About: The global and local distribution of RNA structure throughout the SARS-CoV-2 genome

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An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	The global and local distribution of RNA structure throughout the SARS-CoV-2 genome
Creator	Pyle, Anna De Cesaris, Rafael Mahadeshwar, Gandhar Tavares, Araujo
source	BioRxiv
abstract	SARS-CoV-2 is the causative viral agent of COVID-19, the disease at the center of the current global pandemic. While knowledge of highly structured regions is integral for mechanistic insights into the viral infection cycle, very little is known about the location and folding stability of functional elements within the massive, ~30kb SARS-CoV-2 RNA genome. In this study, we analyze the folding stability of this RNA genome relative to the structural landscape of other well-known viral RNAs. We present an in-silico pipeline to locate regions of high base pair content across this long genome and also identify well-defined RNA structures, a method that allows for direct comparisons of RNA structural complexity within the several domains in SARS-CoV-2 genome. We report that the SARS-CoV-2 genomic propensity to stable RNA folding is exceptional among RNA viruses, superseding even that of HCV, one of the most highly structured viral RNAs in nature. Furthermore, our analysis reveals varying levels of RNA structure across genomic functional regions, with accessory and structural ORFs containing the highest structural density in the viral genome. Finally, we take a step further to examine how individual RNA structures formed by these ORFs are affected by the differences in genomic and subgenomic contexts. The conclusions reported in this study provide a foundation for structure-function hypotheses in SARS-CoV-2 biology, and in turn, may guide the 3D structural characterization of potential RNA drug targets for COVID-19 therapeutics.
has issue date	2020-07-07(xsd:dateTime)
bibo:doi	10.1101/2020.07.06.190660
has license	biorxiv
sha1sum (hex)	16281e5b80c2ff9b8d6086509ccd4bb8dfb20546
schema:url	https://doi.org/10.1101/2020.07.06.190660
resource representing a document's title	The global and local distribution of RNA structure throughout the SARS-CoV-2 genome
schema:publication	bioRxiv
resource representing a document's body	covid:16281e5b80c2ff9b8d6086509ccd4bb8dfb20546#body_text
is schema:about of	named entity 'RNA' named entity 'structure' named entity 'global' named entity 'viral infection' named entity 'mechanistic' »more»

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