|
| Status |
Public on Dec 29, 2005 |
| Title |
Seasonal variation in leafy spurge crown bud gene expression (Nov 01) |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Cy 5 control sample- paradormant root buds from greenhouse-grown leafy spurge
|
| Organism |
Euphorbia esula |
| Characteristics |
Paradormant root buds
3.5 month old greenhouse-grown plants
Biotype 1984-ND001
16 hr photoperiod
Collected between 8:00 and 10:00 AM
|
| Biomaterial provider |
USDA/ARS Bioscience Research Lab, Fargo ND
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Pine tree RNA exctraction protocol:
Chang, S., J. Puryear, and J. Cairney. 1993. A simple and efficient method for isolating RNA from pine trees. Plant Mol. Biol. Rep. 11:113 116.
|
| Label |
CY5
|
| Label protocol |
Horvath DP, Soto-Suárez M, Chao WS, Jia Y, Anderson JV. Transcriptome Analysis of Paradormancy Release in Root Buds of Leafy Spurge (Euphorbia esula L.). Weed Sci. 53: 793-801. 2005.
|
| |
|
| Channel 2 |
| Source name |
CY3 ecodormant crown buds of garden-grown leafy spurge
|
| Organism |
Euphorbia esula |
| Characteristics |
Ecodormant crown buds
1.5 year old garden-grown plants
Biotype 1984-ND001
Natural lighting, supplemental watering as needed.
Collected on Nov. 3, 2001
|
| Biomaterial provider |
USDA/ARS Bioscience Research Lab, Fargo ND
|
| Growth protocol |
Plants were grown in 4 liter plastic pots that were buried to soil level in the ground.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Pine tree RNA exctraction protocol:
Chang, S., J. Puryear, and J. Cairney. 1993. A simple and efficient method for isolating RNA from pine trees. Plant Mol. Biol. Rep. 11:113 116.
|
| Label |
CY3
|
| Label protocol |
Horvath DP, Soto-Suárez M, Chao WS, Jia Y, Anderson JV. Transcriptome Analysis of Paradormancy Release in Root Buds of Leafy Spurge (Euphorbia esula L.). Weed Sci. 53: 793-801. 2005.
|
| |
|
| |
| Hybridization protocol |
Horvath DP, Soto-Suárez M, Chao WS, Jia Y, Anderson JV. Transcriptome Analysis of Paradormancy Release in Root Buds of Leafy Spurge (Euphorbia esula L.). Weed Sci. 53: 793-801. 2005.
|
| Scan protocol |
Microarrays were scanned on an Affy428 scanner and spots were selected and quantified using the Jaguar 2.0 software package.
|
| Description |
NA
|
| Data processing |
Intensity data was fed into the LIMMA software package. Data was trimmed to remove all non-plant controls, blank spots, and poorly hybridizing spots (those with A-values <8.0. The remaining data points were subjected to print-tip loess normalization.
|
| |
|
| Submission date |
Dec 27, 2005 |
| Last update date |
Dec 28, 2005 |
| Contact name |
David Horvath |
| E-mail(s) |
david.horvath@ars.usda.gov
|
| Phone |
701-239-1255
|
| Organization name |
US Dept. Agriculture
|
| Department |
Agr. Research Service
|
| Lab |
Bioscience Research Lab
|
| Street address |
1605 Albrecht Blvd
|
| City |
Fargo |
| State/province |
ND |
| ZIP/Postal code |
58105 |
| Country |
USA |
| |
|
| Platform ID |
GPL2524 |
| Series (1) |
| GSE3913 |
Seasonal variation in leafy spurge crown bud gene expression |
|
