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Plant Cell. 2016 Sep;28(9):2043-2059. doi: 10.1105/tpc.16.00474. Epub 2016 Aug 16.

DNA DAMAGE BINDING PROTEIN2 Shapes the DNA Methylation Landscape.

Author information

1
Institut de Biologie Moléculaire de Plantes du CNRS, UPR 2357, F-67084 Strasbourg, France.
2
Ecole Normale Supérieure, PSL Research University, Institut de Biologie de l'Ecole Normale Supérieure, CNRS UMR 8197, INSERM U1024, F-75005 Paris, France.
3
Institut de Biologie Moléculaire de Plantes du CNRS, UPR 2357, F-67084 Strasbourg, France jean.molinier@ibmp-cnrs.unistra.fr.

Abstract

In eukaryotes, DNA repair pathways help to maintain genome integrity and epigenomic patterns. However, the factors at the nexus of DNA repair and chromatin modification/remodeling remain poorly characterized. Here, we uncover a previously unrecognized interplay between the DNA repair factor DNA DAMAGE BINDING PROTEIN2 (DDB2) and the DNA methylation machinery in Arabidopsis thaliana Loss-of-function mutation in DDB2 leads to genome-wide DNA methylation alterations. Genetic and biochemical evidence indicate that at many repeat loci, DDB2 influences de novo DNA methylation by interacting with ARGONAUTE4 and by controlling the local abundance of 24-nucleotide short interfering RNAs (siRNAs). We also show that DDB2 regulates active DNA demethylation mediated by REPRESSOR OF SILENCING1 and DEMETER LIKE3. Together, these findings reveal a role for the DNA repair factor DDB2 in shaping the Arabidopsis DNA methylation landscape in the absence of applied genotoxic stress.

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