|
| Status |
Public on Aug 22, 2010 |
| Title |
LD BC anther rep 1 |
| Sample type |
RNA |
| |
|
| Source name |
LD-CMS line, bicellular pollen stage anther, rep_1
|
| Organism |
Oryza sativa |
| Characteristics |
phenotype: male-sterile
strain: LD-CMS line
tissue: anther
developmental stage: bicellular pollen stage
|
| Treatment protocol |
Six distinct rice lines derived from cytoplasmic substitution.
|
| Growth protocol |
Plants are grown in a glasshouse under natural conditions at Tohoku University, Sendai, Japan.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from 180 anthers at the uninucleate microspore or bicellular pollen stages using RNeasy Plant Mini Kit (Qiagen) .
|
| Label |
Cy3
|
| Label protocol |
Cy3-labeled cRNA were prepared from 100 ng of total RNA using Low RNA Linear Amplification Kit (Agilent) according to manufacturer's protocol.
|
| |
|
| Hybridization protocol |
Fragmentation and hybridization was carried out with Gene Expression Hybridization Kit (Agilent). 400 ng of labeled and fragmented cRNA was hybridized to microarray using hybridization oven G2545A (Agilent), and wash step was performed with Gene Expression Wash Buffer Kit (Agilent). All operations were performed according to manufacturer's protocol.
|
| Scan protocol |
Microarrays were scanned using Agilent DNA microarray scanner G2565BA according to manufacturer's instructions.
|
| Description |
Gene expression in bicellular pollen stage anthers of the LD-CMS line
|
| Data processing |
Scanned tiff image files were analyzed with FeatureExtraction 9.5.3.1 (Agilent). Quantile normalization was done using normalizeQuantile function included in limma library of R v 2.9.1 software (R development Core team 2009).
|
| |
|
| Submission date |
Sep 10, 2009 |
| Last update date |
Feb 25, 2011 |
| Contact name |
Kinya Toriyama |
| E-mail(s) |
[email protected]
|
| Phone |
81-22-717-8830
|
| Fax |
81-22-717-8834
|
| URL |
http://www.agri.tohoku.ac.jp/bioadp/PukiWiki/index.php?English
|
| Organization name |
Tohoku University
|
| Department |
Graduate School of Agricultural Science
|
| Lab |
Laboratory of Environmental Plant Biotechnology
|
| Street address |
Tsutsumidori^Amamiyamachi, Aobaku
|
| City |
Sendai |
| State/province |
Miyagi |
| ZIP/Postal code |
981-8555 |
| Country |
Japan |
| |
|
| Platform ID |
GPL8852 |
| Series (1) |
| GSE18057 |
Global gene expression profiles among five independent cytoplasmic male sterile lines. |
|
