Global Genome Repair factors controls DNA methylation patterns in Arabidopsis

Schalk, Catherine; Molinier, Jean

doi:10.1080/15592324.2016.1253648

Cited by 3 publications

(3 citation statements)

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“…Indeed, DDB2 forms a protein complex with AGO4 and ROS1 that controls de novo DNA methylation and expression/activity of ROS1 [23, 24]. Moreover, depletions of cognate GGR factors in plants and in mammals also lead to alterations of DNA methylation profiles at particular loci [25, 26]. Collectively, these studies robustly support the idea that direct interplays between DNA repair and DNA methylation dynamics exist [3].…”

Section: Introductionmentioning

confidence: 89%

Photodamage repair pathways contribute to the accurate maintenance of the DNA methylome landscape upon UV exposure

et al. 2019

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Plants are exposed to the damaging effect of sunlight that induces DNA photolesions. In order to maintain genome integrity, specific DNA repair pathways are mobilized. Upon removal of UV-induced DNA lesions, the accurate re-establishment of epigenome landscape is expected to be a prominent step of these DNA repair pathways. However, it remains poorly documented whether DNA methylation is accurately maintained at photodamaged sites and how photodamage repair pathways contribute to the maintenance of genome/methylome integrities. Using genome wide approaches, we report that UV-C irradiation leads to CHH DNA methylation changes. We identified that the specific DNA repair pathways involved in the repair of UV-induced DNA lesions, Direct Repair (DR), Global Genome Repair (GGR) and small RNA-mediated GGR prevent the excessive alterations of DNA methylation landscape. Moreover, we identified that UV-C irradiation induced chromocenter reorganization and that photodamage repair factors control this dynamics. The methylome changes rely on misregulation of maintenance, de novo and active DNA demethylation pathways highlighting that molecular processes related to genome and methylome integrities are closely interconnected. Importantly, we identified that photolesions are sources of DNA methylation changes in repressive chromatin. This study unveils that DNA repair factors, together with small RNA, act to accurately maintain both genome and methylome integrities at photodamaged silent genomic regions, strengthening the idea that plants have evolved sophisticated interplays between DNA methylation dynamics and DNA repair.

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Section: Introductionmentioning

confidence: 89%

Photodamage repair pathways contribute to the accurate maintenance of the DNA methylome landscape upon UV exposure

et al. 2019

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“…Depletion of the cognate GGR factor, CEN2, also leads to enhanced ROS1 expression (Schalk and Molinier, ; Figure b). Interestingly CEN2 influences DDB2 homeostasis (Matsumoto et al ., ).…”

Section: Resultsmentioning

confidence: 99%

“…Elevated ROS1 expression was also detected in plants defective for the expression of the cognate GGR factors CEN2 and RAD10 (Schalk and Molinier, ). Contrary to the ddb2 mutant plants, cen2 plants exhibit hypermethylation of the MEMS in agreement with the already published model (Lei et al ., ; Williams et al ., ).…”

Section: Discussionmentioning

confidence: 99%

Dual control of ROS1‐mediated active DNA demethylation by DNA damage‐binding protein 2 (DDB2)

et al. 2017

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These authors contributed equally. SUMMARYBy controlling gene expression, DNA methylation contributes to key regulatory processes during plant development. Genomic methylation patterns are dynamic and must be properly maintained and/or re-established upon DNA replication and active removal, and therefore require sophisticated control mechanisms. Here we identify direct interplay between the DNA repair factor DNA damage-binding protein 2 (DDB2) and the ROS1-mediated active DNA demethylation pathway in Arabidopsis thaliana. We show that DDB2 forms a complex with ROS1 and AGO4 and that they act at the ROS1 locus to modulate levels of DNA methylation and therefore ROS1 expression. We found that DDB2 represses enzymatic activity of ROS1. DNA demethylation intermediates generated by ROS1 are processed by the DNA 3 0 -phosphatase ZDP and the apurinic/ apyrimidinic endonuclease APE1L, and we also show that DDB2 interacts with both enzymes and stimulates their activities. Taken together, our results indicate that DDB2 acts as a critical regulator of ROS1-mediated active DNA demethylation.

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