Identification of novel subgenomic RNAs and noncanonical transcription initiation signals of severe acute respiratory syndrome coronavirus.
Identifieur interne : 002795 ( PubMed/Corpus ); précédent : 002794; suivant : 002796Identification of novel subgenomic RNAs and noncanonical transcription initiation signals of severe acute respiratory syndrome coronavirus.
Auteurs : Snawar Hussain ; Ji'An Pan ; Yu Chen ; Yalin Yang ; Jing Xu ; Yu Peng ; Ying Wu ; Zhaoyang Li ; Ying Zhu ; Po Tien ; Deyin GuoSource :
- Journal of virology [ 0022-538X ] ; 2005.
English descriptors
- KwdEn :
- Animals, Base Sequence, Chlorocebus aethiops, Cricetinae, Genome, Viral, Molecular Sequence Data, Open Reading Frames, RNA, Messenger (genetics), RNA, Viral (biosynthesis), RNA, Viral (genetics), SARS Virus (genetics), Templates, Genetic, Transcription Initiation Site, Transcription, Genetic, Vero Cells.
- MESH :
- chemical , biosynthesis : RNA, Viral.
- chemical , genetics : RNA, Messenger, RNA, Viral.
- genetics : SARS Virus.
- Animals, Base Sequence, Chlorocebus aethiops, Cricetinae, Genome, Viral, Molecular Sequence Data, Open Reading Frames, Templates, Genetic, Transcription Initiation Site, Transcription, Genetic, Vero Cells.
Abstract
The expression of the genomic information of severe acute respiratory syndrome coronavirus (SARS CoV) involves synthesis of a nested set of subgenomic RNAs (sgRNAs) by discontinuous transcription. In SARS CoV-infected cells, 10 sgRNAs, including 2 novel ones, were identified, which were predicted to be functional in the expression of 12 open reading frames located in the 3' one-third of the genome. Surprisingly, one new sgRNA could lead to production of a truncated spike protein. Sequence analysis of the leader-body fusion sites of each sgRNA showed that the junction sequences and the corresponding transcription-regulatory sequence (TRS) are unique for each species of sgRNA and are consistent after virus passages. For the two novel sgRNAs, each used a variant of the TRS that has one nucleotide mismatch in the conserved hexanucleotide core (ACGAAC) in the TRS. Coexistence of both plus and minus strands of SARS CoV sgRNAs and evidence for derivation of the sgRNA core sequence from the body core sequence favor the model of discontinuous transcription during minus-strand synthesis. Moreover, one rare species of sgRNA has the junction sequence AAA, indicating that its transcription could result from a noncanonical transcription signal. Taken together, these results provide more insight into the molecular mechanisms of genome expression and subgenomic transcription of SARS CoV.
DOI: 10.1128/JVI.79.9.5288-5295.2005
PubMed: 15827143
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pubmed:15827143Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Identification of novel subgenomic RNAs and noncanonical transcription initiation signals of severe acute respiratory syndrome coronavirus.</title><author><name sortKey="Hussain, Snawar" sort="Hussain, Snawar" uniqKey="Hussain S" first="Snawar" last="Hussain">Snawar Hussain</name><affiliation><nlm:affiliation>Modern Virology Research Centre, College of Life Sciences, Wuhan University, Wuhan 430072, People's Republic of China.</nlm:affiliation></affiliation></author><author><name sortKey="Pan, Ji An" sort="Pan, Ji An" uniqKey="Pan J" first="Ji'An" last="Pan">Ji'An Pan</name></author><author><name sortKey="Chen, Yu" sort="Chen, Yu" uniqKey="Chen Y" first="Yu" last="Chen">Yu Chen</name></author><author><name sortKey="Yang, Yalin" sort="Yang, Yalin" uniqKey="Yang Y" first="Yalin" last="Yang">Yalin Yang</name></author><author><name sortKey="Xu, Jing" sort="Xu, Jing" uniqKey="Xu J" first="Jing" last="Xu">Jing Xu</name></author><author><name sortKey="Peng, Yu" sort="Peng, Yu" uniqKey="Peng Y" first="Yu" last="Peng">Yu Peng</name></author><author><name sortKey="Wu, Ying" sort="Wu, Ying" uniqKey="Wu Y" first="Ying" last="Wu">Ying Wu</name></author><author><name sortKey="Li, Zhaoyang" sort="Li, Zhaoyang" uniqKey="Li Z" first="Zhaoyang" last="Li">Zhaoyang Li</name></author><author><name sortKey="Zhu, Ying" sort="Zhu, Ying" uniqKey="Zhu Y" first="Ying" last="Zhu">Ying Zhu</name></author><author><name sortKey="Tien, Po" sort="Tien, Po" uniqKey="Tien P" first="Po" last="Tien">Po Tien</name></author><author><name sortKey="Guo, Deyin" sort="Guo, Deyin" uniqKey="Guo D" first="Deyin" last="Guo">Deyin Guo</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2005">2005</date><idno type="RBID">pubmed:15827143</idno><idno type="pmid">15827143</idno><idno type="doi">10.1128/JVI.79.9.5288-5295.2005</idno><idno type="wicri:Area/PubMed/Corpus">002795</idno><idno 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Yang</name></author><author><name sortKey="Xu, Jing" sort="Xu, Jing" uniqKey="Xu J" first="Jing" last="Xu">Jing Xu</name></author><author><name sortKey="Peng, Yu" sort="Peng, Yu" uniqKey="Peng Y" first="Yu" last="Peng">Yu Peng</name></author><author><name sortKey="Wu, Ying" sort="Wu, Ying" uniqKey="Wu Y" first="Ying" last="Wu">Ying Wu</name></author><author><name sortKey="Li, Zhaoyang" sort="Li, Zhaoyang" uniqKey="Li Z" first="Zhaoyang" last="Li">Zhaoyang Li</name></author><author><name sortKey="Zhu, Ying" sort="Zhu, Ying" uniqKey="Zhu Y" first="Ying" last="Zhu">Ying Zhu</name></author><author><name sortKey="Tien, Po" sort="Tien, Po" uniqKey="Tien P" first="Po" last="Tien">Po Tien</name></author><author><name sortKey="Guo, Deyin" sort="Guo, Deyin" uniqKey="Guo D" first="Deyin" last="Guo">Deyin Guo</name></author></analytic><series><title level="j">Journal of virology</title><idno type="ISSN">0022-538X</idno><imprint><date when="2005" type="published">2005</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Base Sequence</term><term>Chlorocebus