|
| Status |
Public on May 11, 2012 |
| Title |
Methylation Changes in Soybean Early Maturation Seed Parts |
| Organism |
Glycine max |
| Experiment type |
Methylation profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Seeds are comprised of three majors parts of distinct parental origin: the seed coat, embryo, and endosperm. The maternally-derived seed coat is important for nurturing and protecting the seeds during development. By contrast, the embryo and the endosperm are derived from a double fertilization event, where one sperm fertilizes the egg to form the diploid zygote and the other sperm fertilizes the central cell to form the triploid endosperm. Each seed parts undergo distinct developmental programs during seed development. What methylation changes occurring in the different seed parts, if any, remains unknown. To uncover the possible role of DNA methylation in different parts of the seed, we characterized the methylome of three major parts of an early maturation stage seed: seed coat, embryonic cotyledons, and embryonic axis using Illumina sequencing.
|
| |
|
| Overall design |
Illumina sequencing of bisulfite-converted genomic DNA, transcripts, and small RNAs from three parts of an early maturation stage seed: seed coat (EM-SC), embryonic cotyledons (EM-COT), and embryonic axis (EM-AX).
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| |
|
| Contributor(s) |
Goldberg RB, Chen M, Lin J, Le BH |
| Citation(s) |
29078418 |
| |
| Submission date |
May 10, 2012 |
| 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 (10)
|
| GSM929633 |
Early maturation-stage embryonic cotyledons |
| GSM929634 |
Early maturation-stage embryonic axis |
| GSM1213855 |
Early maturation-stage seed coat [RNA-seq] |
| GSM1213856 |
Early maturation-stage embryonic cotyledons [RNA-seq] |
| GSM1213857 |
Early maturation-stage embryonic axis [RNA-seq] |
| GSM1213858 |
Early maturation-stage seed coat [small-RNA] |
| GSM1213859 |
Early maturation-stage embryonic cotyledons [small-RNA] |
| GSM1213860 |
Early maturation-stage embryonic axis [small-RNA] |
| GSM2417691 |
Early maturation-stage seed coat biological replicate 1 |
| GSM2417692 |
Early maturation-stage seed coat biological replicate 2 |
|
| Relations |
| SRA |
SRP012991 |
| BioProject |
PRJNA165677 |
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