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[Pao-Yang Chen] Epigenomic regulation of OTU5 in Arabidopsis thaliana

Hsieh <em>et al</em>., 2020, Genomics

A. Enrichment analysis of DMRs of each type of DNA methylation in different genomic features
B. GO enrichment analysis of the differentially CG methylated genes between otu5 and Col-0 which are associated to root development
C. GO enrichment analysis of the differentially expressed genes between otu5 and Col-0 which are associated to root development
D. OTU5 induced cross-talks among epigenomes that altogether impacted the regulation of a small subset of genes

Epigenetic regulation by DNA methylation and histone marks is crucial to plant development. In Arabidopsis, the otu5 mutant exhibited altered root phenotypes resembling those of phosphate-deficient plants. In low phosphate (Pi) conditions, altered H3K4 and H3K27 trimethylation were associated with the expression of Pi homeostasis-related genes. However, the genetic effect of OTU5 on the epigenomes was left unexplored. We assessed genome-wide DNA methylation, gene expression and histone modifications of roots from both Col-0 and otu5 mutants. We found that OTU5 altered DNA methylation profile with a context-specific effect through targeting local genomic regions. Our analysis showed that in otu5 the abundance of H3K4me3 was clearly associated with the changes of DNA methylation, leading to the transcriptional difference from wildtype. We concluded that OTU5 induced cross-talks among epigenomes that altogether impacted the regulation of approximately 7060 genes. Of which 186 genes associated with root development were likely to be epigenetically regulated.

The first author Jo-Wei Hsieh is a Ph.D. student from Academia Sinica - NTU Genome and Systems Biology Degree Program.

Link: https://www.sciencedirect.com/science/article/pii/S0888754320300082