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Series GSE151449 Query DataSets for GSE151449
Status Public on May 30, 2020
Title The Arabidopsis epigenetic regulator ICU11 as an accessory protein of Polycomb Repressive Complex 2
Organism Arabidopsis thaliana
Experiment type Methylation profiling by high throughput sequencing
Summary Molecular mechanisms enabling the switching and maintenance of epigenetic states are not fully understood. Distinct histone modifications are often associated with ON/OFF epigenetic states, but how these states are stably maintained through DNA replication, yet in certain situations switch from one to another remains unclear. Here, we address this problem through identification of Arabidopsis INCURVATA11 (ICU11) as a Polycomb Repressive Complex 2 accessory protein. ICU11 robustly immunoprecipitated in vivo with PRC2 core components and the accessory proteins, EMBRYONIC FLOWER 1 (EMF1), LIKE HETEROCHROMATIN PROTEIN1 (LHP1) and TELOMERE_REPEAT_BINDING FACTORS (TRBs). ICU11 encodes a 2-oxoglutarate dioxygenase, an activity associated with histone demethylation in other organisms, and mutant plants show defects in multiple aspects of the Arabidopsis epigenome. To investigate its primary molecular function we identified the Arabidopsis FLOWERING LOCUS C (FLC) as a direct target and found icu11 disrupted the cold-induced, Polycomb-mediated silencing underlying vernalization. icu11 prevented reduction in H3K36me3 levels normally seen during the early cold phase, supporting a role for ICU11 in H3K36me3 demethylation. This was coincident with an attenuation of H3K27me3 at the internal nucleation site in FLC, and reduction in H3K27me3 levels across the body of the gene after plants were returned to the warm. Thus, ICU11 is required for the cold-induced epigenetic switching between the mutually exclusive chromatin states at FLC, from the active H3K36me3 state to the silenced H3K27me3 state. These data support the importance of physical coupling of histone modification activities to promote epigenetic switching between opposing chromatin states.
Overall design Examination of DNA methylation of WT and icu11-3 seedlings
Contributor(s) Bloomer R, Walker J, Feng X, Dean C
Citation(s) 32601198
Submission date May 29, 2020
Last update date Aug 03, 2020
Contact name Xiaoqi Feng
Organization name John Innes Centre
Department Cell and Developmental Biology
Lab Xiaoqi Feng
Street address Norwich Research Park
City Norwich
State/province Norfolk
ZIP/Postal code NR4 7UH
Country United Kingdom
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (2)
GSM4578156 icu11-3_seedlings_WGBS
GSM4578157 WT_seedling_WGBS
BioProject PRJNA635882
SRA SRP265266

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Supplementary file Size Download File type/resource
GSE151449_RAW.tar 433.3 Mb (http)(custom) TAR (of GFF)
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Raw data are available in SRA
Processed data provided as supplementary file

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