Multiplatform next-generation sequencing identifies novel RNA molecules and transcript isoforms of the endogenous retrovirus isolated from cultured cells. Issue 5 (18th January 2018)

• Record Type: Journal Article
• Authors: Moldován, Norbert; Szűcs, Attila; Tombácz, Dóra; Balázs, Zsolt; Csabai, Zsolt; Snyder, Michael; Boldogkői, Zsolt
• Is Part Of: FEMS microbiology letters. Volume 365:Issue 5(2018:Mar.)
• Publication Date: 2018-01-18
• Subjects: RNA-Seq -- full-length sequencing -- transcriptome -- Pacific Biosciences -- Oxford Nanopore Technologies -- endogenous retrovirus; Microbiology -- Periodicals; 579
• DOI: 10.1093/femsle/fny013
• Languages: English
• ISSNs: 0378-1097

Abstract

Abstract: In this study, we applied short- and long-read RNA sequencing techniques, as well as PCR analysis to investigate the transcriptome of the porcine endogenous retrovirus (PERV) expressed from cultured porcine kidney cell line PK-15. This analysis has revealed six novel transcripts and eight transcript isoforms, including five length and three splice variants. We were able to establish whether a deletion in a transcript is the result of the splicing of mRNAs or of genomic deletion in one of the PERV clones. Additionally, we re-annotated the formerly identified RNA molecules. Our analysis revealed a higher complexity of PERV transcriptome than it was earlier believed. Abstract : The authors used short- and long-read RNA sequencing techniques along with PCR analysis to uncover a complex transcriptional landscape in the porcine endogenous retrovirus (PERV).