|
| Status |
Public on Sep 01, 2008 |
| Title |
tumor_13d_2 |
| Sample type |
RNA |
| |
|
| Source name |
Ustilago maydis infected corn plant
|
| Organism |
Mycosarcoma maydis |
| Characteristics |
Tumors induced in corn plants by an infection with the two wildtype Ustilago maydis strains FB1 and FB2 to measure the gene expression in U. maydis during biotrophic growth
|
| Biomaterial provider |
Miroslav Vranes, Mario Scherer and Jörg Kämper
|
| Growth protocol |
Corn plants (Sweet corn variety Early Golden Bantam) were grown in soil "Fruehstorfer Erde Typ T" in a Conviron E15 phytochamber, 10 h 20°C dark, 14 h at 28°C with light (four lamps type M400U and fourlamps type LU400). 7 d old plants were infected with a mixture of strains FB1 and FB2, as described in "Brachmann, A., Weinzierl, G., Kämper, J. & Kahmann, R. Identification of genes in the bW/bE regulatory cascade in Ustilago maydis. Mol Microbiol 42, 1047-63. (2001)". Tumours were harvested at day 13 post infection.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the TRIZOL-reagent (Invitrogen) according to the manufacturer’s instructions. RNA samples were further column purified (Qiagen RNeasy) and the quality checked using a Bioanalyzer with a RNA 6000 Nano LabChip kit (Agilent).
|
| Label |
biotin/phycoerythrin
|
| Label protocol |
Target preparation was performed according to the standard Affymetrix protocol using the Enzo BioArray RNA transcript labeling kit, except for a reaction temperature of 50°C for first-strand cDNA synthesis.
|
| |
|
| Hybridization protocol |
Affymetrix EukGE-WS2 on a GeneChip Fluidics Station 400
|
| Scan protocol |
Affymetrix GCS2500
|
| Description |
Gene expression during biotrophic growth
|
| Data processing |
MAS5.0
|
| |
|
| Submission date |
Sep 10, 2006 |
| Last update date |
Sep 08, 2007 |
| Contact name |
Jörg Thomas Kämper |
| E-mail(s) |
joerg.kaemper@kit.edu
|
| Phone |
+49 721 608 5670
|
| Organization name |
Karlsruhe Institute of Technology
|
| Department |
Department for Applied Biosciences
|
| Street address |
Hertzstrasse 16, Geb. 06.40
|
| City |
Karlsruhe |
| ZIP/Postal code |
76187 |
| Country |
Germany |
| |
|
| Platform ID |
GPL3681 |
| Series (1) |
| GSE5804 |
Gene expression during biotrophic growth |
|
