Integrating ATAC-Seq and Pan-Genomics Identifies Stress-Memory <i>AP2/ERF</i> Hubs in Foxtail Millet.

ABSTRACT: Foxtail millet (Setaria italica), a key cereal crop, has developed robust mechanisms to adapt to drought conditions. Investigating genes associated with drought memory is crucial for improving the plant's resilience against recurring drought events. Our study leveraged ATAC-seq and RNA-seq to reveal significant changes in chromatin accessibility and gene expression in response to secondary drought stress. The AP2/ERF transcription factor motifs were the most enriched within different chromatin regions in both leaf and root tissues. Transcriptome analysis identified 80 significantly upregulated AP2/ERF genes in foxtail millet. Pan-genome analysis of 111 accessions revealed 16,778 AP2/ERF genes, categorized into 17 groups, highlighting gene number variations acros

SUBMITTER: Li T 

PROVIDER: S-EPMC12663697 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature