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| Status |
Public on Feb 28, 2023 |
| Title |
RNA Polymerase IV sensitizes the chromatin via histone modifications modulating protein coding genes [ChIP-Seq] |
| Organism |
Oryza sativa |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Knock down of RNA polymerase IV in rice caused pleiotropic reproductive defects. We investigated the molecular effects of loss of pol IV in different rice tissues by profiling sRNA and mRNA transcriptomes, DNA methylomes, histone modifications and degradome sequencing. These analyses revealed the multifaceted roles of RNA polymerase IV in bringing about regulation of protein coding genes.
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| Overall design |
Histone H3 PTMs (H3K4me3, H3K9me2 and H3K27me3), Pol II ChIP and total H3 were profiled genomewide using ChIP seq employing commercially available validated antibodies in the pre-emerged panicle tissues of green house grown WT and pol IV kd plants.
Histone H3K9me2 and Pol II ChIP were profiled genomewide using ChIP seq employing commercially available validated antibodies in the pre-emerged panicle tissues of green house grown WT and pol IV kd plants.
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| Web link |
https://doi.org/10.1101/gr.277353.122
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| Contributor(s) |
Padubidri S, Sundar VH, Chenna S |
| Citation(s) |
37277199 |
| |
| Submission date |
Jul 18, 2021 |
| Last update date |
Jun 06, 2023 |
| Contact name |
Shivaprasad Padubidri V. |
| E-mail(s) |
shivaprasad@ncbs.res.in
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| Phone |
+91 80 2366 6511
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| Organization name |
National Center for Biological Sciences
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| Department |
Plant epigenetics
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| Street address |
GKVK Campus, Bellary road
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| City |
Bangalore |
| ZIP/Postal code |
560065 |
| Country |
India |
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| Platforms (1) |
| GPL19290 |
Illumina HiSeq 2500 (Oryza sativa) |
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| Samples (23)
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| This SubSeries is part of SuperSeries: |
| GSE180457 |
RNA Polymerase IV sensitises the chromatin via histone modifications modulating protein coding genes |
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| Relations |
| BioProject |
PRJNA747804 |
| SRA |
SRP328826 |
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