RRC ID 59499
Author Gushchanskaia ES, Esse R, Ma Q, Lau NC, Grishok A.
Title Interplay between small RNA pathways shapes chromatin landscapes in C. elegans.
Journal Nucleic Acids Res
Abstract The nematode Caenorhabditis elegans contains several types of endogenous small interfering RNAs (endo-siRNAs) produced by RNA-dependent RNA polymerase (RdRP) complexes. Both 'silencing' siRNAs bound by Worm-specific Argonautes (WAGO) and 'activating' siRNAs bound by the CSR-1 Argonaute require the DRH-3 helicase, an RdRP component. Here, we show that, in the drh-3(ne4253) mutant deficient in RdRP-produced secondary endo-siRNAs, the silencing histone mark H3K9me3 is largely depleted, whereas in the csr-1 partially rescued null mutant strain (WM193), this mark is ectopically deposited on CSR-1 target genes. Moreover, we observe ectopic H3K9me3 at enhancer elements and an increased number of small RNAs that match enhancers in both drh-3 and csr-1 mutants. Finally, we detect accumulation of H3K27me3 at highly expressed genes in the drh-3(ne4253) mutant, which correlates with their reduced transcription. Our study shows that when abundant RdRP-produced siRNAs are depleted, there is ectopic elevation of noncoding RNAs linked to sites with increased silencing chromatin marks. Moreover, our results suggest that enhancer small RNAs may guide local H3K9 methylation.
Volume 47(11)
Pages 5603-5616
Published 2019-6-20
DOI 10.1093/nar/gkz275
PII 5477462
PMID 31216042
PMC PMC6582410
MeSH Animals Argonaute Proteins / genetics Argonaute Proteins / metabolism Caenorhabditis elegans / genetics* Caenorhabditis elegans / metabolism Caenorhabditis elegans Proteins / genetics Caenorhabditis elegans Proteins / metabolism Chromatin / genetics* Chromatin / metabolism DEAD-box RNA Helicases / genetics DEAD-box RNA Helicases / metabolism Histones / metabolism Methylation RNA Interference* RNA, Small Interfering / genetics* Signal Transduction / genetics*
IF 11.147
Times Cited 1
C.elegans tm892 tm1217 tm1200