Systematic survey of non-retroviral virus-like elements in eukaryotic genomes.
Comparative genomics
Database
Endogenous viral elements
Evolution
Journal
Virus research
ISSN: 1872-7492
Titre abrégé: Virus Res
Pays: Netherlands
ID NLM: 8410979
Informations de publication
Date de publication:
03 2019
03 2019
Historique:
received:
30
09
2017
revised:
30
12
2017
accepted:
05
02
2018
pubmed:
10
2
2018
medline:
2
4
2019
entrez:
10
2
2018
Statut:
ppublish
Résumé
Endogenous viral elements (EVEs) are viral sequences that are endogenized in the host cell. Recently, several eukaryotic genomes have been shown to contain EVEs. To improve the understanding of EVEs in eukaryotes, we have developed a system for detecting EVE-like sequences in eukaryotes and conducted a large-scale nucleotide sequence similarity search using all available eukaryotic and viral genome assembly sequences (excluding those from retroviruses) stored in the National Center for Biotechnology Information genome database (as of August 14, 2017). We found that 3856 of 7007 viral genomes were similar to 4098 of 4102 eukaryotic genomes. For those EVE-like sequences, we constructed a database, Predicted Endogenous Viral Elements (pEVE, http://peve.med.u-tokai.ac.jp) which provides comprehensive search results summarized from an evolutionary viewpoint. A comparison of EVE-like sequences among closely related species may be useful to avoid false-positive hits. We believe that our search system and database will facilitate studies on EVEs.
Identifiants
pubmed: 29425804
pii: S0168-1702(17)30761-X
doi: 10.1016/j.virusres.2018.02.002
pii:
doi:
Substances chimiques
DNA, Viral
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
30-36Informations de copyright
Copyright © 2018 Elsevier B.V. All rights reserved.