Epigenetic specifications of host chromosome docking sites for latent Epstein-Barr virus. 2020

Kyoung-Dong Kim, and Hideki Tanizawa, and Alessandra De Leo, and Olga Vladimirova, and Andrew Kossenkov, and Fang Lu, and Louise C Showe, and Ken-Ichi Noma, and Paul M Lieberman
Department of Systems Biotechnology, Chung-Ang University, Anseong, Korea.

Epstein-Barr virus (EBV) genomes persist in latently infected cells as extrachromosomal episomes that attach to host chromosomes through the tethering functions of EBNA1, a viral encoded sequence-specific DNA binding protein. Here we employ circular chromosome conformation capture (4C) analysis to identify genome-wide associations between EBV episomes and host chromosomes. We find that EBV episomes in Burkitt's lymphoma cells preferentially associate with cellular genomic sites containing EBNA1 binding sites enriched with B-cell factors EBF1 and RBP-jK, the repressive histone mark H3K9me3, and AT-rich flanking sequence. These attachment sites correspond to transcriptionally silenced genes with GO enrichment for neuronal function and protein kinase A pathways. Depletion of EBNA1 leads to a transcriptional de-repression of silenced genes and reduction in H3K9me3. EBV attachment sites in lymphoblastoid cells with different latency type show different correlations, suggesting that host chromosome attachment sites are functionally linked to latency type gene expression programs.

