</term><term>Séquence d'acides aminés</term><term>Virus du SRAS</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The genome organization and expression strategy of the newly identified severe acute respiratory syndrome coronavirus (SARS-CoV) were predicted using recently published genome sequences. Fourteen putative open reading frames were identified, 12 of which were predicted to be expressed from a nested set of eight subgenomic mRNAs. The synthesis of these mRNAs in SARS-CoV-infected cells was confirmed experimentally. The 4382- and 7073 amino acid residue SARS-CoV replicase polyproteins are predicted to be cleaved into 16 subunits by two viral proteinases (bringing the total number of SARS-CoV proteins to 28). A phylogenetic analysis of the replicase gene, using a distantly related torovirus as an outgroup, demonstrated that, despite a number of unique features, SARS-CoV is most closely related to group 2 coronaviruses. Distant homologs of cellular RNA processing enzymes were identified in group 2 coronaviruses, with four of them being conserved in SARS-CoV. These newly recognized viral enzymes place the mechanism of coronavirus RNA synthesis in a completely new perspective. 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Inglis</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Allemagne</li><li>Pays-Bas</li><li>République populaire de Chine</li><li>États-Unis</li></country><region><li>Bavière</li><li>District de Basse-Franconie</li><li>Maryland</li></region><settlement><li>Wurtzbourg</li></settlement></list><tree><country name="Pays-Bas"><noRegion><name sortKey="Snijder, Eric J" sort="Snijder, Eric J" uniqKey="Snijder E" first="Eric J." last="Snijder">Eric J. Snijder</name></noRegion><name sortKey="Bredenbeek, Peter J" sort="Bredenbeek, Peter J" uniqKey="Bredenbeek P" first="Peter J." last="Bredenbeek">Peter J. Bredenbeek</name><name sortKey="Dobbe, Jessika C" sort="Dobbe, Jessika C" uniqKey="Dobbe J" first="Jessika C." last="Dobbe">Jessika C. Dobbe</name><name sortKey="Gorbalenya, Alexander E" sort="Gorbalenya, Alexander E" uniqKey="Gorbalenya A" first="Alexander E." last="Gorbalenya">Alexander E. Gorbalenya</name><name sortKey="Spaan, Willy J M" sort="Spaan, Willy J M" uniqKey="Spaan W" first="Willy J. M." last="Spaan">Willy J. M. Spaan</name></country><country name="Allemagne"><region name="Bavière"><name sortKey="Thiel, Volker" sort="Thiel, Volker" uniqKey="Thiel V" first="Volker" last="Thiel">Volker Thiel</name></region><name sortKey="Ziebuhr, John" sort="Ziebuhr, John" uniqKey="Ziebuhr J" first="John" last="Ziebuhr">John Ziebuhr</name></country><country name="République populaire de Chine"><noRegion><name sortKey="Poon, Leo L M" sort="Poon, Leo L M" uniqKey="Poon L" first="Leo L. M." last="Poon">Leo L. M. Poon</name></noRegion><name sortKey="Guan, Yi" sort="Guan, Yi" uniqKey="Guan Y" first="Yi" last="Guan">Yi Guan</name></country><country name="États-Unis"><region name="Maryland"><name sortKey="Rozanov, Mikhail" sort="Rozanov, Mikhail" uniqKey="Rozanov M" first="Mikhail" last="Rozanov">Mikhail Rozanov</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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