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GenomicsPolymerase-IV occupancy at RNA-directed DNA methylation sites requires SHH1
DNA methylation is an epigenetic modification that plays critical roles in gene silencing, development, and the maintenance of genome integrity. In Arabidopsis, DNA methylation is established by DOMAINS REARRANGED METHYLTRANSFERASE 2 (DRM2) and is targeted by 24 nt small interfering RNAs (siRNAs) th...
ORGANISM(S): Arabidopsis thaliana 
2013-05-13 | E-GEOD-45368 | biostudies-arrayexpress
ProteomicsPol IV-RDR2 protein interaction study
Protein-protein interaction between DNA dependent RNA polymerase IV and RNA dependent RNA polymerase2. The coupled activities of the physically associated polymerases lead to the biogenesis of dsRNAs that serve as precursors of 24nt siRNAs.
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2020-09-14 | PXD020170 | Pride
Dsrna Rna polymerase Sirna Rna directed dna methylation 
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
TranscriptomicsDetection of Pol IV-dependent transcripts at the genomic scale in Arabidopsis reveals features and regulation of siRNA biogenesis
24 nucleotide siRNAs are central players in RNA-directed DNA methylation (RdDM), a process that establishes DNA methylation at transposable elements to ensure genome stability. The plant-specific RNA polymerase IV (Pol IV) is required for siRNA biogenesis and is thought to transcribe RdDM loci to pr...
ORGANISM(S): Arabidopsis thaliana 
2014-11-11 | E-GEOD-57215 | biostudies-arrayexpress
ProteomicsCLSY docking to Pol IV requires a conserved domain critical for small RNA biogenesis and transposon silencing
RNA polymerase IV (Pol IV) transcribes transposable elements (TEs) into precursors for small interfering RNAs (siRNAs) that guide DNA methylation to silence these potentially dangerious mobile elements in plants. Pol IV is recruited to TEs via SNF2-like CLASSY (CLSY) proteins. How Pol IV evolved to ...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2024-11-28 | PXD047743 | Pride
Rna polymerase iv Clsy-docking motif 
GenomicsEpigenomic profiles of Brachypodium distachyon mutants deficient in RNA polymerase IV (Pol IV)
Epigenomic profiles of Brachypodium distachyon mutants deficient in RNA polymerase IV (Pol IV)
PRJNA1019624 | ENA
ProteomicsProteins co-localized with RNA Pol2 in ALS patient-derived neural precursors
Deficiency of proteostasis and RNA metabolism are increasingly recognized as critical drivers of neurodegenerative diseases. In this study, we focused on RNA polymerase II (Pol2) as the converging point of these two elements to understand how transcriptional machinery is affected by ALS-associated V...
ORGANISM(S): Homo Sapiens (human) 
2023-03-02 | PXD034483 | JPOST Repository
TranscriptomicsStructural Variant of a Tandem Repeat-containing Silencer Locus Reveals Distinct Pol II and Pol IV-dependent Pathways of siRNA Biogenesis
We used a two-component transgene system to study the RNA-dependent DNA methylation (RdDM) and transcriptional gene silencing (TGS) in Arabidopsis. By profiling the small RNA population in  mutants defected in RdDM or RNA polymerase II-transcribed trigger for generating silencing siRNA, we investiga...
ORGANISM(S): Arabidopsis thaliana 
2014-08-05 | E-GEOD-47852 | biostudies-arrayexpress
GenomicsDTF1 is a core component of RNA-directed DNA methylation and may assist in the recruitment of Pol IV
DNA methylation is an important epigenetic mark in many eukaryotic organisms. De novo DNA methylation in plants can be achieved by the RNA-directed DNA methylation (RdDM) pathway, where the plant-specific DNA-dependent RNA polymerase Pol IV transcribes target sequences to initiate 24-nt siRNA produ...
ORGANISM(S): Arabidopsis thaliana 
2013-06-03 | E-GEOD-44209 | biostudies-arrayexpress
GenomicsRNA Polymerase IV sensitises the chromatin via histone modifications modulating protein coding genes [RNA-Seq]
RNA Polymerase IV sensitises the chromatin via histone modifications modulating protein coding genes [RNA-Seq]
PRJNA747899 | ENA
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