A stable tRNA-like molecule is generated from the long noncoding RNA GUT15 in Arabidopsis

RNA Biol. 2018;15(6):726-738. doi: 10.1080/15476286.2018.1445404. Epub 2018 Mar 21.

Abstract

The Arabidopsis GUT15 RNA belongs to a class of noncoding RNAs that are expressed from the intergenic regions of protein-coding genes. We show that the RNA polymerase II transcribed GUT15 transcript serves as a precursor for two stable RNA species, a tRNA-like molecule and GUT15-tRF-F5, which are both encoded by the final intron in the GUT15 gene. The GUT15-encoded tRNA-like molecule cannot be autonomously transcribed by RNA polymerase III. However, this molecule contains a CCA motif, suggesting that it may enter the tRNA maturation pathway. The GUT15-encoded tRNA-like sequence has an inhibiting effect on the splicing of its host intron. Moreover, we demonstrate that the canonical tRNA genes nested within introns do not affect the splicing patterns of their host protein-coding transcripts.

Keywords: Arabidopsis; GUT15; lncRNAs; splicing; tRNA-like.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Arabidopsis Proteins / genetics
  • Arabidopsis Proteins / metabolism
  • Arabidopsis* / genetics
  • Arabidopsis* / metabolism
  • Nucleic Acid Conformation*
  • RNA Polymerase II / genetics
  • RNA Polymerase II / metabolism
  • RNA, Plant* / genetics
  • RNA, Plant* / metabolism
  • RNA, Transfer* / genetics
  • RNA, Transfer* / metabolism
  • RNA, Untranslated* / genetics
  • RNA, Untranslated* / metabolism
  • Transcription, Genetic / physiology*

Substances

  • Arabidopsis Proteins
  • RNA, Plant
  • RNA, Untranslated
  • RNA, Transfer
  • RNA Polymerase II

Grant support

This work was supported by the National Science Center under grant numbers UMO-2013/11/N/NZ2/02511 (awarded to PP), UMO-2013/10/A/NZ1/00557 (awarded to AJ) and UMO-2011/03/B/NZ2/01416 (awarded to WMK); the Foundation for Polish Science under grants Mistrz 3.5/2014 (awarded to AJ) and START 32.2017 (awarded to KK); and the KNOW RNA Research Center in Poznan (01/KNOW2/2014).