About: A palindromic RNA sequence as a common breakpoint contributor to copy-choice recombination in SARS-COV-2

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About: A palindromic RNA sequence as a common breakpoint contributor to copy-choice recombination in SARS-COV-2 Goto Sponge NotDistinct Permalink

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	A palindromic RNA sequence as a common breakpoint contributor to copy-choice recombination in SARS-COV-2
Creator	Gallaher, William
Source	Medline; PMC
abstract	Much remains unknown concerning the origin of the novel pandemic coronavirus that has raged across the globe since emerging in Wuhan of Hubei province, near the center of the People’s Republic of China, in December of 2019. All current members of the family Coronaviridae have arisen by a combination of incremental adaptive mutations, against the backdrop of many recombinational events throughout the past, rendering each a unique mosaic of RNA sequences from diverse sources. The consensus among virologists is that the base sequence of the novel coronavirus, designated SARS-CoV-2, was derived from a common ancestor of a bat coronavirus, represented by the strain RaTG13, isolated in Yunnan province in 2013. Into that ancestral genetic background, several recombination events have since occurred from other divergent bat-derived coronaviruses, resulting in localized discordance between the two. One such event left SARS-CoV-2 with a receptor binding domain (RBD) capable of binding the human ACE-2 receptor lacking in RaTG13, and a second event uniquely added to SARS-CoV-2 a site specific for furin, capable of efficient endoproteolytic cleavage and activation of the spike glycoprotein responsible for virus entry and cell fusion. This paper demonstrates by bioinformatic analysis that such recombinational events are facilitated by short oligonucleotide “breakpoint sequences”, similar to CAGAC, that direct recombination naturally to certain positions in the genome at the boundaries between blocks of RNA code and potentially RNA structure. This “breakpoint sequence hypothesis” provides a natural explanation for the biogenesis of SARS-CoV-2 over time and in the wild. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1007/s00705-020-04750-z) contains supplementary material, which is available to authorized users.
has issue date	2020-07-31(xsd:dateTime)
bibo:doi	10.1007/s00705-020-04750-z
bibo:pmid	32737584
has license	no-cc
sha1sum (hex)	ba01215a40fa9c1b4f6d9473b6db1531531cc41b
schema:url	https://doi.org/10.1007/s00705-020-04750-z
resource representing a document's title	A palindromic RNA sequence as a common breakpoint contributor to copy-choice recombination in SARS-COV-2
has PubMed Central identifier	PMC7394270
has PubMed identifier	32737584
schema:publication	Arch Virol
resource representing a document's body	covid:ba01215a40fa9c1b4f6d9473b6db1531531cc41b#body_text
is schema:about of	named entity 'wild' named entity 'event' named entity 'RBD' named entity 'Much' named entity 'RNA' named entity 'unique' named entity 'genetic' named entity 'palindromic' named entity 'events' named entity 'oligonucleotide' named entity 'sequences' named entity 'naturally' named entity 'event' named entity 'paper' named entity 'events' named entity 'uniquely' named entity 'site specific' named entity 'positions' named entity 'globe' named entity 'bat' named entity 'Coronaviridae' named entity 'ACE-2' named entity 'SARS-CoV-2' named entity 'virus entry' named entity 'People's Republic of China' named entity 'genetic background' named entity 'coronavirus' named entity 'cell fusion' named entity 'coronavirus' named entity 'coronavirus' named entity 'bat' named entity 'RNA sequence' named entity 'SARS-COV-2' named entity 'recombination' named entity 'bat' named entity 'helicase' named entity 'RNA genome' named entity 'SARS-CoV-2' named entity 'single-stranded RNA' named entity 'SARS-CoV-2' named entity 'recombination' named entity 'nucleotides' named entity 'sequence polymorphism' named entity 'glycoprotein' named entity 'virus' named entity 'glycoprotein' named entity 'coronavirus' named entity 'RNA' named entity 'protein' named entity '5' end' named entity 'recombinant' named entity 'bat' named entity 'nsp3' named entity 'microbats' named entity 'ncbi.nlm.nih.gov' named entity 'genome' named entity 'mRNAs' named entity 'virus' named entity 'recombination' named entity 'pangolin' named entity 'coronaviruses' named entity 'red arrows' named entity 'protein' named entity 'base-pairing' named entity 'stem-loop structures' named entity 'virologists' named entity 'nucleotides' named entity 'mRNA' named entity 'SARS-CoV-2' named entity 'bat species' named entity 'tandem duplication' named entity 'RNA sequence' named entity 'limestone' named entity 'Virus' named entity 'nsp3' named entity 'recombination' named entity 'SARS-CoV-2' named entity 'TMRCA' named entity 'template strand' named entity 'RNA polymerase' named entity 'single-stranded RNA'

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