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The Dictyostelium discoideum RNA-dependent RNA polymerase RrpC silences the centromeric retrotransposon DIRS-1 post-transcriptionally and is required for the spreading of RNA silencing signals
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2014 (English)In: Nucleic Acids Research, ISSN 0305-1048, E-ISSN 1362-4962, Vol. 42, no 5, 3330-3345 p.Article in journal (Refereed) Published
Abstract [en]

Dictyostelium intermediate repeat sequence 1 (DIRS-1) is the founding member of a poorly characterized class of retrotransposable elements that contain inverse long terminal repeats and tyrosine recombinase instead of DDE-type integrase enzymes. In Dictyostelium discoideum, DIRS-1 forms clusters that adopt the function of centromeres, rendering tight retrotransposition control critical to maintaining chromosome integrity. We report that in deletion strains of the RNA-dependent RNA polymerase RrpC, full-length and shorter DIRS-1 messenger RNAs are strongly enriched. Shorter versions of a hitherto unknown long non-coding RNA in DIRS-1 antisense orientation are also enriched in rrpC(-) strains. Concurrent with the accumulation of long transcripts, the vast majority of small (21 mer) DIRS-1 RNAs vanish in rrpC(-) strains. RNASeq reveals an asymmetric distribution of the DIRS-1 small RNAs, both along DIRS-1 and with respect to sense and antisense orientation. We show that RrpC is required for post-transcriptional DIRS-1 silencing and also for spreading of RNA silencing signals. Finally, DIRS-1 mis-regulation in the absence of RrpC leads to retrotransposon mobilization. In summary, our data reveal RrpC as a key player in the silencing of centromeric retrotransposon DIRS-1. RrpC acts at the post-transcriptional level and is involved in spreading of RNA silencing signals, both in the 5' and 3' directions.

Place, publisher, year, edition, pages
2014. Vol. 42, no 5, 3330-3345 p.
Keyword [en]
Transposable Element Dirs-1, Small Interfering Rnas, Germ-Line Development, Caenorhabditis-Elegans, C-Elegans, Endogenous Sirnas, Dna Methylation, Tomato Leaves, Heat-Shock, Gene
National Category
Biochemistry and Molecular Biology
Identifiers
URN: urn:nbn:se:kth:diva-144560DOI: 10.1093/nar/gkt1337ISI: 000333093600049Scopus ID: 2-s2.0-84898949629OAI: oai:DiVA.org:kth-144560DiVA: diva2:714125
Funder
Swedish Research CouncilScience for Life Laboratory - a national resource center for high-throughput molecular bioscience
Note

QC 20140425

Available from: 2014-04-25 Created: 2014-04-24 Last updated: 2017-12-05Bibliographically approved

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Emanuelsson, Olof

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Reimegård, JohanKäller, MaxHällman, JimmieEmanuelsson, Olof
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