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Proc Natl Acad Sci U S A. 2018 Sep 11;115(37):E8737-E8745. doi: 10.1073/pnas.1811728115. Epub 2018 Aug 27.

Circular DNA tumor viruses make circular RNAs.

Author information

1
Hillman Cancer Center, Cancer Virology Program, University of Pittsburgh, Pittsburgh, PA 15213.
2
Department of Pathology, University of Pittsburgh, Pittsburgh, PA 15213.
3
Department of Microbiology and Molecular Genetics, University of Pittsburgh, Pittsburgh, PA 15213.
4
Division of Transplantation and Hepatic Pathology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15213.
5
Division of Hematopathology, University of Pittsburgh Medical Center, Pittsburgh, PA 15213.
6
Department of Pathology, Children's Hospital of Pittsburgh, Pittsburgh, PA 15224.
7
Hillman Cancer Center, Cancer Virology Program, University of Pittsburgh, Pittsburgh, PA 15213; psm9@pitt.edu yc70@pitt.edu.

Abstract

Epstein-Barr virus (EBV) and Kaposi's sarcoma herpesvirus (KSHV) cause ∼2% of all human cancers. RNase R-resistant RNA sequencing revealed that both gammaherpesviruses encode multiple, uniquely stable, circular RNAs (circRNA). EBV abundantly expressed both exon-only and exon-intron circRNAs from the BamHI A rightward transcript (BART) locus (circBARTs) formed from a spliced BART transcript and excluding the EBV miRNA region. The circBARTs were expressed in all verified EBV latency types, including EBV-positive posttransplant lymphoproliferative disease, Burkitt lymphoma, nasopharyngeal carcinoma, and AIDS-associated lymphoma tissues and cell lines. Only cells infected with the B95-8 EBV strain, with a 12-kb BART locus deletion, were negative for EBV circBARTs. Less abundant levels of EBV circRNAs originating from LMP2- and BHLF1-encoding genes were also identified. The circRNA sequencing of KSHV-infected primary effusion lymphoma cells revealed a KSHV-encoded circRNA from the vIRF4 locus (circvIRF4) that was constitutively expressed. In addition, KSHV polyadenylated nuclear (PAN) RNA locus generated a swarm (>100) of multiply backspliced, low-abundance RNase R-resistant circRNAs originating in both sense and antisense directions consistent with a novel hyperbacksplicing mechanism. In EBV and KSHV coinfected cells, exon-only EBV circBARTs were located more in the cytoplasm, whereas the intron-retaining circBARTs were found in the nuclear fraction. KSHV circvIRF4 and circPANs were detected in both nuclear and cytoplasmic fractions. Among viral circRNAs tested, none were found in polysome fractions from KSHV-EBV coinfected BC1 cells, although low-abundance protein translation from viral circRNAs could not be excluded. The circRNAs are a new class of viral transcripts expressed in gammaherpesvirus-related tumors that might contribute to viral oncogenesis.

KEYWORDS:

Epstein−Barr virus; Kaposi sarcoma virus; cancer; circular RNA; herpesvirus

PMID:
30150410
DOI:
10.1073/pnas.1811728115
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Conflict of interest statement

Conflict of interest: T.T., P.S.M., and Y.C. have made a US patent application based on these findings that has been assigned to the University of Pittsburgh.

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