ArticleBMC plant biology2015
Global nucleosome positioning regulates salicylic acid mediated transcription in Arabidopsis thaliana.
Article in BMC plant biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 21 citations in OpenAlex.
- Next-generation mapping of the salicylic acid signaling hub and transcriptional cascade.Molecular plant · 2024Article
- Next-generation mapping of the salicylic acid signaling hub and transcriptional cascade.bioRxiv : the preprint server for biology · 2024Article
- Integrative transcriptomics reveals association of abscisic acid and lignin pathways with cassava whitefly resistance.BMC plant biology · 2023Article
- Plant Promoters and Terminators for High-Precision Bioengineering.Biodesign research · 2023Review
- Early wound-responsive cues regulate the expression of WRKY family genes in chickpea differently under wounded and unwounded conditions.Physiology and molecular biology of plants : an international journal of functional plant biology · 2022Article
- DhMYB2 and DhbHLH1 regulates anthocyanin accumulationFrontiers in plant science · 2022Article
- Immunity onset alters plant chromatin and utilizes EDA16 to regulate oxidative homeostasis.PLoS pathogens · 2021Article
- FITNESS Acts as a Negative Regulator of Immunity and Influences the Plant Reproductive Output AfterFrontiers in plant science · 2021Article
- Isolation of Open Chromatin Identifies Regulators of Systemic Acquired Resistance.Plant physiology · 2019Article
- Ethylene Response Factor ERF11 ActivatesPlant physiology · 2019Article
- Variation of gene expression in plants is influenced by gene architecture and structural properties of promoters.PloS one · 2019Article
- Genome-wide chromatin mapping with size resolution reveals a dynamic sub-nucleosomal landscape in Arabidopsis.PLoS genetics · 2017Article
- Auxin regulates functional gene groups in a fold-change-specific manner in Arabidopsis thaliana roots.Scientific reports · 2017Article
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Authors and funding
8 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe nucleosome positioning regulates the gene expression and many other DNA-related processes in eukaryotes. Genome-wide mapping of nucleosome positions and correlation of genome-wide nucleosomal remodeling with the changes in the gene expression can help us understanding gene regulation on genome level.
resultsIn the present study, we correlate the gene expression and the genomic nucleosomal remodeling in response to salicylic acid (SA) treatment in A. thaliana. We have mapped genome-wide nucleosomes by performing tiling microarray using 146 bp mononucleosomal template DNA. The average nucleosomal coverage is approximately 346 bp per nucleosome both under the control and the SA-treated conditions. The nucleosomal coverage is more in the coding region than in the 5' regulatory regions. We observe approximately 50% nucleosomal remodeling on SA treatment where significant nucleosomal depletion and nucleosomal enrichment around the transcription start site (TSS) occur in SA induced genes and SA repressed genes respectively in response to SA treatment. Especially in the case of the SA-induced group, the nucleosomal remodeling over the minimal promoter in response to SA is especially significant in the Non-expresser of PR1 (NPR1)-dependent genes. A detailed investigation of npr1-1 mutant confirms a distinct role of NPR1 in the nucleosome remodeling over the core promoter. We have also identified several motifs for various hormonal responses; including ABRE elements in the remodeled nucleosomal regions around the promoter region in the SA regulated genes. We have further identified that the W-box and TGACG/C motif, reported to play an important role in SA-mediated induction, are enriched in nucleosome free regions (NFRs) of the promoter region of the SA induced genes.
conclusionsThis is the first study reporting genome-wide effects of SA treatment on the chromatin architecture of A. thaliana. It also reports significant role of NPR1 in genome-wide nucleosomal remodeling in response to SA.
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