title: Long non-coding RNA produced by RNA polymerase V determines boundaries of heterochromatin.
abstract: RNA-mediated transcriptional gene silencing is a conserved process where small RNAs target transposons and other sequences for repression by establishing chromatin modifications. A central element of this process are long non-coding RNAs (lncRNA), which inArabidopsis thalianaare produced by a specialized RNA polymerase known as Pol V. Here we show that non-coding transcription by Pol V is controlled by preexisting chromatin modifications located within the transcribed regions. Most Pol V transcripts are associated with AGO4 but are not sliced by AGO4. Pol V-dependent DNA methylation is established on both strands of DNA and is tightly restricted to Pol V-transcribed regions. This indicates that chromatin modifications are established in close proximity to Pol V. Finally, Pol V transcription is preferentially enriched on edges of silenced transposable elements, where Pol V transcribes into TEs. We propose that Pol V may play an important role in the determination of heterochromatin boundaries.
authors: Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, United States.
authors: Gudrun
authors: G
authors: Böhmdorfer
authors: Bioinformatics Graduate Program, University of Michigan, Ann Arbor, United States.
authors: Shriya
authors: 0000-0001-5033-1105
authors: S
authors: Sethuraman
authors: Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, United States.
authors: M Jordan
authors: MJ
authors: Rowley
authors: Faculty of Biology, Institute of Genetics and Biotechnology, University of Warsaw, Warsaw, Poland.
authors: Michal
authors: M
authors: Krzyszton
authors: Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, United States.
authors: M Hafiz
authors: MH
authors: Rothi
authors: Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, United States.
authors: Lilia
authors: L
authors: Bouzit
authors: Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, United States.
authors: Andrzej T
authors: 0000-0002-5713-1306
authors: AT
authors: Wierzbicki
mesh_terms: D017360:Arabidopsis / Q000201:enzymology* / Q000235:genetics*; D029681:Arabidopsis Proteins / Q000378:metabolism*; D060565:Argonaute Proteins / Q000378:metabolism; D012321:DNA-Directed RNA Polymerases / Q000378:metabolism*; D006570:Heterochromatin / Q000378:metabolism*; D062085:RNA, Long Noncoding / Q000378:metabolism*; D018749:RNA, Plant / Q000378:metabolism*
chemical_list: C471209:AGO4 protein, Arabidopsis; D029681:Arabidopsis Proteins; D060565:Argonaute Proteins; D006570:Heterochromatin; D062085:RNA, Long Noncoding; D018749:RNA, Plant; C538841:RNA polymerase V, Arabidopsis; D012321:DNA-Directed RNA Polymerases
keywords: A. thaliana; RdDM; chromosomes; genes; lncRNA; plant biology; transposons