Imprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.

Recombination is a common feature of many positive-strand RNA viruses, playing an important role in virus evolution. However, to date, there is limited understanding of the mechanisms behind the process. Utilising in vitro assays, we have previously shown that the template-switching event of recombi...

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Autores principales:	Kirsten Bentley, Fadi Ghassan Alnaji, Luke Woodford, Siân Jones, Andrew Woodman, David J Evans
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Immunologic diseases. Allergy RC581-607 Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/b2cf75e624394ea380758e217ab66a85
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spelling	oai:doaj.org-article:b2cf75e624394ea380758e217ab66a852021-12-02T20:00:22ZImprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.1553-73661553-737410.1371/journal.ppat.1009676https://doaj.org/article/b2cf75e624394ea380758e217ab66a852021-08-01T00:00:00Zhttps://doi.org/10.1371/journal.ppat.1009676https://doaj.org/toc/1553-7366https://doaj.org/toc/1553-7374Recombination is a common feature of many positive-strand RNA viruses, playing an important role in virus evolution. However, to date, there is limited understanding of the mechanisms behind the process. Utilising in vitro assays, we have previously shown that the template-switching event of recombination is a random and ubiquitous process that often leads to recombinant viruses with imprecise genomes containing sequence duplications. Subsequently, a process termed resolution, that has yet to be mechanistically studied, removes these duplicated sequences resulting in a virus population of wild type length genomes. Using defined imprecise recombinant viruses together with Oxford Nanopore and Illumina high throughput next generation sequencing technologies we have investigated the process of resolution. We show that genome resolution involves subsequent rounds of template-switching recombination with viral fitness resulting in the survival of a small subset of recombinant genomes. This alters our previously held understanding that recombination and resolution are independent steps of the process, and instead demonstrates that viruses undergo frequent and continuous recombination events over a prolonged period until the fittest viruses, predominantly those with wild type length genomes, dominate the population.Kirsten BentleyFadi Ghassan AlnajiLuke WoodfordSiân JonesAndrew WoodmanDavid J EvansPublic Library of Science (PLoS)articleImmunologic diseases. AllergyRC581-607Biology (General)QH301-705.5ENPLoS Pathogens, Vol 17, Iss 8, p e1009676 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Immunologic diseases. Allergy RC581-607 Biology (General) QH301-705.5
spellingShingle	Immunologic diseases. Allergy RC581-607 Biology (General) QH301-705.5 Kirsten Bentley Fadi Ghassan Alnaji Luke Woodford Siân Jones Andrew Woodman David J Evans Imprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.
description	Recombination is a common feature of many positive-strand RNA viruses, playing an important role in virus evolution. However, to date, there is limited understanding of the mechanisms behind the process. Utilising in vitro assays, we have previously shown that the template-switching event of recombination is a random and ubiquitous process that often leads to recombinant viruses with imprecise genomes containing sequence duplications. Subsequently, a process termed resolution, that has yet to be mechanistically studied, removes these duplicated sequences resulting in a virus population of wild type length genomes. Using defined imprecise recombinant viruses together with Oxford Nanopore and Illumina high throughput next generation sequencing technologies we have investigated the process of resolution. We show that genome resolution involves subsequent rounds of template-switching recombination with viral fitness resulting in the survival of a small subset of recombinant genomes. This alters our previously held understanding that recombination and resolution are independent steps of the process, and instead demonstrates that viruses undergo frequent and continuous recombination events over a prolonged period until the fittest viruses, predominantly those with wild type length genomes, dominate the population.
format	article
author	Kirsten Bentley Fadi Ghassan Alnaji Luke Woodford Siân Jones Andrew Woodman David J Evans
author_facet	Kirsten Bentley Fadi Ghassan Alnaji Luke Woodford Siân Jones Andrew Woodman David J Evans
author_sort	Kirsten Bentley
title	Imprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.
title_short	Imprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.
title_full	Imprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.
title_fullStr	Imprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.
title_full_unstemmed	Imprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.
title_sort	imprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/b2cf75e624394ea380758e217ab66a85
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Imprecise recombinant viruses evolve via a fitness-driven, iterative process of polymerase template-switching events.

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