|
| Status |
Public on Jan 31, 2018 |
| Title |
K1_Kan, biological rep 2, technical rep 2 |
| Sample type |
RNA |
| |
|
| Source name |
K1_Kan_2b
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: K1_Kan
yeast type: wine
array: 1
block: 5
|
| Growth protocol |
Haploid (mat alpha) flor yeast strain P3-D5 (indicated after P3_Kan as it carries a KanMx cassette) and haploid wine yeast K1-280-2B (mat a) were grown in a shaken liquid culture performed at 28°C, on a synthetic media mimicking wine. Cells were harvested at 1 O.D at 600nm. As the cells are shaken flor yeast do not produce a velum, nor wine strain that cannot produce any, so that in the end they grow in a similar maner.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extraction were perform with Trizol reagent (Gibco BRL, Life Technologies), purified by isopropanol precipitation then with RNeasy kit (Qiagen).
|
| Label |
Cy3
|
| Label protocol |
Cy3-labeled cRNA was synthesized with the One color RNA Spike-In kit (Agilent Technologies) and purified with RNeasy kit (Qiagen). Quality and quantity of RNA were controlled at each step by spectrometry (NanoDrop 1000, Thermo Scientific)
|
| |
|
| Hybridization protocol |
Agilent gene expression microarrays 8x15k was used for the micro array hybridization, with one-color method. Array design is based on ID 016322 (Agilent Technologies, Santa Clara, CA, USA). A quantity of 600ng of labeled cRNA were hybridized for 17h in 65°C in a rotative hybridization oven (Corning) using the Expression Hybridization kit (Agilent Technologies, 5188-5242). Plate were washed with expression wash buffer kit (Agilent Technologies, 5188-5325 5188-5326).
|
| Scan protocol |
The array pictures were analyzed on a GenePix 4000B laser Scanner (Axon Instruments) and with the GenePix software Pro7
|
| Description |
Gene expression in sample from K1_Kan strain, biological rep 2, technical rep 2
|
| Data processing |
Data normalization and statistical analysis were performed using R 2.14.2 software and the limma package. Normalization was done by the quantile method considering all arrays
|
| |
|
| Submission date |
Jan 08, 2016 |
| Last update date |
Jan 31, 2018 |
| Contact name |
Jean-Luc Legras |
| E-mail(s) |
jean-luc.legras@inrae.fr
|
| Organization name |
INRA
|
| Department |
UMR1083, Science pour l'Oenologie
|
| Lab |
Equipe Microbiologie - Physiologie Integrative
|
| Street address |
2, place Viala
|
| City |
Montpellier cedex1 |
| ZIP/Postal code |
34060 |
| Country |
France |
| |
|
| Platform ID |
GPL16244 |
| Series (1) |
| GSE76667 |
Domestication of flor yeast: Rewiring the map kinase signaling pathway for lifestyle switching |
|
