Transcriptomics

Dataset Information

597

RNA-seq of Arabidopsis rosette leaves at four time points (29, 35, 42, and 57 day) during developmental senescence


ABSTRACT: The genome-wide abundance of two histone modifications, H3K4me3 and H3K9ac, both associated with actively expressed genes, was monitored in Arabidopsis thaliana leaves at different time points during developmental senescence, along with expression in the form of RNA-seq data. H3K9ac and H3K4me3 marks were highly convergent at all stages of leaf aging, but H3K4me3 marks covered nearly twice the gene area as H3K9ac marks. Genes with the greatest fold-change in expression displayed the largest positively-correlated percent change in coverage for both marks. Most senescence up-regulated genes were pre-marked by H3K4me3 and H3K9ac, but at levels below the whole-genome average, and for these genes, gene expression increased without a significant increase in either histone mark. However, for a subset of genes showing increased or decreased expression, the respective gain or loss of H3K4me3 marks were found to closely match the temporal changes in mRNA abundance. 22% of genes that increased expression during senescence showed accompanying changes in H3K4me3 modification, and they include numerous regulatory genes, which may act as primary response genes. RNA-seq data at different stages of leaf aging.

REANALYSED by: E-GEOD-67777

ORGANISM(S): Arabidopsis thaliana  

SUBMITTER: Fayha Tariq   Ana Rus-Canterbury  Judy Brusslan  Giancarl Bonora  Artur Jaroszewicz  Matteo Pellegrini 

PROVIDER: E-GEOD-67777 | ArrayExpress | 2015-04-11

SECONDARY ACCESSION(S): GSE67777SRP057076PRJNA280870

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

A Genome-Wide Chronological Study of Gene Expression and Two Histone Modifications, H3K4me3 and H3K9ac, during Developmental Leaf Senescence.

Brusslan Judy A JA   Bonora Giancarlo G   Rus-Canterbury Ana M AM   Tariq Fayha F   Jaroszewicz Artur A   Pellegrini Matteo M  

Plant physiology 20150323 4


The genome-wide abundance of two histone modifications, H3K4me3 and H3K9ac (both associated with actively expressed genes), was monitored in Arabidopsis (Arabidopsis thaliana) leaves at different time points during developmental senescence along with expression in the form of RNA sequencing data. H3K9ac and H3K4me3 marks were highly convergent at all stages of leaf aging, but H3K4me3 marks covered nearly 2 times the gene area as H3K9ac marks. Genes with the greatest fold change in expression dis  ...[more]

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