|
| Status |
Public on Jul 01, 2013 |
| Title |
Freeze Susceptible (FS); Cold Acclimated Rep 1 |
| Sample type |
RNA |
| |
|
| Source name |
Crown tissue
|
| Organism |
Triticum aestivum |
| Characteristics |
genotype: SD16169 (FS)
|
| Treatment protocol |
Cold acclimation after reaching the fourth leaf stage as described by Kenefick DG et al. in BMC Plant Biol 2002, 2:8.
|
| Growth protocol |
FR and FS plants (4 plants/pot) were grown in the green house at 22-28 oC with 14 h photoperiod. Soil water was maintained at 0.3 – 0.44 kg H2O kg-1 and plants transferred to 4 oC cold room for cold acclimation after reaching the fourth leaf stage as described by Kenefick DG et al. in BMC Plant Biol 2002, 2:8.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA isolation with Modified GSCN/CsCl Chirgwin method. Total RNA isolation Procedure (based on Chirgwin, 1979 and described in Han Kai MS thesis, South Dakota State University, 1997) Prior to submission for use in microarry analyses, RNA stored in formamide were reprecipitated with standard NaOAc/ethanol procedure, resuspended in depc-treated H2O. All samples were treated with DNase to remove any possible contaminating genomic DNA using the protocol as described for the Qiagen RNeasy kit.
|
| Label |
biotin
|
| Label protocol |
Affymetrix standard protocol
|
| |
|
| Hybridization protocol |
Affymetrix standard protocol
|
| Scan protocol |
Affymetrix standard protocol
|
| Description |
Gene expression of FS crown tissue after cold acclimation
|
| Data processing |
Eight samples were analyzed by R/Bioconductor http://www.bioconductor.org). Specifically, Robust Multi-Array Average with help of probe sequence information, which is known as gcRMA was used for microarray background correction and normalization.
|
| |
|
| Submission date |
Feb 03, 2009 |
| Last update date |
Jul 01, 2013 |
| Contact name |
Xijin Ge |
| E-mail(s) |
xijin.ge@sdstate.edu
|
| URL |
http://bioinformatics.sdstate.edu
|
| Organization name |
South Dakota State University
|
| Department |
Mathematics and Statistics
|
| Street address |
SDSU box 2220C
|
| City |
Brookings |
| State/province |
SD |
| ZIP/Postal code |
57006 |
| Country |
USA |
| |
|
| Platform ID |
GPL3802 |
| Series (1) |
| GSE14697 |
Freeze resistance basis of winter wheat mutant lines |
|
