Single nucleotide polymorphism (SNP) frequencies and distribution reveal complex genetic composition of seven novel natural isolates of Cydia pomonella granulovirus.
Baculoviridae
Betabaculovirus
Evolution
Genome sequencing
Natural isolates
Phylogeny
SNP distribution
Journal
Virology
ISSN: 1096-0341
Titre abrégé: Virology
Pays: United States
ID NLM: 0110674
Informations de publication
Date de publication:
02 2020
02 2020
Historique:
received:
13
09
2019
revised:
27
11
2019
accepted:
28
11
2019
pubmed:
13
12
2019
medline:
1
9
2020
entrez:
13
12
2019
Statut:
ppublish
Résumé
The co-evolution between baculoviruses and their insect hosts results in selection of virus populations. To explore this phenomenon at the molecular level, seven natural isolates of Cydia pomonella granulovirus (CpGV) collected from orchards in northwest China were studied using Illumina next generation sequencing (NGS). A total of 540 genome positions with single nucleotide polymorphisms (SNPs) were detected in comparison with known CpGV isolates. New members of previously defined phylogenetic genome groups A, D and E of CpGV, as well as two novel phylogenetic lines, termed genome group F and G, were identified. Combining SNP frequency distribution with the prevalence of genome group-specific SNPs, revealed that six isolates of CpGV were mixtures of different ratios of at least two genotypes, whereas only one isolate, CpGV-WW, was genetically highly homogeneous. This study significantly extends our current understanding of the genetic diversity of CpGV and opens new lines of application of this virus.
Identifiants
pubmed: 31826844
pii: S0042-6822(19)30335-6
doi: 10.1016/j.virol.2019.11.016
pii:
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
32-40Informations de copyright
Copyright © 2019 Elsevier Inc. All rights reserved.