|
| Status |
Public on Jan 11, 2015 |
| Title |
3flc/SVP.LD.Apex.r1 |
| Sample type |
RNA |
| |
|
| Source name |
flc-/SVP+ 2 weeks Short Days + 2 Long days-ZT8-Apex
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
developmental stage: 2 weeks old short days
treatment: additional 2 long days
tissue: Apex
cultivar: Columbia
|
| Treatment protocol |
Plants were collected either after two weeks growing in short days or transfered to two days to long days. All genotypes were collected at ZT8.
|
| Growth protocol |
Plants were grown on soil in short days at 22°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the RNA Plant Mini kit, QIAGEN from leaves and apices.
|
| Label |
biotin
|
| Label protocol |
Total RNA samples (150 ng) were reverse transcribed into double-stranded cDNA and then in vitro transcribed in the presence of biotin-labeled nucleotides using the GeneChip 3′ IVT Express kit (Affymetrix; 901229) including poly(A) controls as recommended by the manufacturer. The quality and quantity of the biotinylated cRNA were determined using NanoDrop ND 1000 and Bioanalyzer 2100. Biotin-labeled cRNA samples (15 μg) were fragmented randomly to 35 min. at 94°C in fragmentation buffer (Affymetrix).
|
| |
|
| Hybridization protocol |
Biotinylated cRNA samples were mixed in 250 μL of Hybridization Mix (Affymetrix; 900720) containing Hybridization Controls and Control Oligonucleotide B2 (Affymetrix; 900454). Samples were hybridized onto Affymetrix AGRONOMICS1 Arabidopsis tiling arrays for 16 h at 45°C. Arrays were then washed using an Affymetrix Fluidics Station 450 using the FS450_0004 protocol.
|
| Scan protocol |
An Affymetrix GeneChip Scanner 3000 was used to measure the fluorescence intensity emitted by the labeled target.
|
| Data processing |
The raw data (CEL files) were subjected to RMA.
|
| |
|
| Submission date |
May 07, 2014 |
| Last update date |
Jan 11, 2015 |
| Contact name |
Julieta Mateos |
| E-mail(s) |
jmateos@leloir.org.ar
|
| Phone |
+054 11 5238-7500
|
| Organization name |
Max Planck Institute for Plant Breeding Research
|
| Department |
Department of Plant Developmental Biology
|
| Lab |
Control of Flowering Time
|
| Street address |
Carl-von-Linné-Weg 10
|
| City |
Cologne |
| ZIP/Postal code |
D-50829 |
| Country |
Germany |
| |
|
| Platform ID |
GPL18660 |
| Series (1) |
| GSE57416 |
Combinatorial activities of SHORT VEGETATIVE PHASE and FLOWERING LOCUS C define distinct modes of flowering regulation in Arabidopsis |
|
