CaltechAUTHORS
  A Caltech Library Service

Evolutionary analysis implicates RNA polymerase II pausing and chromatin structure in nematode piRNA biogenesis

Beltran, T. and Barruso, C. and Birkle, T. Y. and Stevens, L. and Schwartz, H. T. and Sternberg, P. W. and Fradin, H. and Gunsalus, K. and Piano, F. and Cotton, J. and Martínez-Pérez, E. and Blaxter, M. and Sarkies, P. (2018) Evolutionary analysis implicates RNA polymerase II pausing and chromatin structure in nematode piRNA biogenesis. . (Unpublished) http://resolver.caltech.edu/CaltechAUTHORS:20181031-081252031

[img] PDF - Submitted Version
See Usage Policy.

13Mb
[img] MS Excel (Supplemental Tables) - Supplemental Material
See Usage Policy.

891Kb

Use this Persistent URL to link to this item: http://resolver.caltech.edu/CaltechAUTHORS:20181031-081252031

Abstract

Piwi-interacting RNAs (piRNAs) control transposable elements widely across metazoans but have rapidly evolving biogenesis pathways. In Caenorhabditis elegans, almost all piRNA loci are found within two 3Mb clusters on Chromosome IV. Each piRNA locus possesses an upstream motif that recruits RNA polymerase II to produce a ~28 nt precursor transcript. Here, we use comparative epigenomics across nematodes to gain insight into piRNA biogenesis. We show that the piRNA upstream motif is derived from core promoter elements controlling snRNA biogenesis. We describe two alternative modes of piRNA organisation in nematodes: in C. elegans and closely related nematodes, piRNAs are clustered within repressive H3K27me3 chromatin, whilst in other species, typified by Pristionchus pacificus, piRNAs are distributed genome-wide within introns of actively transcribed genes. In both groups, piRNA production depends on downstream sequence signals associated with RNA polymerase II pausing, which synergise with the chromatin environment to control piRNA precursor transcription.


Item Type:Report or Paper (Discussion Paper)
Related URLs:
URLURL TypeDescription
https://doi.org/10.1101/281360DOIDiscussion Paper
ORCID:
AuthorORCID
Schwartz, H. T.0000-0002-3448-8652
Sternberg, P. W.0000-0002-7699-0173
Blaxter, M.0000-0003-2861-949X
Additional Information:The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. Posted March 13, 2018. Data availability: Small RNA sequencing data has been submitted to the SRA Study SRP117954: Evolution of piRNAs in nematodes The P. oxycercus and P. sambesii genomes have been uploaded to http://caenorhabditis.org/.
Record Number:CaltechAUTHORS:20181031-081252031
Persistent URL:http://resolver.caltech.edu/CaltechAUTHORS:20181031-081252031
Official Citation:Evolutionary analysis implicates RNA polymerase II pausing and chromatin structure in nematode piRNA biogenesis. Toni Beltran, Consuelo Barruso, Timothy Birkle, Lewis Stevens, Hillel T Schwartz, Paul Sternberg, Helene Fradin, Kristin Gunsalus, Fabio Piano, Enrique Martinez-Perez, Mark Blaxter, Peter Sarkies. bioRxiv 281360; doi: https://doi.org/10.1101/281360
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:90532
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:01 Nov 2018 18:28
Last Modified:01 Nov 2018 18:28

Repository Staff Only: item control page