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dc.contributor.authorZhao, Junxing
dc.contributor.authorQiu, Jianming
dc.contributor.authorAryal, Sadikshya
dc.contributor.authorHackett, Jennifer L.
dc.contributor.authorWang, Jingxin
dc.date.accessioned2022-01-14T21:53:26Z
dc.date.available2022-01-14T21:53:26Z
dc.date.issued2020-12-21
dc.identifier.citationZhao, J.; Qiu, J.; Aryal, S.; Hackett, J.L.; Wang, J. The RNA Architecture of the SARS-CoV-2 3′-Untranslated Region. Viruses 2020, 12, 1473. https://doi.org/10.3390/v12121473en_US
dc.identifier.urihttp://hdl.handle.net/1808/32403
dc.description.abstractSevere acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is responsible for the current COVID-19 pandemic. The 3′ untranslated region (UTR) of this β-CoV contains essential cis-acting RNA elements for the viral genome transcription and replication. These elements include an equilibrium between an extended bulged stem-loop (BSL) and a pseudoknot. The existence of such an equilibrium is supported by reverse genetic studies and phylogenetic covariation analysis and is further proposed as a molecular switch essential for the control of the viral RNA polymerase binding. Here, we report the SARS-CoV-2 3′ UTR structures in cells that transcribe the viral UTRs harbored in a minigene plasmid and isolated infectious virions using a chemical probing technique, namely dimethyl sulfate (DMS)-mutational profiling with sequencing (MaPseq). Interestingly, the putative pseudoknotted conformation was not observed, indicating that its abundance in our systems is low in the absence of the viral nonstructural proteins (nsps). Similarly, our results also suggest that another functional cis-acting element, the three-helix junction, cannot stably form. The overall architectures of the viral 3′ UTRs in the infectious virions and the minigene-transfected cells are almost identical.en_US
dc.publisherMDPIen_US
dc.rights© 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license.en_US
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en_US
dc.subjectSARS-CoV-2en_US
dc.subjectCOVID-19en_US
dc.subjectDMSen_US
dc.subjectDMS-MaPseqen_US
dc.subjectShapeKnotsen_US
dc.subjectDREEMen_US
dc.subjectPseudoknoten_US
dc.subjectThree-helix junctionen_US
dc.subject3′ UTRen_US
dc.subjectMinigeneen_US
dc.titleThe RNA Architecture of the SARS-CoV-2 3′-Untranslated Regionen_US
dc.typeArticleen_US
kusw.kuauthorZhao, Junxing
kusw.kuauthorAryal, Sadikshya
kusw.kuauthorHackett, Jennifer L.
kusw.kuauthorWang, Jingxin
kusw.kudepartmentMedicinal Chemistryen_US
kusw.kudepartmentGenome Sequencing Coreen_US
dc.identifier.doi10.3390/v12121473en_US
dc.identifier.orcidhttps://orcid.org/ 0000-0002-6305-6218en_US
dc.identifier.orcidhttps://orcid.org/ 0000-0001-9850-1695en_US
dc.identifier.orcidhttps://orcid.org/ 0000-0002-9414-4093en_US
kusw.oaversionScholarly/refereed, publisher versionen_US
kusw.oapolicyThis item meets KU Open Access policy criteria.en_US
dc.identifier.pmidPMC7766253en_US
dc.rights.accessrightsopenAccessen_US


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© 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license.
Except where otherwise noted, this item's license is described as: © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license.