期刊
VIRUS EVOLUTION
卷 8, 期 2, 页码 -出版社
OXFORD UNIV PRESS
DOI: 10.1093/ve/veac052
关键词
SARS-CoV-2; transmission bottleneck; whole-genome sequencing; genomic surveillance
类别
资金
- National Institutes of Health/National Institute of Allergy and Infectious Diseases [HHS75N93021C00015, R01AI141707]
- Fred Hutch Center for AIDS Research (CFAR) New Investigator award [AQ15 NIH AI027757]
Using deep sequencing, researchers investigated the transmission of viral genetic variation among infected crew members during a SARS-CoV-2 outbreak. They found that the within-host viral diversity was low and occasional fixation of low-frequency mutations during transmission dominated viral evolution.
The long-term evolution of viruses is ultimately due to viral mutants that arise within infected individuals and transmit to other individuals. Here, we use deep sequencing to investigate the transmission of viral genetic variation among individuals during a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) outbreak that infected the vast majority of crew members on a fishing boat. We deep-sequenced nasal swabs to characterize the within-host viral population of infected crew members, using experimental duplicates and strict computational filters to ensure accurate variant calling. We find that within-host viral diversity is low in infected crew members. The mutations that did fix in some crew members during the outbreak are not observed at detectable frequencies in any of the sampled crew members in which they are not fixed, suggesting that viral evolution involves occasional fixation of low-frequency mutations during transmission rather than persistent maintenance of within-host viral diversity. Overall, our results show that strong transmission bottlenecks dominate viral evolution even during a superspreading event with a very high attack rate.
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