|
| Status |
Public on Feb 24, 2012 |
| Title |
vegetative mycelium, rep3 |
| Sample type |
RNA |
| |
|
| Source name |
vegetative mycelium
|
| Organism |
Aspergillus niger |
| Characteristics |
strain: N402
tissue source: maltose-grown sporulating sandwich cultures
culture age: 7 day-old
tissue: Vegetative mycelium
|
| Treatment protocol |
Vegetative mycelium and aerial structures were harvested from 3 and 5 separate cultures, respectively.
|
| Growth protocol |
A. niger strain N402 was grown for 7 days on minimal medium containing 25 mM maltose as sandwich colony (Wosten et al., 1991, Journal of General Microbiology 137: 2017–2023). The last 24 h it was allowed to sporulate.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction was performed using manufacturers instructions for vegetative mycelium. Aerial structures were first submersed in RNA later ICE (Ambion; www.ambion.com) and RNA was isolated using the MasterPure Yeast RNA Purification Kit (Epicentre Biotechnologies; www.epibio.com) according to Bleichrodt et al. (Studies in Mycology, 2012).
|
| Label |
biotin
|
| Label protocol |
Biotin-labeled antisense cRNA was produced from 2 μg of total RNA with the Eukaryotic One-Cycle Target Labeling kit (Affymetrix; www.affymetrix.com).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA was hybridized to Affymetrix A. niger Genome Gene chips (GPL6758). GeneChips were washed and stained in an automated process.
|
| Scan protocol |
GeneChips were scanned.
|
| Description |
M3
|
| Data processing |
Absolute values of expression were calculated from the scanned array using the Affymetrix Command Console v1.1 software. Normalization was done using the MAS5.0 algorithm using a baseline correction of the median.
|
| |
|
| Submission date |
Sep 14, 2011 |
| Last update date |
Feb 24, 2012 |
| Contact name |
R Bleichrodt |
| Organization name |
Utrecht University
|
| Street address |
Padualaan 8
|
| City |
Utrecht |
| ZIP/Postal code |
3584 CH |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL6758 |
| Series (1) |
| GSE32123 |
Expression data from Aspergillus niger comparing aerial structures with vegetative mycelium |
|