aethiops</term><term>Cricetinae</term><term>Genome, Viral</term><term>Molecular Sequence Data</term><term>Open Reading Frames</term><term>RNA, Messenger (genetics)</term><term>RNA, Viral (biosynthesis)</term><term>RNA, Viral (genetics)</term><term>SARS Virus (genetics)</term><term>Templates, Genetic</term><term>Transcription Initiation Site</term><term>Transcription, Genetic</term><term>Vero Cells</term></keywords><keywords scheme="MESH" type="chemical" qualifier="biosynthesis" xml:lang="en"><term>RNA, Viral</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Messenger</term><term>RNA, Viral</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Base Sequence</term><term>Chlorocebus aethiops</term><term>Cricetinae</term><term>Genome, Viral</term><term>Molecular Sequence Data</term><term>Open Reading Frames</term><term>Templates, Genetic</term><term>Transcription Initiation Site</term><term>Transcription, Genetic</term><term>Vero Cells</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The expression of the genomic information of severe acute respiratory syndrome coronavirus (SARS CoV) involves synthesis of a nested set of subgenomic RNAs (sgRNAs) by discontinuous transcription. In SARS CoV-infected cells, 10 sgRNAs, including 2 novel ones, were identified, which were predicted to be functional in the expression of 12 open reading frames located in the 3' one-third of the genome. Surprisingly, one new sgRNA could lead to production of a truncated spike protein. Sequence analysis of the leader-body fusion sites of each sgRNA showed that the junction sequences and the corresponding transcription-regulatory sequence (TRS) are unique for each species of sgRNA and are consistent after virus passages. For the two novel sgRNAs, each used a variant of the TRS that has one nucleotide mismatch in the conserved hexanucleotide core (ACGAAC) in the TRS. Coexistence of both plus and minus strands of SARS CoV sgRNAs and evidence for derivation of the sgRNA core sequence from the body core sequence favor the model of discontinuous transcription during minus-strand synthesis. Moreover, one rare species of sgRNA has the junction sequence AAA, indicating that its transcription could result from a noncanonical transcription signal. Taken together, these results provide more insight into the molecular mechanisms of genome expression and subgenomic transcription of SARS CoV.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">15827143</PMID><DateCompleted><Year>2005</Year><Month>06</Month><Day>03</Day></DateCompleted><DateRevised><Year>2019</Year><Month>12</Month><Day>10</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Print">0022-538X</ISSN><JournalIssue CitedMedium="Print"><Volume>79</Volume><Issue>9</Issue><PubDate><Year>2005</Year><Month>May</Month></PubDate></JournalIssue><Title>Journal of virology</Title><ISOAbbreviation>J. Virol.</ISOAbbreviation></Journal><ArticleTitle>Identification of novel subgenomic RNAs and noncanonical transcription initiation signals of severe acute respiratory syndrome coronavirus.</ArticleTitle><Pagination><MedlinePgn>5288-95</MedlinePgn></Pagination><Abstract><AbstractText>The expression of the genomic information of severe acute respiratory syndrome coronavirus (SARS CoV) involves synthesis of a nested set of subgenomic RNAs (sgRNAs) by discontinuous transcription. In SARS CoV-infected cells, 10 sgRNAs, including 2 novel ones, were identified, which were predicted to be functional in the expression of 12 open reading frames located in the 3' one-third of the genome. Surprisingly, one new sgRNA could lead to production of a truncated spike protein. Sequence analysis of the leader-body fusion sites of each sgRNA showed that the junction sequences and the corresponding transcription-regulatory sequence (TRS) are unique for each species of sgRNA and are consistent after virus passages. For the two novel sgRNAs, each used a variant of the TRS that has one nucleotide mismatch in the conserved hexanucleotide core (ACGAAC) in the TRS. Coexistence of both plus and minus strands of SARS CoV sgRNAs and evidence for derivation of the sgRNA core sequence from the body core sequence favor the model of discontinuous transcription during minus-strand synthesis. Moreover, one rare species of sgRNA has the junction sequence AAA, indicating that its transcription could result from a noncanonical transcription signal. Taken together, these results provide more insight into the molecular mechanisms of genome expression and subgenomic transcription of SARS CoV.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Hussain</LastName><ForeName>Snawar</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Modern Virology Research Centre, College of Life Sciences, Wuhan University, Wuhan 430072, People's Republic of China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pan</LastName><ForeName>Ji'an</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Yu</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Yang</LastName><ForeName>Yalin</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Jing</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Peng</LastName><ForeName>Yu</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Wu</LastName><ForeName>Ying</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Zhaoyang</ForeName><Initials>Z</Initials></Author><Author ValidYN="Y"><LastName>Zhu</LastName><ForeName>Ying</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Tien</LastName><ForeName>Po</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Guo</LastName><ForeName>Deyin</ForeName><Initials>D</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D003160">Comparative Study</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>J 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