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Cold stress induced dynamic chromatin accessibility facilitate histone reorganization and transcription factor recruitment in Arabidopsis.

ABSTRACT: Plants are exposed to various environmental stresses, such as cold temperatures, that can impact growth and development. In plants, numerous genes, and pathways responsive to cold stress have been identified, suggesting dynamic changes in chromatin architecture and epigenetic modifications. Here, we used Nicking Enzyme-assisted Sequencing (NicE-seq) to investigate the dynamic changes in chromatin accessibility in Arabidopsis plants under cold stress. We show significant alterations in chromatin accessibility and histone reorganization upon cold stress without impacting gene expression. Interestingly, a subset of downregulated genes displayed highly accessible chromatin regions. This downregulation is likely mediated by CBFs/DREB1 transcription factor binding to the first exons of target genes. Specifically, our data suggests that CBF1, CBF2 and CBF3 transcription factors play a critical role in regulating the downregulation of genes in highly accessible chromatin regions during cold stress. These findings provide a novel insight into the dynamic changes in the genome-wide chromatin landscape in response to cold stress involving chromatin accessibility that facilitates position-dependent transcription factors binding for targeted gene expression regulation.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE266313 | GEO | 2026/05/01

REPOSITORIES: GEO

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