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| Status |
Public on Jun 16, 2022 |
| Title |
RNA Seq analysis of tolerant (BPT5204) and susceptible (TN1) variety of Oryza sativa cv. Indica under drought, pathogen, and combined stress |
| Organism |
Oryza sativa |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Climate change is affecting the unprecedented drought scenario and frequent occurrence of pathogen infection in rice. Simultaneous occurrence of these stresses could lead to more crop loss. Transcription response of genes involved in combined stress would provide relevant candidate gene to develop climate resilient rice. We report individual drought, Xoo infection and combined stress on rice. RNA Seq of contrasting genotypes BPT5204 and TN1 has revealed many candidate genes. A meta-analysis further filtered out some candidate genes which could be used for breeding programme. Several genes identified were already characterized by other groups for individual stress condition. However the genes involved in drought and pathogen infection could be further used for genetic manipulation studies in future.
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| Overall design |
Samples from four categories: control, drought, pathogen, and drought + pathogen were analysed from both BPT5204 and TN1 variety. Each sample was run in duplicate. Total number of sample analysed is 16.
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| Contributor(s) |
Pal G, Bakade R, Deshpande S, Patil SS, Dawane A, Agarwal S, Niranjan V, Prasannakumar MK, Vemanna RS |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Feb 21, 2022 |
| Last update date |
Jun 19, 2022 |
| Contact name |
Ramu Vemanna |
| E-mail(s) |
ramu.vemanna@rcb.res.in
|
| Organization name |
Regional Centre for Biotechnology
|
| Street address |
NCR Biotech Science Cluster, Faridabad
|
| City |
Faridabad |
| ZIP/Postal code |
121001 |
| Country |
India |
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| Platforms (1) |
| GPL23013 |
Illumina HiSeq 4000 (Oryza sativa) |
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| Samples (8)
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| GSM5909711 |
RNA seq of Oryzae sativa cv BPT control plants |
| GSM5909712 |
RNA seq of Oryzae sativa cv BPT in drought stress |
| GSM5909713 |
RNA seq of Oryzae sativa cv BPT in pathogen stress |
| GSM5909714 |
RNA seq of Oryzae sativa cv BPT in drought and pathogen stress |
| GSM5909715 |
RNA seq of Oryzae sativa cv TN1 control plants |
| GSM5909716 |
RNA seq of Oryzae sativa cv TN1 in drought stress |
| GSM5909717 |
RNA seq of Oryzae sativa cv TN1 in pathogen stress |
| GSM5909718 |
RNA seq of Oryzae sativa cv TN1 in drought and pathogen stress |
|
| Relations |
| BioProject |
PRJNA809028 |
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