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| Status |
Public on Nov 12, 2018 |
| Title |
Rice RNA secondary structurome under heat stress |
| Organism |
Oryza sativa |
| Experiment type |
Other
|
| Summary |
We used the Structure-seq2 protocol and applied it to 14-day-old rice (Oryza sativa) shoot tissue for genome-wide RNA structure probing to investigate the effect of heat stress on the RNA structurome.
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| Overall design |
We applied our newly optimized pipeline of Structure-seq2 on two weeks old rice shoot. 1 g of shoot tissue were collected right before each treatment. -/+DMS treatments (3 biological replicates for each) was applied for room temperature treatment as the control. For the heat shock treatment, −DMS and +DMS samples were similarly prepared but under 42°C. Total 12 individual libraries was labeled with unique Illumina TruSeq barcode and were sequenced by HiSeq2500.
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| Contributor(s) |
Su Z, Tang Y, Ritchey LE, Bevilacqua P, Assmann SM |
| Citation(s) |
30413617 |
| |
| Submission date |
Jul 02, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Zhao SU |
| Organization name |
The Penn State University
|
| Department |
Biology
|
| Lab |
Sarah Assmann
|
| Street address |
354 N. Frear
|
| City |
University Park |
| State/province |
PA |
| ZIP/Postal code |
16802 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL19290 |
Illumina HiSeq 2500 (Oryza sativa) |
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| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE100715 |
Genome-wide analysis of heat effect on rice transcriptome and RNA secondary structurome |
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| Relations |
| BioProject |
PRJNA392817 |
| SRA |
SRP110859 |
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