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Comparative epigenomics reveals that RNA polymerase II pausing and chromatin domain organization control nematode piRNA biogenesis

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Title: Comparative epigenomics reveals that RNA polymerase II pausing and chromatin domain organization control nematode piRNA biogenesis
Authors: Beltran, T
Barroso, C
Birkle, TY
Stevens, L
Schwartz, HT
Sternberg, PW
Fradin, H
Gunsalus, K
Piano, F
Sharma, G
Cerrato, C
Ahringer, J
Martínez-Pérez, E
Blaxter, M
Sarkies, P
Item Type: Journal Article
Abstract: Piwi-interacting RNAs (piRNAs) are important for genome regulation across metazoans, but their biogenesis evolves rapidly. In Caenorhabditis elegans, piRNA loci are clustered within two 3-Mb regions on chromosome IV. Each piRNA locus possesses an upstream motif that recruits RNA polymerase II to produce an ∼28 nt primary transcript. We used comparative epigenomics across nematodes to gain insight into the origin, evolution, and mechanism of nematode piRNA biogenesis. We show that the piRNA upstream motif is derived from core promoter elements controlling snRNA transcription. We describe two alternative modes of piRNA organization in nematodes: in C. elegans and closely related nematodes, piRNAs are clustered within repressive H3K27me3 chromatin, while in other species, typified by Pristionchus pacificus, piRNAs are found within introns of active genes. Additionally, we discover that piRNA production depends on sequence signals associated with RNA polymerase II pausing. We show that pausing signals synergize with chromatin to control piRNA transcription.
Issue Date: 25-Mar-2019
Date of Acceptance: 27-Dec-2018
URI: http://hdl.handle.net/10044/1/67476
DOI: https://dx.doi.org/10.1016/j.devcel.2018.12.026
ISSN: 1534-5807
Publisher: Elsevier
Start Page: 1
End Page: 18
Journal / Book Title: Developmental Cell
Volume: 48
Copyright Statement: © 2019 The Author(s). Published by Elsevier Inc. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/)
Sponsor/Funder: Medical Research Council
Funder's Grant Number: MC-A652-5PZ80-3203-0000-0000
Keywords: C. elegans
chromatin
comparative epigenomics
epigenetics
evolution
nematodes
piwi-interacting small RNAs
06 Biological Sciences
11 Medical And Health Sciences
Developmental Biology
Publication Status: Published
Conference Place: United States
Open Access location: https://www.cell.com/developmental-cell/fulltext/S1534-5807(18)31126-2
Online Publication Date: 2019-01-31
Appears in Collections:Clinical Sciences
Molecular Sciences



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