|
| Status |
Public on Mar 27, 2012 |
| Title |
mock at T24 hpi, biological replicate 3 |
| Sample type |
RNA |
| |
|
| Source name |
24 hours post treatment with 0.5% gelatin suspension
|
| Organism |
Oryza sativa |
| Characteristics |
cultivar: Nipponbare
protocol: inoculated with gelatin suspension without fungal spores
test: control sample
tissue: rice leaf
|
| Treatment protocol |
Inoculations with Magnaporthe strains were performed on rice plantlets 2 wk after sowing by spraying with conidial suspensions. Rice plants were then kept for 16 h in a controlled climatic chamber at 25°C and 95% relative humidity. Plants were then transferred back to the glasshouse according to Faivre-Rampant et al. 2008 (doi: 10.1111/j.1469-8137.2008.02621.x)
|
| Growth protocol |
Plants grown in a glasshouse under a day-time temperature of 27°C, a night-time temperature of 22°C and 60% humidity.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA of each biological replicate was purified, using the TRIZOL protocol (Invitrogen, Carlsbad, CA), following the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotin-labelled cRNA targets obtained by direct in vitro transcription reaction.
|
| |
|
| Hybridization protocol |
Following fragmentation, 8 ug of cRNA were hybridized according to the GeneChip standard protocol (Eukaryotic Target Preparation, Affymetrix) on the GeneChip® Rice Genome Array.
|
| Scan protocol |
According to the GeneChip standard protocol (Eukaryotic Target Preparation, Affymetrix) using GeneArray® Scanner at the excitation wavelength of 488 nm.
|
| Description |
gene expression data from rice leaf sample inoculated with gelatin suspension without fungal spores
|
| Data processing |
The data were analysed in R 2.12.0 applying the RMA algorithm from affy package. The default settings for all normalization procedures were used as implemented in the BioConductor.
|
| |
|
| Submission date |
Jul 26, 2011 |
| Last update date |
Mar 27, 2012 |
| Contact name |
PAMELA ABBRUSCATO |
| E-mail(s) |
pamela.abbruscato@tecnoparco.org
|
| Phone |
+3903714662623
|
| Fax |
+3903714662217
|
| URL |
http://www.tecnoparco.or/ricegenomics
|
| Organization name |
PARCO TECNOLOGICO PADANO
|
| Department |
RICE GENOMICS UNIT
|
| Street address |
via Einstein
|
| City |
LODI |
| State/province |
LO |
| ZIP/Postal code |
26900 |
| Country |
Italy |
| |
|
| Platform ID |
GPL2025 |
| Series (1) |
| GSE30941 |
Rice gene global expression analysis upon inoculation with different Magnaporthe isolates |
|
