|
| Status |
Public on Dec 22, 2011 |
| Title |
Methylation Changes During Soybean Seed Development |
| Organism |
Glycine max |
| Experiment type |
Methylation profiling by high throughput sequencing
|
| Summary |
What methylation changes are occurring during seed development largely remains unknown. To uncover the possible role of DNA methylation throughout all of seed development - from fertilization through dormancy and post-germination in soybean, we characterized the methylome of whole seeds representing the differentiation (GLOB and COT stages), maturation (early- [EM], mid- [B1] and late- [AA1] maturation stages), dormancy (DRY stage), and post-germination (seedling) phases of soybean seed development using Illumina sequencing. In addition, we characterized the methylome of the cotyledons of germinated seedling to examine methylation differences before and after germination.
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| |
|
| Overall design |
Illumina sequencing of bisulfite-converted genomic DNA from globular stage (GLOB), cotyledon-stage (COT), early-maturation stage (EM), mid-maturation stage (B1), and late-maturation stage (AA1), pre-dormancy stage 1 (AA2), pre-dormancy stage 2 (AA3), dormancy stage (DRY) seeds, and post-germination seedling (SDLG), seedling cotyledons (SDLG-COT).
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| |
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| Contributor(s) |
Goldberg RB, Chen M, Lin J, Le BH |
| Citation(s) |
29078418 |
| |
| Submission date |
Dec 21, 2011 |
| Last update date |
Jul 19, 2019 |
| Contact name |
Bob Goldberg |
| E-mail(s) |
bobglab@mcdb.ucla.edu
|
| Phone |
310-825-3270
|
| Organization name |
University of California, Los Angeles
|
| Department |
Molecular, Cell and Developmental Biology
|
| Street address |
610 Charles E Young Drive East
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL15008 |
Illumina HiSeq 2000 (Glycine max) |
|
| Samples (18)
|
| GSM852274 |
Globular stage whole seed |
| GSM852275 |
Early-maturation stage whole seed |
| GSM852278 |
Late-maturation stage whole seed biological replicate 1 |
| GSM852279 |
Dry seed Biological replicate 1 |
| GSM1008196 |
Seedling biological replicate 1 |
| GSM1008197 |
Cotyledon of seedling biological replicate 1 |
| GSM1392187 |
Cotyledon stage whole seed |
| GSM1707334 |
Dry seed biological replicate 2 |
| GSM1707335 |
Pre-dormancy stage 2 whole seed |
| GSM1707336 |
Pre-dormancy stage 1 whole seed |
| GSM1707337 |
Late-maturation stage whole seed biological replicate 2 |
| GSM1707338 |
Late-maturation stage whole seed biological replicate 3 |
| GSM1707339 |
Seedling biological replicate 2 |
| GSM1707340 |
Seedling biological replicate 3 |
| GSM1707341 |
Cotyledon of seedling biological replicate 2 |
| GSM1707342 |
Cotyledon of seedling biological replicate 3 |
| GSM2417602 |
Mid-maturation stage whole seed biological replicate 1 |
| GSM2417603 |
Mid-maturation stage whole seed biological replicate 2 |
|
| Relations |
| SRA |
SRP010037 |
| BioProject |
PRJNA151265 |
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