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| Status |
Public on Oct 28, 2021 |
| Title |
RNA-Seq analysis of different tissue-types of developing rice seed |
| Organism |
Oryza sativa |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Aleurone layer differentiation completes by 9 DAF, and most of the nutrient filling occurs between 6-21 DAF, (Wu et al., 2016a, 2016b), so we decided to use 10 DAF time point for collection of pericarp, aleurone, embryo and endosperm tissues for RNA-Seq analysis. Since aleurone is mostly single layer, and it’s almost impossible to separately collect pure pericarp and aleurone layers manually, so firstly we developed a method to collect different tissue types of developing grain through LCM and RNA extraction and Sequencing
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| Overall design |
10 ng of total RNA was used for library preparation and sequencing using Illumina HiSeq2500 platform. 3 biological replicates for each of the tissue type (pericarp, aleurone, embryo, endosperm) were used. For each sample, we obtained in between of 17-32 million reads.
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| Contributor(s) |
Ram H |
| Citation(s) |
33197257 |
| |
| Submission date |
Apr 22, 2020 |
| Last update date |
Jan 27, 2022 |
| Contact name |
Hasthi Ram |
| E-mail(s) |
hrmundel84@gmail.com
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| Organization name |
NABI (National Agri-Food Biotechnology Institute)
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| Department |
Agriculture biotechnology
|
| Lab |
Hasthi Ram
|
| Street address |
Sector 81
|
| City |
Mohali |
| ZIP/Postal code |
140306 |
| Country |
India |
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| Platforms (1) |
| GPL19290 |
Illumina HiSeq 2500 (Oryza sativa) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA627420 |
| SRA |
SRP257905 |
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