|
| Status |
Public on Jan 07, 2019 |
| Title |
Comparative Analysis of Gammaherpesvirus Circular RNA |
| Organisms |
Macaca mulatta; Homo sapiens; Mus musculus; Human gammaherpesvirus 8; Macacine gammaherpesvirus 4; Murid herpesvirus 68 |
| Experiment type |
Other
|
| Summary |
Recent studies have identified circular RNAs (circRNAs) expressed from the Epstein-Barr virus (EBV) and Kaposi’s sarcoma herpesvirus (KSHV) human DNA tu- mor viruses. To gain initial insights into the potential relevance of EBV circRNAs in virus biology and disease, we assessed the circRNAome of the interspecies homologue rhesus macaque lymphocryptovirus (rLCV) in a naturally occurring lymphoma from a simian immunodeficiency virus (SIV)-infected rhesus macaque. This analysis revealed rLCV orthologues of the latency-associated EBV circular RNAs circRPMS1_E4_E3a and circEBNA_U. Also identified in two samples displaying unusually high lytic gene expres- sion was a novel rLCV circRNA that contains both conserved and rLCV-specific RPMS1 exons and whose backsplice junctions flank an rLCV lytic origin of replication (OriLyt). Analysis of a lytic infection model for the murid herpesvirus 68 (MHV68) rhadinovirus identified a cluster of circRNAs near an MHV68 lytic origin of replication, with the most abundant of these, circM11_ORF69, spanning the OriLyt. Lastly, analysis of KSHV la- tency and reactivation models revealed the latency associated circRNA originating from the vIRF4 gene as the predominant viral circRNA. Together, the results of this study broaden our appreciation for circRNA repertoires in the Lymphocryptovirus and Rhadinovirus genera of gammaherpesviruses and provide evolutionary support for vi- ral circRNA functions in latency and viral replication.
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| Overall design |
RNA-sequencing of Ribodepleted + RNase R treated, and Poly-A selection libraries of gammaherpesviral samples
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| |
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| Contributor(s) |
Flemington E |
| Citation(s) |
30567979 |
| |
| Submission date |
Jan 06, 2019 |
| Last update date |
Apr 08, 2019 |
| Contact name |
Erik K Flemington |
| E-mail(s) |
eflemin@tulane.edu
|
| Phone |
504 988-1167
|
| Organization name |
Tulane Health Sciences Center
|
| Department |
Pathology
|
| Street address |
1430 Tulane Ave., SL79
|
| City |
New Orleans |
| State/province |
LA |
| ZIP/Postal code |
70112 |
| Country |
USA |
| |
|
| Platforms (3) |
| GPL25719 |
Illumina HiSeq 4000 (Homo sapiens; Human gammaherpesvirus 8) |
| GPL26009 |
Illumina HiSeq 4000 (Murid herpesvirus 68; Mus musculus) |
| GPL26010 |
Illumina HiSeq 4000 (Macaca mulatta; Macacine gammaherpesvirus 4) |
|
| Samples (10)
|
| GSM3543751 |
BCBL1 (uninduced) |
| GSM3543752 |
Indian Rhesus Macaque Tumor 1 RNase R treated |
| GSM3543753 |
Indian Rhesus Macaque Tumor 2 RNase R treated |
| GSM3543754 |
Indian Rhesus Macaque Tumor 3 RNase R treated |
| GSM3543755 |
Indian Rhesus Macaque Tumor 1 Poly-A selected |
| GSM3543756 |
Indian Rhesus Macaque Tumor 2 Poly-A selected |
| GSM3543757 |
Indian Rhesus Macaque Tumor 3 Poly-A selected |
|
| Relations |
| BioProject |
PRJNA513195 |
| SRA |
SRP176282 |
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