» Articles » PMID: 24682154

Genome-wide Analysis of Wild-type Epstein-Barr Virus Genomes Derived from Healthy Individuals of the 1,000 Genomes Project

Overview
Date 2014 Apr 1
PMID 24682154
Citations 52
Authors
Affiliations
Soon will be listed here.
Abstract

Most people in the world (∼90%) are infected by the Epstein-Barr virus (EBV), which establishes itself permanently in B cells. Infection by EBV is related to a number of diseases including infectious mononucleosis, multiple sclerosis, and different types of cancer. So far, only seven complete EBV strains have been described, all of them coming from donors presenting EBV-related diseases. To perform a detailed comparative genomic analysis of EBV including, for the first time, EBV strains derived from healthy individuals, we reconstructed EBV sequences infecting lymphoblastoid cell lines (LCLs) from the 1000 Genomes Project. As strain B95-8 was used to transform B cells to obtain LCLs, it is always present, but a specific deletion in its genome sets it apart from natural EBV strains. After studying hundreds of individuals, we determined the presence of natural EBV in at least 10 of them and obtained a set of variants specific to wild-type EBV. By mapping the natural EBV reads into the EBV reference genome (NC007605), we constructed nearly complete wild-type viral genomes from three individuals. Adding them to the five disease-derived EBV genomic sequences available in the literature, we performed an in-depth comparative genomic analysis. We found that latency genes harbor more nucleotide diversity than lytic genes and that six out of nine latency-related genes, as well as other genes involved in viral attachment and entry into host cells, packaging, and the capsid, present the molecular signature of accelerated protein evolution rates, suggesting rapid host-parasite coevolution.

Citing Articles

Comparative Study Analysis of Epstein-Barr Virus Infection: Tissue Versus Blood Samples in Patients With Prostatic Adenocarcinoma and Its Correlation With Clinicopathological Parameters.

Mharrach I, Tadlaoui K, Laraqui A, Ennibi K, Hamedoun L, Ameur A Cureus. 2024; 16(8):e66048.

PMID: 39224737 PMC: 11367065. DOI: 10.7759/cureus.66048.


A comprehensive overview on the crosstalk between microRNAs and viral pathogenesis and infection.

Bahojb Mahdavi S, Jebelli A, Aghbash P, Baradaran B, Amini M, Oroojalian F Med Res Rev. 2024; 45(2):349-425.

PMID: 39185567 PMC: 11796338. DOI: 10.1002/med.22073.


mRNA vaccine design for Epstein-Barr virus: an immunoinformatic approach.

Oladipo E, Akinleye T, Adeyemo S, Akinboade M, Siyanbola K, Adetunji V In Silico Pharmacol. 2024; 12(2):68.

PMID: 39070665 PMC: 11269547. DOI: 10.1007/s40203-024-00244-x.


Whole Genome Sequence-Based Analysis of Bovine Gammaherpesvirus 4 Isolated from Bovine Abortions.

Romeo F, Spetter M, Pereyra S, Moran P, Gonzalez Altamiranda E, Louge Uriarte E Viruses. 2024; 16(5).

PMID: 38793621 PMC: 11125609. DOI: 10.3390/v16050739.


Epigenetic Mechanisms in Latent Epstein-Barr Virus Infection and Associated Cancers.

Torne A, Robertson E Cancers (Basel). 2024; 16(5).

PMID: 38473352 PMC: 10931536. DOI: 10.3390/cancers16050991.


References
1.
Watterson G . On the number of segregating sites in genetical models without recombination. Theor Popul Biol. 1975; 7(2):256-76. DOI: 10.1016/0040-5809(75)90020-9. View

2.
Abecasis G, Altshuler D, Auton A, Brooks L, Durbin R, Gibbs R . A map of human genome variation from population-scale sequencing. Nature. 2010; 467(7319):1061-73. PMC: 3042601. DOI: 10.1038/nature09534. View

3.
Gorzer I, Niesters H, Cornelissen J, Puchhammer-Stockl E . Characterization of Epstein-Barr virus Type I variants based on linked polymorphism among EBNA3A, -3B, and -3C genes. Virus Res. 2006; 118(1-2):105-14. DOI: 10.1016/j.virusres.2005.11.020. View

4.
DePristo M, Banks E, Poplin R, Garimella K, Maguire J, Hartl C . A framework for variation discovery and genotyping using next-generation DNA sequencing data. Nat Genet. 2011; 43(5):491-8. PMC: 3083463. DOI: 10.1038/ng.806. View

5.
Ascherio A, Munger K . Epstein-barr virus infection and multiple sclerosis: a review. J Neuroimmune Pharmacol. 2010; 5(3):271-7. DOI: 10.1007/s11481-010-9201-3. View