|
| Status |
Public on Jan 24, 2014 |
| Title |
hsi-stage0-rC |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
col0, stage 0
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
drought stage: 0
plant line: col0
|
| Treatment protocol |
Stage 0 material was collected from plants grown under normal wtering regime to maintain soil moisture to field capacity. Stage 1 material was collected from plants with dry soil following withholding watering but before visible wilting, and stage 2 drought was collected when visible wilting observed.
|
| Growth protocol |
Plants were grown in Sunshine #4 potting mix in growth chambers with a 16-h photoperiod (200 μmol m-2s-1) at 22/20°C (day/night). Plants were watered as needed to maintain the soil moisture near field capacity and fertilized weekly with 20N:20P:20K until three-week-old.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Qiagen RNAeasy Plant Mini Kit. Each sample co-hybridized consisted of rosette leaves from four plants.
|
| Label |
Cy5
|
| Label protocol |
One µg of total RNA was labeled using Agilent's QuickAmp labeling kit for two colour microarrays following the manufacturer’s protocol and incorporated a dye swap design.
|
| |
|
| Channel 2 |
| Source name |
hsi2-2, stage 0
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
drought stage: 0
plant line: hsi2-2
|
| Treatment protocol |
Stage 0 material was collected from plants grown under normal wtering regime to maintain soil moisture to field capacity. Stage 1 material was collected from plants with dry soil following withholding watering but before visible wilting, and stage 2 drought was collected when visible wilting observed.
|
| Growth protocol |
Plants were grown in Sunshine #4 potting mix in growth chambers with a 16-h photoperiod (200 μmol m-2s-1) at 22/20°C (day/night). Plants were watered as needed to maintain the soil moisture near field capacity and fertilized weekly with 20N:20P:20K until three-week-old.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Qiagen RNAeasy Plant Mini Kit. Each sample co-hybridized consisted of rosette leaves from four plants.
|
| Label |
cy3
|
| Label protocol |
One µg of total RNA was labeled using Agilent's QuickAmp labeling kit for two colour microarrays following the manufacturer’s protocol and incorporated a dye swap design.
|
| |
|
| |
| Hybridization protocol |
Two µg of Cy5 and 2 µg of Cy3 labeled cRNA were fragmented and hybridized using the Agilent Gene Expression Hybridization Kit following the manufacturer's instructions. Each sample co-hybridized consisted of rosette leaves from four plants. Slides were washed using the Agilent Stabilization and Drying Solution following Agilent procedures.
|
| Scan protocol |
Scanned on GenePix Scanner 4000B following the manufacturer's instructions
|
| Data processing |
GeneSpring GX10 was used to normalize array data using Lowess method and to identify significantly differntially expressed genes, following a t-test.
|
| |
|
| Submission date |
Jul 13, 2012 |
| Last update date |
Jan 24, 2014 |
| Contact name |
Pierre Fobert |
| E-mail(s) |
pierre.fobert@nrc.ca, nirmala.paudel@gmail.com
|
| Organization name |
National Research Council Canada
|
| Street address |
110 Gymnasium Place
|
| City |
Saskatoon |
| ZIP/Postal code |
S7N0W9 |
| Country |
Canada |
| |
|
| Platform ID |
GPL12621 |
| Series (1) |
| GSE39347 |
Arabidopsis hsi2 vs. Col-0 Drought Arrays |
|
