|
| Status |
Public on Jun 16, 2009 |
| Title |
Genome-wide demethylation of Arabidopsis endosperm |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Methylation profiling by high throughput sequencing
|
| Summary |
Parent-of-origin-specific (imprinted) gene expression is regulated in Arabidopsis thaliana endosperm by cytosine demethylation of the maternal genome mediated by the DNA glycosylase DEMETER, but the extent of the methylation changes is not known. Here we show that virtually the entire endosperm genome is demethylated, coupled with extensive local non-CG hypermethylation of siRNA-targeted sequences. Mutation of DEMETER partially restores endosperm CG methylation to levels found in other tissues, indicating that CG demethylation is specific to maternal sequences. Endosperm demethylation is accompanied by CHH hypermethylation of embryo transposable elements. Our findings demonstrate extensive reconfiguration of the endosperm methylation landscape that likely reinforces transposon silencing in the embryo.
Keywords: Epigenetics; bisulfite sequencing
|
| |
|
| Overall design |
Examination of DNA methylation in four Arabidopsis tissues
Description of processed data and raw data file contents can be found in the attached README.txt file
|
| |
|
| Contributor(s) |
Hsieh T, Ibarra CA, Silva P, Zemach A, Williams LE, Fisher RL, Zilberman D |
| Citation(s) |
19520962 |
| |
| Submission date |
May 01, 2009 |
| Last update date |
May 15, 2019 |
| Contact name |
Toshiro Nishimura |
| E-mail(s) |
tnish@berkeley.edu
|
| Phone |
5106429550
|
| Organization name |
University of California at Berkeley
|
| Department |
Plant and Microbial Biology
|
| Lab |
Daniel Zilberman
|
| Street address |
211 Koshland Hall
|
| City |
Berkeley |
| State/province |
CA |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL9302 |
Illumina Genome Analyzer II (Arabidopsis thaliana) |
|
| Samples (4)
|
|
| Relations |
| SRA |
SRP000824 |
| BioProject |
PRJNA116929 |
Less...
More...