Epstein-Barr Virus Episome Physically Interacts with Active Regions of the Host Genome in Lymphoblastoid Cells.
B-Lymphocytes
/ virology
Cell Line
Chromatin
Core Binding Factor Alpha 3 Subunit
/ metabolism
Epstein-Barr Virus Infections
Gene Expression Regulation, Viral
Genome
Herpesvirus 4, Human
/ genetics
Histones
/ metabolism
Host-Pathogen Interactions
/ genetics
Humans
Ikaros Transcription Factor
/ metabolism
Plasmids
/ metabolism
Transcription Factors
/ metabolism
Viral Proteins
/ metabolism
Virus Replication
4C-seq
Epstein-Barr Virus
Hi-C
lymphoblastoid
physical interaction
Journal
Journal of virology
ISSN: 1098-5514
Titre abrégé: J Virol
Pays: United States
ID NLM: 0113724
Informations de publication
Date de publication:
23 11 2020
23 11 2020
Historique:
received:
08
07
2020
accepted:
22
09
2020
pubmed:
2
10
2020
medline:
26
1
2021
entrez:
1
10
2020
Statut:
epublish
Résumé
The Epstein-Barr virus (EBV) episome is known to interact with the three-dimensional structure of the human genome in infected cells. However, the exact locations of these interactions and their potential functional consequences remain unclear. Recently, high-resolution chromatin conformation capture (Hi-C) assays in lymphoblastoid cells have become available, enabling us to precisely map the contacts between the EBV episome(s) and the human host genome. Using available Hi-C data at a 10-kb resolution, we have identified 15,000 reproducible contacts between EBV episome(s) and the human genome. These contacts are highly enriched in chromatin regions denoted by typical or super enhancers and active markers, including histone H3K27ac and H3K4me1. Additionally, these contacts are highly enriched at loci bound by host transcription factors that regulate B cell growth (e.g., IKZF1 and RUNX3), factors that enhance cell proliferation (e.g., HDGF), or factors that promote viral replication (e.g., NBS1 and NFIC). EBV contacts show nearly 2-fold enrichment in host regions bound by EBV nuclear antigen 2 (EBNA2) and EBNA3 transcription factors. Circular chromosome conformation capture followed by sequencing (4C-seq) using the EBV origin of plasmid replication (oriP) as a "bait" in lymphoblastoid cells further confirmed contacts with active chromatin regions. Collectively, our analysis supports interactions between EBV episome(s) and active regions of the human genome in lymphoblastoid cells.
Identifiants
pubmed: 32999023
pii: JVI.01390-20
doi: 10.1128/JVI.01390-20
pmc: PMC7925191
pii:
doi:
Substances chimiques
Chromatin
0
Core Binding Factor Alpha 3 Subunit
0
Histones
0
IKZF1 protein, human
0
Runx3 protein, human
0
Transcription Factors
0
Viral Proteins
0
Ikaros Transcription Factor
148971-36-2
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, N.I.H., Intramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : NIAID NIH HHS
ID : R01 AI123420
Pays : United States
Organisme : NCI NIH HHS
ID : R01 CA047006
Pays : United States
Organisme : NCI NIH HHS
ID : R35 CA047006
Pays : United States
Organisme : Intramural NIH HHS
ID : ZIA DK075149
Pays : United States
Organisme : NIGMS NIH HHS
ID : R35 GM138283
Pays : United States
Informations de copyright
Copyright © 2020 American Society for Microbiology.
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