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Series GSE218234 Query DataSets for GSE218234
Status Public on Oct 18, 2023
Title Histone retention preserves epigenetic marks during heat stress-induced transcriptional memory
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Plants often experience recurrent stressful events, for example during heat waves. They can adapt to such recurrent heat stress (HS), allowing subsequent survival of more severe HS conditions. At certain genes HS induces sustained expression for several days beyond the actual HS. This transcriptional memory is associated with hyper-methylation of histone H3 lysine 4 (H3K4me3), however, how this is maintained for extended periods of time is unclear. Here, we determined histone turnover by measuring chromatin association of a HS-induced histone H3.3. Genome-wide Histone turnover was not homogenous, in particular, H3.3 was retained longer at HS memory genes compared to HS-induced non-memory genes during the memory phase. While low nucleosome turnover retained H3K4 methylation, its loss did not affect turnover, suggesting that low nucleosome turnover sustains H3K4 methylation (and not vice versa). Together, our results unveil the modulation of histone turnover as a mechanism to retain environmentally-mediated epigenetic modifications.
Overall design ChIP-seq to estimate histone turnover using pulse-labelled histone H3.3.
Contributor(s) Pratx L, Kappel C, Bäurle I
Citation(s) 37937667
Submission date Nov 17, 2022
Last update date Jan 02, 2024
Contact name Isabel Bäurle
Phone +49 331 9772647
Organization name Universität Potsdam
Department Institut für Biochemie und Biologie
Street address Karl-Liebknecht-Str. 24-25
City Potsdam
ZIP/Postal code 14476
Country Germany
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (24)
GSM6737624 GFP-1d-1
GSM6737625 GFP-1d-2
GSM6737626 GFP-1d-3
BioProject PRJNA902769

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE218234_RAW.tar 909.0 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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