A selective sweep in the Spike gene has driven SARS-CoV-2 human adaptation

dc.contributor.authorKang, Linen
dc.contributor.authorHe, Guijuanen
dc.contributor.authorSharp, Amanda K.en
dc.contributor.authorWang, Xiaofengen
dc.contributor.authorBrown, Anne M.en
dc.contributor.authorMichalak, Pawelen
dc.contributor.authorWeger-Lucarelli, Jamesen
dc.date.accessioned2021-07-15T15:19:38Zen
dc.date.available2021-07-15T15:19:38Zen
dc.date.issued2021-03-05en
dc.description.abstractWhile SARS-CoV-2 likely has animal origins, the viral genetic changes necessary to adapt this animal-derived ancestral virus to humans are largely unknown, mostly due to low levels of sequence polymorphism and the notorious difficulties in experimental manipulations of coronavirus genomes. We scanned more than 182,000 SARS-CoV-2 genomes for selective sweep signatures and found that a distinct footprint of positive selection is located around a non-synonymous change (A1114G; T372A) within the Receptor-Binding Domain of the Spike protein, which likely played a critical role in overcoming species barriers and accomplishing interspecies transmission from animals to humans. Structural analysis indicated that the substitution of threonine with an alanine in SARS-CoV-2 concomitantly removes a predicted glycosylation site at N370, resulting in more favorable binding predictions to human ACE2, the cellular receptor. Using a novel bacteria-free cloning system for manipulating RNA virus genomes, we experimentally validated that this SARS-CoV-2-unique substitution significantly increases replication in human cells relative to its putative ancestral variant. Notably, this mutation’s impact on virus replication in human cells was much greater than that of the Spike D614G mutant, which has been widely reported to have been selected for during human-to-human transmission.en
dc.description.notesbioRxiv preprint.en
dc.description.sponsorshipThis work was supported by a Center for One Health Research Seed Program grant awarded to P.M. and J.W-L. and an Institute for Critical Technology and Applied Science Junior Faculty Award to J.W-L.en
dc.description.versionSubmitted versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.doihttps://doi.org/10.1101/2021.02.13.431090en
dc.identifier.urihttp://hdl.handle.net/10919/104178en
dc.language.isoenen
dc.publisherVirginia Techen
dc.rightsAttribution-NonCommercial-NoDerivatives 4.0 Internationalen
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/en
dc.titleA selective sweep in the Spike gene has driven SARS-CoV-2 human adaptationen
dc.typeArticleen
dc.type.dcmitypeTexten
Files
Original bundle
Now showing 1 - 1 of 1
Loading...
Thumbnail Image
Name:
2021.02.13.431090v2.full.pdf
Size:
915.21 KB
Format:
Adobe Portable Document Format
Description:
Submitted version
License bundle
Now showing 1 - 1 of 1
Name:
license.txt
Size:
1.5 KB
Format:
Item-specific license agreed upon to submission
Description: