title: Characterization of novel transcripts in pseudorabies virus.
abstract: In this study we identified two 3'-coterminal RNA molecules in the pseudorabies virus. The highly abundant short transcript (CTO-S) proved to be encoded between the ul21 and ul22 genes in close vicinity of the replication origin (OriL) of the virus. The less abundant long RNA molecule (CTO-L) is a transcriptional readthrough product of the ul21 gene and overlaps OriL. These polyadenylated RNAs were characterized by ascertaining their nucleotide sequences with the Illumina HiScanSQ and Pacific Biosciences Real-Time (PacBio RSII) sequencing platforms and by analyzing their transcription kinetics through use of multi-time-point Real-Time RT-PCR and the PacBio RSII system. It emerged that transcription of the CTOs is fully dependent on the viral transactivator protein IE180 and CTO-S is not a microRNA precursor. We propose an interaction between the transcription and replication machineries at this genomic location, which might play an important role in the regulation of DNA synthesis.
authors.affiliation: These authors contributed equally to this work.. tombacz.dora@med.u-szeged.hu.
authors.forename: Dóra
authors.initials: D
authors.lastname: Tombácz
authors.affiliation: These authors contributed equally to this work.. csabai.zsolt@med.u-szeged.hu.
authors.forename: Zsolt
authors.initials: Z
authors.lastname: Csabai
authors.affiliation: These authors contributed equally to this work.. olah.peter@med.u-szeged.hu.
authors.forename: Péter
authors.initials: P
authors.lastname: Oláh
authors.affiliation: Department of Medical Biology, Faculty of Medicine, University of Szeged, Somogyi B. u. 4., Szeged H-6720, Hungary. havelda@abc.hu.
authors.forename: Zoltán
authors.initials: Z
authors.lastname: Havelda
authors.affiliation: Agricultural Biotechnology Center, Institute for Plant Biotechnology, Plant Developmental Biology Group, Szent-Györgyi A. u. 4, Gödöllő H-2100, Hungary. dsharon@stanford.edu.
authors.forename: Donald
authors.initials: D
authors.lastname: Sharon
authors.affiliation: Agricultural Biotechnology Center, Institute for Plant Biotechnology, Plant Developmental Biology Group, Szent-Györgyi A. u. 4, Gödöllő H-2100, Hungary. mpsnyder@stanford.edu.
authors.forename: Michael
authors.initials: M
authors.lastname: Snyder
authors.affiliation: These authors contributed equally to this work.. boldogkoi.zsolt@med.u-szeged.hu.
authors.forename: Zsolt
authors.initials: Z
authors.lastname: Boldogkői
mesh_terms: D020869:Gene Expression Profiling; D011558:Herpesvirus 1, Suid / Q000235:genetics* / Q000502:physiology; D059014:High-Throughput Nucleotide Sequencing; D012367:RNA, Viral / Q000032:analysis* / Q000235:genetics; D060888:Real-Time Polymerase Chain Reaction; D014158:Transcription, Genetic; D014779:Virus Replication
chemical_list: D012367:RNA, Viral
keywords: DNA replication; RNA sequencing; herpesvirus; non-coding RNA; pseudorabies virus