UI MeSH Term Description Entries
D008954 Models, Biological Theoretical representations that simulate the behavior or activity of biological processes or diseases. For disease models in living animals, DISEASE MODELS, ANIMAL is available. Biological models include the use of mathematical equations, computers, and other electronic equipment. Biological Model,Biological Models,Model, Biological,Models, Biologic,Biologic Model,Biologic Models,Model, Biologic
D010957 Plasmids Extrachromosomal, usually CIRCULAR DNA molecules that are self-replicating and transferable from one organism to another. They are found in a variety of bacterial, archaeal, fungal, algal, and plant species. They are used in GENETIC ENGINEERING as CLONING VECTORS. Episomes,Episome,Plasmid
D002051 Burkitt Lymphoma A form of undifferentiated malignant LYMPHOMA usually found in central Africa, but also reported in other parts of the world. It is commonly manifested as a large osteolytic lesion in the jaw or as an abdominal mass. B-cell antigens are expressed on the immature cells that make up the tumor in virtually all cases of Burkitt lymphoma. The Epstein-Barr virus (HERPESVIRUS 4, HUMAN) has been isolated from Burkitt lymphoma cases in Africa and it is implicated as the causative agent in these cases; however, most non-African cases are EBV-negative. African Lymphoma,Burkitt Cell Leukemia,Burkitt Tumor,Lymphoma, Burkitt,Burkitt Leukemia,Burkitt's Leukemia,Burkitt's Lymphoma,Burkitt's Tumor,Leukemia, Lymphoblastic, Burkitt-Type,Leukemia, Lymphocytic, L3,Lymphocytic Leukemia, L3,Burkitts Leukemia,Burkitts Lymphoma,Burkitts Tumor,L3 Lymphocytic Leukemia,L3 Lymphocytic Leukemias,Leukemia, Burkitt,Leukemia, Burkitt Cell,Leukemia, Burkitt's,Leukemia, L3 Lymphocytic,Lymphoma, African,Lymphoma, Burkitt's,Tumor, Burkitt,Tumor, Burkitt's
D002877 Chromosomes, Human Very long DNA molecules and associated proteins, HISTONES, and non-histone chromosomal proteins (CHROMOSOMAL PROTEINS, NON-HISTONE). Normally 46 chromosomes, including two sex chromosomes are found in the nucleus of human cells. They carry the hereditary information of the individual. Chromosome, Human,Human Chromosome,Human Chromosomes
D004854 Herpesvirus 4, Human The type species of LYMPHOCRYPTOVIRUS, subfamily GAMMAHERPESVIRINAE, infecting B-cells in humans. It is thought to be the causative agent of INFECTIOUS MONONUCLEOSIS and is strongly associated with oral hairy leukoplakia (LEUKOPLAKIA, HAIRY;), BURKITT LYMPHOMA; and other malignancies. Burkitt Herpesvirus,Burkitt Lymphoma Virus,E-B Virus,EBV,Epstein-Barr Virus,Human Herpesvirus 4,Infectious Mononucleosis Virus,Burkitt's Lymphoma Virus,HHV-4,Herpesvirus 4 (gamma), Human,Burkitts Lymphoma Virus,E B Virus,E-B Viruses,Epstein Barr Virus,Herpesvirus, Burkitt,Infectious Mononucleosis Viruses,Lymphoma Virus, Burkitt,Mononucleosis Virus, Infectious,Mononucleosis Viruses, Infectious
D006801 Humans Members of the species Homo sapiens. Homo sapiens,Man (Taxonomy),Human,Man, Modern,Modern Man
D000076662 Host Microbial Interactions Interactions between a host and microbe or microbiota. Host-Bacteria Interactions,Host-Microbe Interactions,Host-Microbial Interactions,Host-Virus Interactions,Microbe-Host Interactions,Microbial-Host Interactions,Microbiota-Host Interactions,Virus-Host Interactions,Bacteria Host Interactions,Bacterial-Host Interactions,Bacterium-Host Interactions,Host Bacteria Interactions,Host Microbe Interactions,Host Microbiota Interactions,Host Virus Interactions,Host-Fungal Interactions,Host-Microbial Interface,Microbe Host Interactions,Microbial Host Interactions,Microbiota Host Interactions,Viral-Host Interactions,Virus Host Interactions,Bacteria Host Interaction,Bacterial Host Interactions,Bacterial-Host Interaction,Bacterium Host Interactions,Bacterium-Host Interaction,Host Bacteria Interaction,Host Fungal Interactions,Host Microbe Interaction,Host Microbial Interaction,Host Microbial Interface,Host Microbiota Interaction,Host Virus Interaction,Host-Bacteria Interaction,Host-Fungal Interaction,Host-Microbe Interaction,Host-Microbial Interaction,Host-Microbial Interfaces,Host-Virus Interaction,Interaction, Host-Bacteria,Interaction, Host-Microbe,Interaction, Host-Microbial,Interaction, Host-Virus,Interaction, Microbe-Host,Interaction, Microbial-Host,Interaction, Microbiota-Host,Interaction, Virus-Host,Interactions, Host-Bacteria,Interactions, Host-Microbe,Interactions, Host-Microbial,Interactions, Host-Virus,Interactions, Microbe-Host,Interactions, Microbial-Host,Interactions, Microbiota-Host,Interactions, Virus-Host,Microbe Host Interaction,Microbe-Host Interaction,Microbial Host Interaction,Microbial-Host Interaction,Microbiota Host Interaction,Microbiota-Host Interaction,Viral Host Interactions,Viral-Host Interaction,Virus Host Interaction,Virus-Host Interaction
D001287 Attachment Sites, Microbiological Specific loci on both the bacterial DNA (attB) and the phage DNA (attP) which delineate the sites where recombination takes place between them, as the phage DNA becomes integrated (inserted) into the BACTERIAL DNA during LYSOGENY. Attachment Sites (Microbiology),Bacterial Attachment Sites,Phage Attachment Sites,Att Attachment Sites,AttB Attachment Sites,AttP Attachment Sites,Attachment Site (Microbiology),Attachment Site, Bacterial,Attachment Sites, Bacterial,Bacterial Attachment Site,Microbiologic Attachment Site,Microbiologic Attachment Sites,Att Attachment Site,AttB Attachment Site,AttP Attachment Site,Attachment Site, Att,Attachment Site, AttB,Attachment Site, AttP,Attachment Site, Microbiologic,Attachment Site, Microbiological,Attachment Site, Phage,Attachment Sites, Att,Attachment Sites, AttB,Attachment Sites, AttP,Attachment Sites, Microbiologic,Attachment Sites, Phage,Microbiological Attachment Site,Microbiological Attachment Sites,Phage Attachment Site
D017735 Virus Latency The ability of a pathogenic virus to lie dormant within a cell (LATENT INFECTION). In eukaryotes, subsequent activation and viral replication is thought to be caused by extracellular stimulation of cellular transcription factors. Latency in bacteriophage is maintained by the expression of virally encoded repressors. Viral Latency,Latencies, Viral,Latencies, Virus,Latency, Viral,Latency, Virus,Viral Latencies,Virus Latencies
D044127 Epigenesis, Genetic A genetic process by which the adult organism is realized via mechanisms that lead to the restriction in the possible fates of cells, eventually leading to their differentiated state. Mechanisms involved cause heritable changes to cells without changes to DNA sequence such as DNA METHYLATION; HISTONE modification; DNA REPLICATION TIMING; NUCLEOSOME positioning; and heterochromatization which result in selective gene expression or repression. Epigenetic Processes,Epigenetic Process,Epigenetics Processes,Genetic Epigenesis,Process, Epigenetic,Processes, Epigenetic,Processes, Epigenetics

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