Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA384645 | ENA |
REPOSITORIES: ENA
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Project description:The phytohormone abscisic acid (ABA) induces senescence and facilitates nutrient reuse, which are essential for increasing stress tolerance. Senescence controls plant aging and is closely associated with crop yield and quality. It is a complicated process finely tuned by multiple layers of control. A significant proportion of ABA-responsive genes and cis-elements are targeted by H3K27me3 modification that is mediated by Polycomb group proteins (PcGs); however, the interplay between the major epigenetic machinery and the central stress hormone is poorly understood. Both pathways influence the transcription of thousands of genes, and the dynamic and quantitative epigenomic and transcriptomic changes cannot be characterized with high confidence. This issue is further complicated by the redundant roles of PcG components. This article revealed an intriguing mechanism of the interplay between ABA and PcG in regulating plant senescence, based on the integration of genetic evidence and quantitative comparison of epigenomic data derived from a purpose-developed computational model. We observed that >30% of ABA-induced genes are up-regulated in a double mutant of H3K27me3 methyltransferases CLF and SWN; and the double mutant, but not single-gene mutants, is hyper-sensitive to ABA treatment. Importantly, ABA-triggered H3K27me3 reduction preferentially occurred in regions around senescence-associated genes (SAGs), which are redundantly repressed by CLF and SWN in normal conditions. Furthermore, we revealed that the presence of H3K27me3 surrounding SAGs does not block ABA-induced SAG expression, but rather limits the extent of the induction, thereby preventing an over-sensitive response within a dynamic environment. These findings may serve as a paradigm for the crosstalk between the rapid-effect of phytohormone and the long-term effect of epigenetic machinery in regulating plant environmental responses through modulations of the senescence process.
2018-12-14 | GSE98301 | GEO
Project description:The Polycomb Group (PcG) proteins form two protein complexes, PcG Repressive Complex 1 (PRC1) and PRC2, which are key epigenetic regulators in eukaryotes. PRC2 represses gene expression by catalyzing the trimethylation of histone H3 lysine 27 (H3K27me3). In Arabidopsis (Arabidopsis thaliana), CURLY LEAF (CLF) and SWINGER (SWN) are two major H3K27 methyltransferases and core components of PRC2, playing essential roles in plant growth and development. Despite their importance, genome-wide binding profiles of CLF and SWN have not been determined and compared yet. In this study, we generated transgenic lines expressing GFP-tagged CLF/SWN under their respective native promoters and used them for ChIP-seq analyses to profile the genome-wide distributions of CLF and SWN in Arabidopsis seedlings. We also profiled and compared the global H3K27me3 levels in wild-type (WT) and PcG mutants (clf, swn, and clf swn). Our data show that CLF and SWN bind to almost the same set of genes, except that SWN has a few hundred more targets. Two short DNA sequences, the GAGA-like and Telo-box-like motifs, were found enriched in the CLF and SWN binding regions. The H3K27me3 levels in clf, but not in swn, were markedly reduced compared with WT; and the mark was undetectable in the clf swn double mutant. Further, we profiled the transcriptomes in clf, swn, and clf swn, and compared with that in WT. Thus this work provides a useful resource for the plant epigenetics community for dissecting the functions of PRC2 in plant growth and development.
2019-01-28 | GSE108960 | GEO
Project description:Arabidopsis clf/swn mutant is able to form somatic embryos under the proper treatment conditions. In order to get more information about the process, we compared the expression profiles of wt and clf/swn in absence of treatment, Injury, Auxin, and Auxin+Injury treatments
2017-01-10 | GSE81166 | GEO
Project description:H3K27 tri-methylation analysis of meristematic tissue (Me) and young leaves (Le) isolated by manual dissection of clv3-9 plants
| PRJNA133489 | ENA
Project description:Expression data from Col, brm-1, clf-29 and brm-1 clf-29 14-d-old seedlings
| PRJNA232494 | ENA
Project description:Genome-wide profiling of trimethylated histone H3 lysine 27 (H3K27me3) in wide-type, brm, clf, and brm clf mutant seedlings
| PRJNA232493 | ENA
Project description:Genome-wide analysis reveals CLF-regulated transcripts in Arabidopsis
| PRJNA188296 | ENA
Project description:identification of the mis-regulated genes in mkk3 under aba treatment.-MKK3-ABA
| PRJNA254514 | ENA