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GenomicsDDM1 and RdDM are the major regulators of transposon DNA methylation in Arabidopsis
Eukaryotic DNA methylation is found in silent transposable elements and active genes. Nucleosome remodelers of the DDM1/Lsh family are thought to be specifically required to maintain transposon methylation, but the reason for this is unknown. Here, we find that a chromatin gradient that extends from...
ORGANISM(S): Arabidopsis thaliana 
2013-04-17 | E-GEOD-41302 | biostudies-arrayexpress
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
TranscriptomicsThe SNF2 and RING domain proteins FRG1 and 2 are required for RNA-directed DNA methylation in Arabidopsis [mRNA-Seq]
DNA methylation in Arabidopsis thaliana is maintained by at least four different enzymes: MET1, CMT3, DRM2, and CMT2. However, DNA methylation is established exclusively by the enzyme DRM2, which acts in the RNA-directed DNA methylation (RdDM) pathway. Some RdDM components belong to gene families an...
ORGANISM(S): Arabidopsis thaliana 
2014-11-25 | E-GEOD-62799 | biostudies-arrayexpress
ProteomicsThe MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation.
MOM1 is an Arabidopsis factor previously shown to mediate transcriptional silencing independent of major DNA methylation changes. Here we found that MOM1 localizes with sites of RNA-directed DNA methylation (RdDM). Tethering MOM1 with artificial zinc finger to unmethylated FWA promoter led to establ...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2023-06-10 | PXD039991 | Pride
Mom1 Arabidopsis Lcms 
GenomicsInterplay Between Active Chromatin Marks and RNA-directed DNA Methylation in Arabidopsis thaliana
DNA methylation is an epigenetic mark that is associated with transcriptional repression of transposable elements and protein coding genes. Conversely, transcriptionally active regulatory regions are strongly correlated with histone 3 lysine 4 di- and trimethylation (H3K4m2/3). We previously showed ...
ORGANISM(S): Arabidopsis thaliana 
2013-11-01 | E-GEOD-49090 | 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
TranscriptomicsArabidopsis small RNAs associated with RDR6-dependent RNA-directed DNA Methylation
Background: The majority of plant transposable elements (TEs) are found in a silenced state that is epigenetically propagated by the maintenance of symmetrical DNA methylation. TE methylation is established and reinforced by a mechanism of RNA-dependent DNA methylation, which is dependent on transcr...
ORGANISM(S): Arabidopsis thaliana 
2013-04-11 | E-GEOD-41755 | biostudies-arrayexpress
GenomicsThe SUVR2 associated proteins FRINGE1 and 2 are required for RdDM in Arabidopsis [Bisulfite-seq]
DNA methylation in Arabidopsis thaliana is maintained by at least four different enzymes MET1, CMT3, DRM2 and CMT2. However, new methylation patterns are established exclusively by the enzyme DRM2, which acts within a pathway termed RNA-directed DNA methylation (RdDM). Some RdDM components belong t...
ORGANISM(S): Arabidopsis thaliana 
2014-11-25 | E-GEOD-59959 | biostudies-arrayexpress
GenomicsZea mays Epigenomics
RNA-directed DNA methylation (RdDM) in plants is a well-characterized example of RNA interference-related transcriptional gene silencing. To determine the relationships between RdDM and heterochromatin in the repeat-rich maize (Zea mays) genome, we performed whole-genome analyses of several heteroch...
ORGANISM(S): Zea mays 
2014-12-05 | E-MTAB-4191 | biostudies-arrayexpress
GenomicsA histone H3K4me1 specific binding protein is involved in RdDM
A histone H3K4me1 specific binding protein is involved in RdDM
PRJNA645828 | ENA
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