|
| Status |
Public on Dec 31, 2014 |
| Title |
DyvrHG vs WT |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
DyvrHG mid-exp
|
| Organism |
Bacillus cereus ATCC 14579 |
| Characteristics |
genotype/variation: delta-yvrHG
|
| Growth protocol |
B. cereus delta-yvrHG cells were grown to mid-exponential growth phase (OD600 = 0.5-0.6) (BHI, 30 degrees Celcius, 200 rpm).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted as described by Van Schaik et al., 2007
|
| Label |
Cy5
|
| Label protocol |
Complementary DNA was synthesized and labeled using 15 μg of total RNA, and the CyScribe Post-Labeling kit (Amersham Biosciences Europe GmbH) according to the supplier's instructions.
|
| |
|
| Channel 2 |
| Source name |
WT mid-exp (iii)
|
| Organism |
Bacillus cereus ATCC 14579 |
| Characteristics |
genotype/variation: ATCC 14579 (WT)
|
| Growth protocol |
B. cereus ATCC 14579 (WT) cells were grown to mid-exponential growth phase (OD600 = 0.5-0.6) (BHI, 30 degrees Celcius, 200 rpm).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted as described by Van Schaik et al., 2007
|
| Label |
Cy3
|
| Label protocol |
Complementary DNA was synthesized and labeled using 15 μg of total RNA, and the CyScribe Post-Labeling kit (Amersham Biosciences Europe GmbH) according to the supplier's instructions.
|
| |
|
| |
| Hybridization protocol |
The target was denatured by boiling for 1 min and immediate cooling on ice prior to hybridization. A total of 300ng of both samples was mixed and applied with the Agilent hybridization buffer to the microarray, according to the Agilent manual. Hybridization was performed at 60 °C. The slide was washed according to the Agilent microarray wash protocol.
|
| Scan protocol |
Microarrays were scanned with the Agilent DNA Microarray Scanner, Model G2565BA using the extended dynamic range scan mode, according to the Agilent protocol.
|
| Description |
No extra description.
|
| Data processing |
Lowess-normalization, performed with Agilent Feature Extract software.
|
| |
|
| Submission date |
Oct 12, 2009 |
| Last update date |
Dec 31, 2014 |
| Contact name |
Mark de Been |
| Organization name |
Wageningen UR
|
| Department |
Agrotechnology and Food Sciences Group
|
| Lab |
Laboratory of Food Microbiology
|
| Street address |
Bomenweg 2
|
| City |
Wageningen |
| ZIP/Postal code |
6703 HD |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL8114 |
| Series (1) |
| GSE18523 |
Phylogenetic footprinting and transcriptome profiling reveal new roles for two Bacillus cereus two-component systems |
|
