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TranscriptomicsRNAi triggered by specialized machinery silences developmental genes and retrotransposons (ChIP-chip)
RNAi is a conserved mechanism in which small interfering RNAs (siRNAs) guide the degradation of cognate RNAs, but also promote heterochromatin assembly at repetitive DNA elements such as centromeric repeats. However, the full extent of RNAi functions and its endogenous targets have not been explored...
ORGANISM(S): Schizosaccharomyces pombe 
2012-11-26 | E-GEOD-41642 | biostudies-arrayexpress
TranscriptomicsRNAi triggered by specialized machinery silences developmental genes and retrotransposons (RNA-Seq)
RNAi is a conserved mechanism in which small interfering RNAs (siRNAs) guide the degradation of cognate RNAs, but also promote heterochromatin assembly at repetitive DNA elements such as centromeric repeats. However, the full extent of RNAi functions and its endogenous targets have not been explored...
ORGANISM(S): Schizosaccharomyces pombe 
2012-11-26 | E-GEOD-41634 | biostudies-arrayexpress
TranscriptomicsA role for Fkbp6 and the chaperone machinery in piRNA amplification and transposon silencing
Epigenetic silencing of transposons by Piwi-interacting RNAs (piRNAs) constitutes an RNA-based genome defense mechanism. Piwi endonuclease action amplifies the piRNA pool by generating new piRNAs from target transcripts by a poorly understood mechanism. Here, we identified mouse Fkbp6 as a factor in...
ORGANISM(S): Bombyx mori 
2012-09-04 | E-GEOD-39203 | biostudies-arrayexpress
TranscriptomicsRNAi triggered by specialized machinery silences developmental genes and retrotransposons
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Schizosaccharomyces pombe 
2012-11-26 | E-GEOD-41643 | biostudies-arrayexpress
TranscriptomicsA conserved factor Dhp1/Rat1/Xrn2 triggers premature transcription termination and nucleates heterochromatin to promote gene silencing [sRNA-seq]
Co-transcriptional RNA processing and surveillance factors mediate heterochromatin formation in fission yeast. In addition to RNAi, RNA elimination machinery including MTREC (Mtl1-Red1 core) and the exosome are involved in facultative heterochromatin assembly, however, the exact mechanisms remain un...
ORGANISM(S): Schizosaccharomyces pombe 
2016-01-05 | E-GEOD-74739 | biostudies-arrayexpress
TranscriptomicsCharacterization of small RNA-generating regions targeted by RNA polymerase V in Arabidopsis
In plants, heterochromatin is maintained by a small RNA-based gene silencing mechanism known as RNA-directed DNA methylation (RdDM). RdDM requires the non-redundant functions of two plant-specific DNA-dependent RNA polymerases (Pol) Pol IV and Pol V. Pol IV plays a major role in siRNA biogenesis, w...
ORGANISM(S): Arabidopsis thaliana 
2012-06-11 | E-GEOD-36424 | biostudies-arrayexpress
TranscriptomicsGlobal effects of the small RNA biogenesis machinery on the Arabidopsis thaliana transcriptome
In Arabidopsis thaliana, four different DICER-LIKE (DCL) proteins have distinct, but partially overlapping functions in the biogenesis of microRNAs (miRNAs) and small interfering RNAs (siRNAs) from longer, non-coding precursor RNAs. To analyze the impact of different components of the small RNA (...
ORGANISM(S): Arabidopsis thaliana 
2010-05-07 | E-GEOD-21685 | biostudies-arrayexpress
ProteomicsA Pandas complex adapted for piRNA-guided transposon silencing and heterochromatin formation, Panx-IP-MS
The repression of transposons by the Piwi-interacting RNA (piRNA) pathway is essential to protect animal germ cells. In Drosophila ovaries, Panoramix (Panx) enforces transcriptional silencing by binding to the target-engaged Piwi-piRNA complex, although the precise mechanisms by which this occurs re...
ORGANISM(S): Drosophila Melanogaster 
2019-08-06 | PXD014926 |
TranscriptomicsWhole transcriptome analysis in nicotiana benthamiana WT and transgenic lines presenting spontaneous systemic posttranscriptional silencing (PTGS) of a GFP transgene (line GFP6.4 described in Kalantidis Plant J 2006). Change in gene expression was analysed in WT versus GFP6.4 before initiation, during spreading and maintenance of GFP-PTGS.
Detect the global transcriptional changes occuring during spreading and maintenance of systemic post transcriptional silencing . Test the hypothesis that activation of systemic PTGS induces parallel antiviral defense pathways. Gene expression was analysed by MACE method (Massive Analysis of cDNA End...
ORGANISM(S): Nicotiana benthamiana 
2019-04-19 | E-MTAB-7851 | biostudies-arrayexpress
TranscriptomicsSilencing factors induce the elimination of nucleosome-free regions in S. pombe heterochromatin
Abstract: In the yeast S. pombe, multiple chromatin-modifying enzymes are required for heterochromatin formation, yet how their actions alter chromatin structure to block access to DNAby the transcriptional machinery is unknown. We constructed high-resolution nucleosome occupancy maps of heterochrom...
ORGANISM(S): Schizosaccharomyces pombe 
2010-11-24 | E-GEOD-19596 | biostudies-arrayexpress
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