|
| Status |
Public on Nov 19, 2009 |
| Title |
C58 35dpi 1 |
| Sample type |
RNA |
| |
|
| Source name |
wounded inflorescence stalk inoculated with C58 (Tumor)
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
ecotype: Ws-2
tissue: wounded inflorescence stalk segments
inoculant: inoculated with Agrobacterium tumefaciens strain C58
|
| Treatment protocol |
The base of the first emerging main inflorescence stalk (3-5 cm) of intact plants was wounded with a syringe needle and inoculated with A. tumefaciens strain C58. Agrobacteria were scratched from the surface of an agar plate with a bent pipette tip by preventing contamination with medium and evenly spread on the wounded inflorescence stalk area immediately after wounding. Inoculated plants were grown for another 35 days to develop tumors.
|
| Growth protocol |
Arabidopsis thaliana plants (ecotype WS-2) were cultivated in growth chambers under short-day conditions (8 h of light, 120 µE) at 22°C and 16°C during the dark period (16 h). Agrobacteria were grown on YEB plates over night.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted, including digestion of DNA, from plant tissue samples by using the RNeasy Plant Mini Kit according to manufacturer’s protocol (Qiagen, Hilden, Germany).
|
| Label |
biotin
|
| Label protocol |
Affymetrix protocol.
|
| |
|
| Hybridization protocol |
Affymetrix protocol.
|
| Scan protocol |
The GeneChip® Scanner 3000 7G is also controlled by GeneChip® Operating Software(GCOS).
|
| Description |
Gene expression data of reference tissue were compared with those of 35-day-old mature crown gall tissue.
|
| Data processing |
VSN (variance stabilization normalization, reference: Huber et al. (2002) Bioinformatics 18: suppl. 1, S96-S104)
|
| |
|
| Submission date |
Dec 12, 2008 |
| Last update date |
Aug 15, 2018 |
| Contact name |
Rosalia Deeken |
| E-mail(s) |
deeken@botanik.uni-wuerzburg.de
|
| Phone |
+49 931 8886121
|
| Fax |
+49 931 8886158
|
| Organization name |
University of Wuerzburg, Julius-von-Sachs-Institute
|
| Department |
Botany I; Plant Molecular Physiology & Biophysics
|
| Lab |
Prof. Hedrich
|
| Street address |
Julius-von-Sachs-Platz 2
|
| City |
Wuerzburg |
| ZIP/Postal code |
97072 |
| Country |
Germany |
| |
|
| Platform ID |
GPL198 |
| Series (2) |
| GSE13927 |
Transcriptome of mature Arabidopsis thaliana crown galls |
| GSE14106 |
Transcriptome data from inflorescence stalks of intact A. thaliana plants after infection with A. tumefaciens |
|
| Relations |
| Reanalyzed by |
GSE118579 |
