APOLO LONG NONCODING RNA REGULATES LOCAL CHROMATIN LOOPS ACROSS THE ARABIDOPSIS GENOME

ARIEL, FEDERICO D.

Rosario

Simposio; Simposio de Genómica Funcional de Plantas Rosario 2017; 2017

In Arabidopsis, the long intergenic noncoding RNA (lincRNA) APOLO is transcribed byRNA polymerases II and V in response to auxin, a phytohormone controlling numerousfacets of plant development. This dual APOLO transcription regulates the formation of achromatin loop in cis, encompassing the promoter of its neighboring gene PID, a keyregulator of polar auxin transport. Altering APOLO expression affects local chromatin loopformation, dynamically shaping PID expression pattern. In order to assess the potentialaction of this lncRNA in trans, we purified APOLO using biotynilated DNA probes byChromatin Isolation by RNA Purification (ChIRP). We used the APOLO co-purifiedinteracting chromatin to build a library for Next Generation Sequencing. As a result, weidentified hundreds of potential APOLO?interacting loci across the Arabidopsis genome,suggesting that this lincRNA can directly regulate chromatin conformation in trans,impacting gene expression. We crossed the ChIRP-Seq data with RNA-Seq results ofAPOLO deregulated lines, the ChIP-Seq of the APOLO-interacting PRC1 protein LHP1,H3K27me3 genome-wide distribution and Hi-C independent datasets to short-listcandidate target genes for further validation. Altogether, our results indicate that APOLOcan interact with distant loci in trans, modulating local chromatin 3D conformation and fine-tuning the transcriptional activity of target genes.