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

Norbert Moldován, Attila Szucs, Dóra Tombácz, Zsolt Balázs, Zsolt Csabai, Michael Snyder, Z. Boldogkői

Research output: Contribution to journalArticle

2 Citations (Scopus)

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.

Original languageEnglish
Article numberfny013
JournalFEMS Microbiology Letters
Volume365
Issue number5
DOIs
Publication statusPublished - Mar 1 2018

Fingerprint

Endogenous Retroviruses
Cultured Cells
Protein Isoforms
Swine
RNA
Transcriptome
RNA Sequence Analysis
Clone Cells
Kidney
Cell Line
Polymerase Chain Reaction
Messenger RNA

Keywords

  • Endogenous retrovirus
  • Full-length sequencing
  • Oxford Nanopore Technologies
  • Pacific Biosciences
  • RNA-Seq
  • Transcriptome

ASJC Scopus subject areas

  • Microbiology
  • Molecular Biology
  • Genetics

Cite this

Multiplatform next-generation sequencing identifies novel RNA molecules and transcript isoforms of the endogenous retrovirus isolated from cultured cells. / Moldován, Norbert; Szucs, Attila; Tombácz, Dóra; Balázs, Zsolt; Csabai, Zsolt; Snyder, Michael; Boldogkői, Z.

In: FEMS Microbiology Letters, Vol. 365, No. 5, fny013, 01.03.2018.

Research output: Contribution to journalArticle

Moldován, Norbert ; Szucs, Attila ; Tombácz, Dóra ; Balázs, Zsolt ; Csabai, Zsolt ; Snyder, Michael ; Boldogkői, Z. / Multiplatform next-generation sequencing identifies novel RNA molecules and transcript isoforms of the endogenous retrovirus isolated from cultured cells. In: FEMS Microbiology Letters. 2018 ; Vol. 365, No. 5.
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