|
| Status |
Public on Jul 30, 2012 |
| Title |
rice leaves under LD condition, biological rep 1 (1P-SLD) |
| Sample type |
RNA |
| |
|
| Source name |
rice leaf under LD condition at pistil/stamen primordium forming stage
|
| Organism |
Oryza sativa |
| Characteristics |
tissue: the second fully expanded leaf
strain: Nongken 58S
developmental stage: pistil/stamen primordium forming stage
light condition: LD
|
| Treatment protocol |
SD (10 h light/14 h dark) treatment was undertaken when the seedlings had grown more than five leaves. Differentiation from vegetative growth to reproductive growth was promoted after 10–12 days of SD treatment. The rice plants were divided into two groups for LD (15 h light/9 h dark) and SD treatment respectively when the inflorescences had developed to the secondary branch differentiation stage.
|
| Growth protocol |
All plants were grown under natural conditions at Wuhan University Campus.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Two μg of total RNA were used for double-stranded cDNA synthesis, then biotin-tagged cRNA was prepared using a MessageAmp™ II cRNA Amplification Kit according to the manufacturer’s instructions.
|
| |
|
| Hybridization protocol |
The resulting bio-tagged cRNA was fragmented to strands of 35–200 bases in length according to Affymetrix protocols. The fragmented cRNA was hybridized to an Affymetrix GeneChip Rice Genome Array.The hybridization was performed at 45℃ with rotation for 16 h (GeneChip Hybridization Oven 640, Affymetrix).
|
| Scan protocol |
The GeneChip arrays were washed and then stained (streptavidin-phycoerythrin) on an Affymetrix Fluidics Station 450 followed by scanning on a GeneChip Scanner 3000.
|
| Description |
081010-Rice-08290A_1P-SLD.CHP
081010-Rice-08290A_1P-SLD.CEL
Gene expression data from the second fully expanded leaf under LD condition at pistil/stamen primordium forming stage
|
| Data processing |
The data were processed using GeneChip Operating Software (GCOS 1.4). An invariant set normalization procedure was performed to normalize the different arrays using DNA-chip analyzer.
|
| |
|
| Submission date |
Jun 08, 2011 |
| Last update date |
Jul 30, 2012 |
| Contact name |
Wei Wang |
| E-mail(s) |
rego_wang@whu.edu.cn
|
| Organization name |
Wuhan Universtiy
|
| Street address |
Bayi Road
|
| City |
wuhan |
| ZIP/Postal code |
430072 |
| Country |
China |
| |
|
| Platform ID |
GPL2025 |
| Series (1) |
| GSE29820 |
Comparative Transcriptomes Profiling of Photoperiod-sensitive Male Sterile Rice Nongken 58S between Short Day and Long Day Condition |
|
