|
| Status |
Public on Apr 25, 2013 |
| Title |
leaves des1 Na2S rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Leaves of 30 days-old plants (des1) in presence of Na2S
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype: des1
treatment: Na2S
genetic background: Col-0
tissue: leaf
age: 30 d
|
| Treatment protocol |
After growing for 20 days, plants were separated into two batches; one irrigated with water and the other with 200 mM Na2S for 10 additional days.
|
| Growth protocol |
Arabidopsis thaliana (accession Col-0) and the des1-1 mutant (SALK_103855 ) were grown in soil under a photoperiod of 16 h of white light (120 μE m-2 s-1) at 20ºC and 8 h dark at 18ºC.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was prepared using TRIzol (Invitrogen) and the RNeasy Mini Kit (Qiagen). RNA was quantified and the RNA quality was assessed with a 2100 Bioanalyzer from Agilent Technologies
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 500 ng total RNA (GeneChip 3' IVT Express Kit).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 µg of biotinylated cRNA were hybridized to Affymetrix chips (ATH1). Each sample was added to a hybridization solution containing 100mM 2-(N-morpholino)ethanesulfonic acid, 1 M Na+, and 20mM of EDTA in the presence of 0.01% of Tween-20 to a final cRNA concentration of 0.05 µg/ml. Hybridization was performed for 16 h at 45ºC . Each microarray was washed and stained with streptavidin-phycoerythrin in a Fluidics station 450 (Affymetrix).
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
|
| Description |
Gene expression data from leaves (des1) grown in presence of Na2S
|
| Data processing |
GeneChip intensities were background-corrected, normalized and sumarized by RMA method, using the “Affy” package from Bioconductor.
|
| |
|
| Submission date |
Oct 03, 2011 |
| Last update date |
Aug 15, 2018 |
| Contact name |
Cecilia Gotor |
| Organization name |
Instituto de Bioquímica Vegetal y Fotosíntesis
|
| Street address |
Avda. Américo Vespucio, 49
|
| City |
Sevilla |
| ZIP/Postal code |
41092 |
| Country |
Spain |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE32566 |
Exogenous Sulfide Reverses the Alteration of Transcriptional Profiling of the des1-1 Mutant (Arabidopsis thaliana) |
|
| Relations |
| Reanalyzed by |
GSE118579 |
