|
| Status |
Public on May 18, 2011 |
| Title |
stage 1 transplanted on June6 _20080812_09_st1_n1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
rice, leaf, Norin 8
|
| Organism |
Oryza sativa |
| Characteristics |
genotype: Norin 8
developmental stage: stage 1 transplanted on June6
sampling time: Aug 12, 2008, at 9 am
|
| Treatment protocol |
Rice leaves were sampled at the paddy field. Cut leaves were frozen using liquid N imeditately after sampling. 2h interval. From 7:00am on Aug.12th to 7:00 a.m. on Aug.13th.
|
| Growth protocol |
Rice plants were grown in a paddy field in Tsukuba, Japan on 2008 using a typical cultivation method. Transplanting dates were June 6, June 13, June 20, June 27 to obtain RNA from plants at different developmental stages on the sampling date.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using QIAGEN RNeasy Plant Mini Kit following manufacturer's instructions
|
| Label |
Cy3
|
| Label protocol |
400 ng of total RNA were primed with 0.6 µl of 100 µM T7 promoter primer at 65°C for 10 min, then reversed transcribed at 40°C for 2 h in the presence of 0.5ul of MMLV-RT, and 500 µM dNTP, then labelled by T7 RNA polymerase using NTP and 400 µM Cy3 CTP at 40 40°C for 2h. Labelled cRNA were purifed by columns in the Quiagen RNeasy mini kit.
|
| |
|
| Channel 2 |
| Source name |
rice, leaf, osgi
|
| Organism |
Oryza sativa |
| Characteristics |
genotype: osgi
developmental stage: stage 1 transplanted on June6
sampling time: Aug 12, 2008, at 9 am
|
| Treatment protocol |
Rice leaves were sampled at the paddy field. Cut leaves were frozen using liquid N imeditately after sampling. 2h interval. From 7:00am on Aug.12th to 7:00 a.m. on Aug.13th.
|
| Growth protocol |
Rice plants were grown in a paddy field in Tsukuba, Japan on 2008 using a typical cultivation method. Transplanting dates were June 6, June 13, June 20, June 27 to obtain RNA from plants at different developmental stages on the sampling date.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using QIAGEN RNeasy Plant Mini Kit following manufacturer's instructions
|
| Label |
Cy5
|
| Label protocol |
400 ng of total RNA were primed with 0.6 µl of 100 µM T7 promoter primer at 65°C for 10 min, then reversed transcribed at 40°C for 2 h in the presence of 0.5ul of MMLV-RT, and 500 µM dNTP, then labelled by T7 RNA polymerase using NTP and 400 µM Cy5 CTP at 40 40°C for 2h. Labelled cRNA were purifed by columns in the Quiagen RNeasy mini kit.
|
| |
|
| |
| Hybridization protocol |
825ng of labeled cRNA were used for hybridization according to manufacturer's protocol. Open-lab in rgrc in NIAS was used.
|
| Scan protocol |
Scanned on an Agilent G2505B scanner.
|
| Description |
20080812_09_st1_n1
|
| Data processing |
Images were quantified using Agilent Feature Extraction Software (version A.9.5.3.1). LOWESS normalization.
|
| |
|
| Submission date |
Oct 22, 2009 |
| Last update date |
May 20, 2011 |
| Contact name |
Takeshi Izawa |
| Organization name |
National Institute of Agrobiological Sciences
|
| Street address |
2-1-2 Kannondai
|
| City |
Tsukuba |
| State/province |
Ibaraki |
| ZIP/Postal code |
305-8602 |
| Country |
Japan |
| |
|
| Platform ID |
GPL6864 |
| Series (1) |
| GSE18685 |
Time-course in rice leaves in the field: WT (cv.Norin8) vs. osgi mutant |
|
