|
| Status |
Public on Feb 28, 2024 |
| Title |
LP 0227 microoxic 2_Götz_mannitol |
| Sample type |
RNA |
| |
|
| Source name |
phaR mutant grown in minimal medium under microoxic conditions
|
| Organism |
Bradyrhizobium diazoefficiens |
| Characteristics |
genotype: LP 0227
growth condition: microoxic
medium: Götz mannitol
|
| Treatment protocol |
No treatment was applied
|
| Growth protocol |
B. diazoefficiens cells were grown in Götz minimal medium supplemented with mannitol (Quelas et al., 2006) to mid-exponential phase (OD600 of 0.25-0.45) under microoxic conditions (0.5% O2). Cells were first grown oxically in PSY medium, washed and employed to inoculate the cultures for expression analyses at an OD600 of about 0.02
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted as described by Hauser et al. (2007) and Pessi et al. (2007)
|
| Label |
biotin
|
| Label protocol |
The fragmented cDNA was end-labeled with biotin-ddUTP using terminal dexoynucleotidyl transferase (Promega) in combination with the gene chip labeling reagent (Affymetrix). The reaction was incubated for 75 min at 37°C and stopped by the addition of 2 µl of 0.5 M EDTA
|
| |
|
| Hybridization protocol |
Hybridisation, washing, staining, and scanning were done according to the Affymetrix manual using a gene chip fluidics station 450 (Affymetrix) and a gene chip scanner 3000 (Affymetrix). For hybridization of individual gene chips, 1.8 µg of labeled cDNA were used.
|
| Scan protocol |
Standard Affymetrix procedures
|
| Description |
B. diazoefficiens phaR mutant grown microoxically in minimal medium
|
| Data processing |
Signal intensities were detected and analyzed with MAS5 statistical algorithm (http://www.affymetrix.com)
|
| |
|
| Submission date |
Dec 15, 2023 |
| Last update date |
Feb 28, 2024 |
| Contact name |
Socorro Mesa |
| E-mail(s) |
[email protected]
|
| Organization name |
CSIC
|
| Department |
Soil and Plant Microbiology
|
| Street address |
C/Profesor Albareda 1
|
| City |
Granada |
| ZIP/Postal code |
18008 |
| Country |
Spain |
| |
|
| Platform ID |
GPL3401 |
| Series (1) |
| GSE250298 |
Pleiotropic effects of PhaR regulator in Bradyrhizobium diazoefficiens microaerobic metabolism |
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