Group-specific structural features of the 5′-proximal sequences of coronavirus genomic RNAs
Identifieur interne : 000A74 ( 2020/Analysis ); précédent : 000A73; suivant : 000A75Group-specific structural features of the 5′-proximal sequences of coronavirus genomic RNAs
Auteurs : Shih-Cheng Chen ; René C. L. OlsthoornSource :
- Virology [ 0042-6822 ] ; 2010.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : 5' Untranslated Regions, RNA, Viral.
- classification : SARS Virus.
- genetics : Genome, Viral, SARS Virus.
- Base Sequence, Humans, Molecular Sequence Data, Nucleic Acid Conformation, Phylogeny.
Abstract
Global predictions of the secondary structure of coronavirus (CoV) 5′ untranslated regions and adjacent coding sequences revealed the presence of conserved structural elements. Stem loops (SL) 1, 2, 4, and 5 were predicted in all CoVs, while the core leader transcription-regulating sequence (L-TRS) forms SL3 in only some CoVs. SL5 in group I and II CoVs, with the exception of group IIa CoVs, is characterized by the presence of a large sequence insertion capable of forming hairpins with the conserved 5′-UUYCGU-3′ loop sequence. Structure probing confirmed the existence of these hairpins in the group I
Url:
DOI: 10.1016/j.virol.2010.02.007
PubMed: 20202661
PubMed Central: 7111916
Affiliations:
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PMC:7111916Le document en format XML
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L." last="Olsthoorn">René C. L. Olsthoorn</name></author></analytic><series><title level="j">Virology</title><idno type="ISSN">0042-6822</idno><idno type="eISSN">1096-0341</idno><imprint><date when="2010">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>5' Untranslated Regions (genetics)</term><term>Base Sequence</term><term>Genome, Viral (genetics)</term><term>Humans</term><term>Molecular Sequence Data</term><term>Nucleic Acid Conformation</term><term>Phylogeny</term><term>RNA, Viral (genetics)</term><term>SARS Virus (classification)</term><term>SARS Virus (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN viral (génétique)</term><term>Conformation d'acide nucléique</term><term>Données de séquences moléculaires</term><term>Génome viral (génétique)</term><term>Humains</term><term>Phylogénie</term><term>Régions 5' non traduites (génétique)</term><term>Séquence nucléotidique</term><term>Virus du SRAS ()</term><term>Virus du SRAS (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>5' Untranslated Regions</term><term>RNA, Viral</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Genome, Viral</term><term>SARS Virus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN viral</term><term>Génome viral</term><term>Régions 5' non traduites</term><term>Virus du SRAS</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Sequence</term><term>Humans</term><term>Molecular Sequence Data</term><term>Nucleic Acid Conformation</term><term>Phylogeny</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Conformation d'acide nucléique</term><term>Données de séquences moléculaires</term><term>Humains</term><term>Phylogénie</term><term>Séquence nucléotidique</term><term>Virus du SRAS</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Global predictions of the secondary structure of coronavirus (CoV) 5′ untranslated regions and adjacent coding sequences revealed the presence of conserved structural elements. Stem loops (SL) 1, 2, 4, and 5 were predicted in all CoVs, while the core leader transcription-regulating sequence (L-TRS) forms SL3 in only some CoVs. SL5 in group I and II CoVs, with the exception of group IIa CoVs, is characterized by the presence of a large sequence insertion capable of forming hairpins with the conserved 5′-UUYCGU-3′ loop sequence. Structure probing confirmed the existence of these hairpins in the group I <italic>Human coronavirus-229E</italic> and the group II <italic>Severe acute respiratory syndrome coronavirus</italic> (SARS-CoV). In general, the pattern of the 5′ <italic>cis</italic>-acting elements is highly related to the lineage of CoVs, including features of the conserved hairpins in SL5. The function of these conserved hairpins as a putative packaging signal is discussed.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Brian, D A" uniqKey="Brian D">D.A. 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