EBV VIS Detail Information

> This page shows VIS [3000417] detail information, including site information (chromosome, GRCh38 location, disease, sample, etc) and literature information.

Site Information

DVID	3000417
VISID	TVIS42000942
Chromosome	chr2
GRCh38 Location	219109048, 219109065
Disease	Lymphoma, Extranodal NK-T-Cell
Sample	Tumor
Virus Reference Genome	NC007605
Target Gene	NHEJ1

Literature Information

PubMed PMID	30546078
Year	2019 Jun;33(6):1451-1462
Journal	Leukemia
Title	Genomic and transcriptomic landscapes of Epstein-Barr virus in extranodal natural killer T-cell lymphoma.
Author	Peng RJ,Han BW,Cai QQ,Zuo XY,Xia T,Chen JR,Feng LN,Lim JQ,Chen SW,Zeng MS,Guo YM,Li B,Xia XJ,Xia Y,Laurensia Y,Chia BKH,Huang HQ,Young KH,Lim ST,Ong CK,Zeng YX,Bei JX
Evidence	Extranodal natural killer T-cell lymphoma (nasal type; NKTCL) is an aggressive malignancy strongly associated with Epstein-Barr virus (EBV) infection. However, the role of EBV in NKTCL development is unclear, largely due to the lack of information about EBV genome and transcriptome in NKTCL. Here, using high-throughput sequencing, we obtained whole genome (n = 27) and transcriptome datasets (n = 18) of EBV derived from NKTCL tumor biopsies. We assembled 27 EBV genomes and detected an average of 1,152 single nucleotide variants and 44.8 indels (<50 bp) of EBV per sample. We also identified frequent focal EBV genome deletions and integrated EBV fragments in the host genome. Moreover, Phylogenetic analysis revealed that NKTCL-derived EBVs are closely clustered; transcriptome analysis revealed less activation of both latent and lytic genes and larger amount of T-cell epitope alterations in NKTCL, as compared with other EBV-associated cancers. Furthermore, we observed transcriptional defects of the BARTs miRNA by deletion, and the disruption of host NHEJ1 by integrated EBV fragment, implying novel pathogenic mechanisms of EBV. Taken together, we reported for the first time global mutational and transcriptional profiles of EBV in NKTCL clinical samples, revealing important somatic events of EBV and providing insights to better understanding of EBV's contribution in tumorigenesis.