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| Status |
Public on Jul 21, 2022 |
| Title |
Integrated transcriptomics and miRNAomics provide insights into the regulatory networks associated with coleoptile senescence in rice |
| Organism |
Oryza sativa |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: To understand the transcriptional changes during coleoptile senescence, transcriptome libraries were constructed from control and senescence tissues and subjected to Illumina sequencing.
Methods: Rice seeds were surface sterilized and submerged for seven days in sterile water. The seeds with coleoptile was transferred to aerobic condition. Senescence progression was monitored and tissues of un-senesced and senesced coleoptiles were harvested. Total RNA was isolated from the harvested tissues. mRNA libraries were generated and sequenced as 101 bp paired-end reads by using Illumina Hiseq 4000.
Results: Our analysis revealed that 3166 transcripts were differentially expressed in senescing coleoptile (Day 2) samples as compared to the control. Furthermore, 44 and 273 transcripts showed specific expression in control and day 2 samples, respectively. From the functional category analysis, we observed that 197, 182, 99 and 88 transcripts belonging to signalling, transcription factors, hormone signalling and transporters respectively were differentially expressed during coleoptile senescence . And 15, 12, 3, and 6 transcripts showed senescence specific expression patterns in the transporters, transcription factors, signalling and hormone signalling categories respectively.
Conclusions: The present study has generated a comprehensive resource of the molecular networks that enrich our understanding of the fundamental pathways regulating coleoptile senescence in rice.
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| Overall design |
Transcriptome profile of coleoptile senescence in rice.
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| Contributor(s) |
Madambikattil Sasi J, VijayaKumar C, Kukreja B, Agarwal M, Katiyar Agarwal S |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Mar 22, 2022 |
| Last update date |
Jul 21, 2022 |
| Contact name |
Jyothish Madambikattil Sasi |
| E-mail(s) |
jyothishmadambi@gmail.com
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| Phone |
8800523700
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| Organization name |
University of Delhi
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| Department |
Department of Plant Molecular Biology
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| Lab |
314
|
| Street address |
BenitoJuarez Marg
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| City |
New Delhi |
| State/province |
Delhi |
| ZIP/Postal code |
110021 |
| Country |
India |
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| Platforms (1) |
| GPL23013 |
Illumina HiSeq 4000 (Oryza sativa) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA818631 |
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