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| Status |
Public on Jan 06, 2019 |
| Title |
Differential gene expression analysis of drought responsive sense and antisense genes in Populus |
| Organism |
Populus trichocarpa |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
In this study we employ a strand-specific RNA-seq appoach and stranded gene expression analysis tools to identify drought responsive antisense gene loci and sense-antisense gene pairs in Populus. we generated and sequenced 28 strand-specific cDNA libraries derived from either leaf or root tissues of Populus trichocarpa plants associaed with both short-term drought (24 hours of water stress of 40% of field capacity) and long-term drought ( 25 days of water stress of 40% of field capacity) . We mapped over 71 billion nucleotides to Populus genome. Our data demonstrates that with the current sequence depth ~ 19 % of Populus genome undergoes antisense transcription subjected to drought regulation. All in all we have identified that in root tissues 524 differentially expressed antisense genes and 247 drought-responsive SA gene pairs which are significantly regulated by drought (padj <0.05). Taken all data from both drought treatments, we have identified 1185 unique drought-responsive antisense gene loci and 606 drought-responsive SA gene pairs (padj <0.05).
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| Overall design |
strand-specific RNA libraies are constructed from apex and mature leaves of plants invoved in short-term drought or apex, young leaves, mature leaves and root tissue of Populus plants involved in long-term drought. RNA libraries are sequenced with illumina Hiseq 2500.
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| Contributor(s) |
Yuan Y |
| Citation(s) |
29876646 |
| Submission date |
Apr 06, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Yinan Yuan |
| E-mail(s) |
yinyuan@mtu.edu
|
| Phone |
9064871835
|
| Organization name |
Michigan Technological University
|
| Department |
School of Forest Resources and Environmental Science
|
| Street address |
UJ Noblet 100B, 1400 townsend drive
|
| City |
Houghton |
| State/province |
MICHIGAN |
| ZIP/Postal code |
49931 |
| Country |
USA |
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| Platforms (1) |
| GPL23263 |
Illumina HiSeq 2500 (Populus trichocarpa) |
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| Samples (28)
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| Relations |
| BioProject |
PRJNA381918 |
| SRA |
SRP103219 |
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