Omics · study · 2026
Plant-specific function of H3K9me3 as a permissive chromatin mark during Arabidopsis seed germination
Listed in NCBI GEO
Seed dormancy and germination are sequential phases, both tightly regulated by environmental and hormonal cues to ensure germination under favorable conditions.
Description
While hormonal and transcriptional regulators are well characterized, the epigenetic mechanisms governing these transitions are less understood. We profiled H3K4me3, H3K27me3, and H3K9me3 in the seeds of Arabidopsis thaliana Columbia-0 and Cape Verde Islands, representing shallow and deep dormancy, respectively, at freshly harvested (FH), after-ripened (AR), and germination-stimulated (GS) states.
H3K4me3 and H3K9me3 co-localized in euchromatic, transcriptionally active regions, whereas H3K27me3 occupied repressive domains. Histone methylation landscapes were stable from FH to AR but showed a marked H3K9me3 increase from AR to GS in association with the activation of genes related to translation, energy metabolism, and cell division. Co-marking by H3K4me3 and H3K9me3 correlated with highest transcript levels.
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During dormancy release, AR-repressed genes, including DOG1, showed targeted reductions in H3K4me3 and H3K9me3 levels. These findings support a plant-specific role of H3K9me3 as an active or permissive chromatin mark promoting transcriptional reprogramming during germination.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE305nnn/GSE305225 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE305225 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1304863 ncbi.nlm.nih.gov/bioproject/PRJNA1304863 ↗
project · from NCBI GEO
- PubMed 41907759 pubmed.ncbi.nlm.nih.gov/41907759 ↗
publication · from NCBI GEO
Topics
- Stated by source
- Arabidopsis thaliana · Genome binding/occupancy profiling by high throughput sequencing
- From keywords
- Life Sciences
- Inferred from text
- Plant biology 70%
Provenance · 1 source records, 8 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE305225 | 15 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[field].anzsrc:group:3108 | enrichment · NCBI GEO | taxonomy-embedding@1.0.0 | title+keywords+description (70%) |
| concepts[field].local:field:life-sciences | mapping · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[method].geo_series_type:genome-binding-occupancy-profiling-by-high-throughput-sequencing | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /gdstype |
| concepts[organism].NCBITaxon:3702 | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /taxon |
| description | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /summary |
| publication_date | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| title | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /title |