Notes on recombination and reassortment in multipartite/segmented viruses

Arvind Varsani, Pierre Lefeuvre, Philippe Roumagnac, Darren Martin

Research output: Contribution to journalReview article

1 Citation (Scopus)

Abstract

Besides evolving through nucleotide substitution, viruses frequently also evolve by genetic recombination which can occur when related viral variants co-infect the same cells. Viruses with segmented or multipartite genomes can additionally evolve via the reassortment of genomic components. Various computational techniques are now available for identifying and characterizing recombination and reassortment. While these techniques have revealed both that all well studied segmented and multipartite virus species show some capacity for reassortment, and that recombination is common in many multipartite species, they have indicated that recombination is either rare or does not occur in species with segmented genomes. Reassortment and recombination can make it very difficult to study segmented/multipartite viruses using metagenomics-based approaches. Notable challenges include, both the accurate identification and assignment of genomic components to individual genomes, and the differentiation between natural ‘real’ recombination events and artifactual ‘fake’ recombination events arising from the inaccurate de novo assembly of genome component sequences determined using short read sequencing.

Original languageEnglish (US)
Pages (from-to)156-166
Number of pages11
JournalCurrent Opinion in Virology
Volume33
DOIs
StatePublished - Dec 1 2018
Externally publishedYes

Fingerprint

Genetic Recombination
Viruses
Genome
Genome Components
Metagenomics
Nucleotides

ASJC Scopus subject areas

  • Virology

Cite this

Notes on recombination and reassortment in multipartite/segmented viruses. / Varsani, Arvind; Lefeuvre, Pierre; Roumagnac, Philippe; Martin, Darren.

In: Current Opinion in Virology, Vol. 33, 01.12.2018, p. 156-166.

Research output: Contribution to journalReview article

Varsani, Arvind ; Lefeuvre, Pierre ; Roumagnac, Philippe ; Martin, Darren. / Notes on recombination and reassortment in multipartite/segmented viruses. In: Current Opinion in Virology. 2018 ; Vol. 33. pp. 156-166.
@article{f5bfbfd256fe4b70854eda72346b6ade,
title = "Notes on recombination and reassortment in multipartite/segmented viruses",
abstract = "Besides evolving through nucleotide substitution, viruses frequently also evolve by genetic recombination which can occur when related viral variants co-infect the same cells. Viruses with segmented or multipartite genomes can additionally evolve via the reassortment of genomic components. Various computational techniques are now available for identifying and characterizing recombination and reassortment. While these techniques have revealed both that all well studied segmented and multipartite virus species show some capacity for reassortment, and that recombination is common in many multipartite species, they have indicated that recombination is either rare or does not occur in species with segmented genomes. Reassortment and recombination can make it very difficult to study segmented/multipartite viruses using metagenomics-based approaches. Notable challenges include, both the accurate identification and assignment of genomic components to individual genomes, and the differentiation between natural ‘real’ recombination events and artifactual ‘fake’ recombination events arising from the inaccurate de novo assembly of genome component sequences determined using short read sequencing.",
author = "Arvind Varsani and Pierre Lefeuvre and Philippe Roumagnac and Darren Martin",
year = "2018",
month = "12",
day = "1",
doi = "10.1016/j.coviro.2018.08.013",
language = "English (US)",
volume = "33",
pages = "156--166",
journal = "Current Opinion in Virology",
issn = "1879-6257",
publisher = "Elsevier BV",

}

TY - JOUR

T1 - Notes on recombination and reassortment in multipartite/segmented viruses

AU - Varsani, Arvind

AU - Lefeuvre, Pierre

AU - Roumagnac, Philippe

AU - Martin, Darren

PY - 2018/12/1

Y1 - 2018/12/1

N2 - Besides evolving through nucleotide substitution, viruses frequently also evolve by genetic recombination which can occur when related viral variants co-infect the same cells. Viruses with segmented or multipartite genomes can additionally evolve via the reassortment of genomic components. Various computational techniques are now available for identifying and characterizing recombination and reassortment. While these techniques have revealed both that all well studied segmented and multipartite virus species show some capacity for reassortment, and that recombination is common in many multipartite species, they have indicated that recombination is either rare or does not occur in species with segmented genomes. Reassortment and recombination can make it very difficult to study segmented/multipartite viruses using metagenomics-based approaches. Notable challenges include, both the accurate identification and assignment of genomic components to individual genomes, and the differentiation between natural ‘real’ recombination events and artifactual ‘fake’ recombination events arising from the inaccurate de novo assembly of genome component sequences determined using short read sequencing.

AB - Besides evolving through nucleotide substitution, viruses frequently also evolve by genetic recombination which can occur when related viral variants co-infect the same cells. Viruses with segmented or multipartite genomes can additionally evolve via the reassortment of genomic components. Various computational techniques are now available for identifying and characterizing recombination and reassortment. While these techniques have revealed both that all well studied segmented and multipartite virus species show some capacity for reassortment, and that recombination is common in many multipartite species, they have indicated that recombination is either rare or does not occur in species with segmented genomes. Reassortment and recombination can make it very difficult to study segmented/multipartite viruses using metagenomics-based approaches. Notable challenges include, both the accurate identification and assignment of genomic components to individual genomes, and the differentiation between natural ‘real’ recombination events and artifactual ‘fake’ recombination events arising from the inaccurate de novo assembly of genome component sequences determined using short read sequencing.

UR - http://www.scopus.com/inward/record.url?scp=85053343103&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85053343103&partnerID=8YFLogxK

U2 - 10.1016/j.coviro.2018.08.013

DO - 10.1016/j.coviro.2018.08.013

M3 - Review article

VL - 33

SP - 156

EP - 166

JO - Current Opinion in Virology

JF - Current Opinion in Virology

SN - 1879-6257

ER -