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Autumn-winter progression triggers distinct transcriptional programmes in Arabidopsis thaliana

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE283018 | GEO | 2026/09/10

REPOSITORIES: GEO

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Autumn-winter progression triggers distinct transcriptional programmes in Arabidopsis thaliana (RNA-seq)

Project description:Plants must properly integrate noisy temperature signals to monitor seasonal progression. However, the global regulatory landscape underlying cold acclimation and adaption of plants to noisy and fluctuating natural cold conditions remain poorly investigated. Here, we perform a deep-coverage RNA-seq to investigate the transcriptome dynamics of Arabidopsis thaliana plants grown over weeks of a fluctuating temperature regime, mimicking natural cold conditions of autumn and early winter, or grown using an average daily temperature profile without any temperature fluctuations. We show that progressive cold induces three main patterns of transcriptional response: dynamic-, cooling- and chilling-responsive gene activation. Progressive cold induces a complex network of regulators that could be responsible for the regulation of distinct transcriptional programs. Surprisingly, we find only small differences in cold-responsive gene expression between average and fluctuating conditions. We also highlight that temperature before time is the principal driver of cold transcriptional reprogramming. By combining RNA-seq and ATAC-seq data, we observe that the induction of cold-responsive genes is associated with an increase of promoter accessibility whereas down-regulated genes do not lose accessibility, allowing plants to rapidly reactivate transcription after the return of favourable conditions.

2026-09-10 | GSE283016 | GEO