In:
PLOS Pathogens, Public Library of Science (PLoS), Vol. 17, No. 8 ( 2021-8-23), p. e1009849-
Abstract:
The emergence of divergent SARS-CoV-2 lineages has raised concern that novel variants eliciting immune escape or the ability to displace circulating lineages could emerge within individual hosts. Though growing evidence suggests that novel variants arise during prolonged infections, most infections are acute. Understanding how efficiently variants emerge and transmit among acutely-infected hosts is therefore critical for predicting the pace of long-term SARS-CoV-2 evolution. To characterize how within-host diversity is generated and propagated, we combine extensive laboratory and bioinformatic controls with metrics of within- and between-host diversity to 133 SARS-CoV-2 genomes from acutely-infected individuals. We find that within-host diversity is low and transmission bottlenecks are narrow, with very few viruses founding most infections. Within-host variants are rarely transmitted, even among individuals within the same household, and are rarely detected along phylogenetically linked infections in the broader community. These findings suggest that most variation generated within-host is lost during transmission.
Type of Medium:
Online Resource
ISSN:
1553-7374
DOI:
10.1371/journal.ppat.1009849
DOI:
10.1371/journal.ppat.1009849.g001
DOI:
10.1371/journal.ppat.1009849.g002
DOI:
10.1371/journal.ppat.1009849.g003
DOI:
10.1371/journal.ppat.1009849.g004
DOI:
10.1371/journal.ppat.1009849.g005
DOI:
10.1371/journal.ppat.1009849.s001
DOI:
10.1371/journal.ppat.1009849.s002
DOI:
10.1371/journal.ppat.1009849.s003
DOI:
10.1371/journal.ppat.1009849.s004
DOI:
10.1371/journal.ppat.1009849.s005
DOI:
10.1371/journal.ppat.1009849.s006
DOI:
10.1371/journal.ppat.1009849.s007
DOI:
10.1371/journal.ppat.1009849.s008
DOI:
10.1371/journal.ppat.1009849.s009
DOI:
10.1371/journal.ppat.1009849.s010
DOI:
10.1371/journal.ppat.1009849.s011
DOI:
10.1371/journal.ppat.1009849.s012
DOI:
10.1371/journal.ppat.1009849.s013
DOI:
10.1371/journal.ppat.1009849.s014
DOI:
10.1371/journal.ppat.1009849.s015
DOI:
10.1371/journal.ppat.1009849.s016
DOI:
10.1371/journal.ppat.1009849.s017
DOI:
10.1371/journal.ppat.1009849.s018
DOI:
10.1371/journal.ppat.1009849.r001
DOI:
10.1371/journal.ppat.1009849.r002
DOI:
10.1371/journal.ppat.1009849.r003
DOI:
10.1371/journal.ppat.1009849.r004
Language:
English
Publisher:
Public Library of Science (PLoS)
Publication Date:
2021
detail.hit.zdb_id:
2205412-1
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