|
| Status |
Public on Apr 02, 2016 |
| Title |
TGRH16 shoot at 30 h after GRH infestation replicate 1_Cy5 |
| Sample type |
RNA |
| |
|
| Source name |
TGRH16_pretreatment, 0 h, shoot
|
| Organism |
Oryza sativa |
| Characteristics |
cultivar: GRH4-NIL (TGRH16)
tissue: shoot
infestation: prior to GRH infestation
time: pretreatment, 0 h
|
| Growth protocol |
For gene expression analysis in shoots, rice plants were grown in a growth chamber at 25°C and 16-h light/8h dark cycle. Seedlings at the second-leaf stage were infested with 10 to 15 first- or second-instar nymphs in test tubes. Shoot samples were collected at 0 h or 30 h after GRH infestation. For gene expression analysis in leaf blades, rice seeds were sown in germination boxes, and seedlings were transplanted in a paddy field and grown under normal agricultural conditions. Upper leaf blades were excised from rice plants at booting stage and detached-leaf blades were infested with 10 to 15 first- or second-instar nymphs in test tubes. Samples were collected at 0 h or 30 h after GRH infestation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using RNeasy Plant Mini Kit (Qiagen) following manufacturer's instructions.
|
| Label |
Cy5
|
| Label protocol |
Quick Amp Labeling Kit (Agilent)
|
| |
|
| Hybridization protocol |
To prepare hybridization samples, 825 ng of Cy3-labeled cRNA and 825 ng of Cy5-labeled cRNA were mixed and fragmented at 60°C for 30 minutes. Hybridization was performed at 65°C for 17 hours using the Agilent Gene Expression Hybridization Kit. After hybridization, slides were washed according to the manufacture’s instruction.
|
| Scan protocol |
Scanned on an Agilent G2565AA scanner.
Images were quantified using Agilent Feature Extraction Software.
|
| Description |
Raw data file: TGRH16_shoot_rep1.txt
Biological replication 1 of 2, TGRH16_0 h after GRH infestation
|
| Data processing |
Software: Feature Extraction ver 9.5
|
| |
|
| Submission date |
Apr 26, 2013 |
| Last update date |
Apr 02, 2016 |
| Contact name |
Takayuki ASANO |
| E-mail(s) |
tasano@affrc.go.jp
|
| Organization name |
National Institute of Agrobiological Sciences
|
| Department |
Plant Genome Research Unit
|
| Street address |
2-1-2 Kannondai
|
| City |
Tsukuba |
| State/province |
Ibaraki |
| ZIP/Postal code |
305-8602 |
| Country |
Japan |
| |
|
| Platform ID |
GPL7252 |
| Series (1) |
| GSE46409 |
GRH-inducible genes in rice plants |
|
