Institute of Plant and Microbial Biology, Academia Sinica, Taipei 11529, Taiwan; Genome and Systems Biology Degree Program, Academia Sinica and National Taiwan University, Taipei 10617, Taiwan.
Institute of Plant and Microbial Biology, Academia Sinica, Taipei 11529, Taiwan.
Genomics. 2020 Sep;112(5):3549-3559. doi: 10.1016/j.ygeno.2020.04.006. Epub 2020 Apr 13.
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.
DNA 甲基化和组蛋白标记的表观遗传调控对植物发育至关重要。在拟南芥中，otu5 突变体表现出类似于缺磷植物的根表型改变。在低磷（Pi）条件下，H3K4 和 H3K27 三甲基化的改变与 Pi 稳态相关基因的表达有关。然而，OTU5 对表观基因组的遗传效应仍未被探索。我们评估了 Col-0 和 otu5 突变体根部的全基因组 DNA 甲基化、基因表达和组蛋白修饰。我们发现，OTU5 通过靶向局部基因组区域，以特定于上下文的方式改变 DNA 甲基化模式。我们的分析表明，otu5 中 H3K4me3 的丰度与 DNA 甲基化的变化明显相关，导致与野生型的转录差异。我们得出结论，OTU5 诱导了表观基因组之间的串扰，这些串扰共同影响了大约 7060 个基因的调控。其中，186 个与根发育相关的基因可能受到表观遗传调控。
