Multiplatform next-generation sequencing identifies novel RNA molecules and transcript isoforms of the endogenous retrovirus isolated from cultured cells

作者：Moldovan Norbert; Szucs Attila; Tombacz Dora; Balazs Zsolt^*; Csabai Zsolt; Snyder Michael; Boldogkoi Zsolt^*

来源：FEMS Microbiology Letters, 2018, 365(5): fny013.

DOI：10.1093/femsle/fny013

• RNA-Seq
• full-length sequencing
• transcriptome
• Pacific Biosciences
• Oxford Nanopore Technologies
• endogenous retrovirus

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.

• 出版日期2018-3