|
| Status |
Public on Nov 11, 2012 |
| Title |
nnrR mutant, SNP rep1 |
| Sample type |
RNA |
| |
|
| Source name |
R. sphaeroides nnrR mutant treated with sodium nitroprusside (SNP) replicate 1
|
| Organism |
Cereibacter sphaeroides 2.4.1 |
| Characteristics |
genotype: nnrR mutant
agent: sodium nitroprusside
|
| Treatment protocol |
Total RNA was extracted directly from the culture
|
| Growth protocol |
R. sphaeroides strains were grown semiaerobically in glass bottles in Sistom’s minimal medium A containing succinate as a carbon source at 30°C. The culture was continuously bubbled with a gas mixture of 97% N2, 2% O2, and 1% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted by a modified hot-phenol method described in J. Biol. Chem. 279:9146-9155, 2004
|
| Label |
biotin
|
| Label protocol |
cDNA synthesized from total RNA was fragmented and labeled using the Enzo BioArray terminal labeling kit
|
| |
|
| Hybridization protocol |
Target hybridization, staining, and scanning were performed according to the instructions designed for the Pseudomonas aeruginosa genome array by Affymetrix
|
| Scan protocol |
Agilent GeneArray scanner under the control of the Affymetrix GCOS
|
| Description |
Gene expression data from R. sphaeroides nnrR mutant after exposure to SNP. It is the first of two biological replicates used in this experiment, each from separate cultures.
|
| Data processing |
The Affymetrix GeneChip Operating Software was used for data acquisition and processing.
|
| |
|
| Submission date |
Nov 12, 2011 |
| Last update date |
Nov 11, 2012 |
| Contact name |
Hiroyuki Arai |
| Organization name |
The University of Tokyo
|
| Department |
Department of Biotechnology
|
| Lab |
Lab. of Applied Microbiology
|
| Street address |
Yayoi 1-1-1
|
| City |
Bunkyo-ku |
| State/province |
Tokyo |
| ZIP/Postal code |
113-8657 |
| Country |
Japan |
| |
|
| Platform ID |
GPL162 |
| Series (1) |
| GSE33641 |
Transcriptome response to nitrosative stress in Rhodobacter sphaeroides 2.4.1 |
|
