|
| Status |
Public on Feb 25, 2016 |
| Title |
Next Generation Sequencing Facilitates Small RNA Mediated Rice Resistance to Xoo |
| Organism |
Oryza sativa Japonica Group |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Purpose: The goal of this study is to identify small non-conding RNAs which are involved in rice resistance to Xoo.
Methods: Rice leaves were inoculated with the Xoo strain PXO61 at the four-leaf to five-leaf stage by the leaf-clipping method. Control rice plants were inoculated with water (mock inoculation). And then, total RNA was extracted to be sequenced using Illumina GAIIx.
Results: Using an optimized data analysis workflow to count the expression level of small ncRNA, we found several differentially expressed small ncRNA which may be participated in the interaction between rice and Xoo.
Conclusions: Small ncRNA have be found to function in a variety of biological processes. Our study here has showed that several candidate miRNA or siRNA may play a significant role in rice immunity.
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|
| Overall design |
Plants were inoculated with the Xoo strain PXO61 at the four-leaf to five-leaf stage by the leaf-clipping method. Control rice plants were inoculated with water (mock inoculation). Samples were collected before inoculation (ck) and at 2, 4, and 24 hours after PXO61 or mock inoculation from Rb49 and MDJ8. Leaf fragments approximately 2 cm in length that were immediately next to the inoculation site were collected.
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| Contributor(s) |
Hong H, Liu Y, Zhang H, Xiao J, Li X, Wang S |
| Citation(s) |
26335702 |
| |
| Submission date |
May 26, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
hanming hong |
| Organization name |
NCPGR
|
| Street address |
SHIZHISHAN
|
| City |
WUHAN |
| ZIP/Postal code |
430070 |
| Country |
China |
| |
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| Platforms (1) |
| GPL13808 |
Illumina Genome Analyzer II (Oryza sativa Japonica Group) |
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| Samples (16)
|
| GSM1695932 |
MDJ8 leaves before treatment, biological replicate 1 |
| GSM1695933 |
MDJ8 leaves with 2 hours post mock treatment |
| GSM1695934 |
MDJ8 leaves with 4 hours post mock treatment |
| GSM1695935 |
MDJ8 leaves with 24 hours post mock treatment |
| GSM1695936 |
MDJ8 leaves with 2 hours post PXO61 treatment |
| GSM1695937 |
MDJ8 leaves with 4 hours post PXO61 treatment |
| GSM1695938 |
MDJ8 leaves with 24 hours post PXO61 treatment |
| GSM1695939 |
MDJ8 leaves before treatment, biological replicate 2 |
| GSM1695940 |
Rb49 leaves before treatment |
| GSM1695941 |
Rb49 leaves with 2 hours post mock treatment |
| GSM1695942 |
Rb49 leaves with 4 hours post mock treatment, technical replicate 1 |
| GSM1695943 |
Rb49 leaves with 24 hours post mock treatment |
| GSM1695944 |
Rb49 leaves with 2 hours post PXO61 treatment |
| GSM1695945 |
Rb49 leaves with 4 hours post PXO61 treatment |
| GSM1695946 |
Rb49 leaves with 24 hours post PXO61 treatment |
| GSM1695947 |
Rb49 leaves with 4 hours post mock treatment, technical replicate 2 |
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| Relations |
| BioProject |
PRJNA284956 |
| SRA |
SRP058724 |
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