|
| Status |
Public on Apr 11, 2015 |
| Title |
A Genome-wide Chronological Study of Gene Expression and Two Histone Modifications, H3K4me3 and H3K9ac, during Developmental Leaf Senescence [ChIP-seq] |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
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.
|
| |
|
| Overall design |
H3K4me3 and H3K9ac were measured on a genome-wide scale using ChIP-seq at different stages of leaf aging.
|
| |
|
| Contributor(s) |
Brusslan J, Bonora G, Rus-Canterbury A, Tariq F, Jaroszewicz A, Pellegrini M |
| Citation(s) |
25802367 |
| |
| Submission date |
Apr 10, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Judy Brusslan |
| Organization name |
California State University Long Beach
|
| Department |
Department of Biological Sciences
|
| Lab |
MLSC-203
|
| Street address |
1250 Bellflower Blvd
|
| City |
Long Beach |
| State/province |
CA |
| ZIP/Postal code |
90840 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL13222 |
Illumina HiSeq 2000 (Arabidopsis thaliana) |
|
| Samples (14)
|
|
| This SubSeries is part of SuperSeries: |
| GSE67778 |
A Genome-wide Chronological Study of Gene Expression and Two Histone Modifications, H3K4me3 and H3K9ac, during Developmental Leaf Senescence |
|
| Relations |
| BioProject |
PRJNA280871 |
| SRA |
SRP057075 |
Less...
More...