|
| Status |
Public on Oct 07, 2014 |
| Title |
E. coli wt_batch_repl3 |
| Sample type |
RNA |
| |
|
| Source name |
E. coli wt grown in glucose batch minimal media, cells were harvested at exponential phase, biological rep3
|
| Organism |
Escherichia coli K-12 |
| Characteristics |
strain: E. coli BW25113 wt
|
| Growth protocol |
E. coli wt and its mutants deficient in cobB or patZ genes were grown in aerobic batch 20 mM glucose minimal media, cell were harvested at exponential phase for analysis. Also this strain and mutants were grown in glucose limited chemostat cultures (5 mM glucose) at a dilution rate of 0.2 h-1.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extraction using Vantage™ RNA Purification Kit was performed according with the manufacter instructions.
|
| Label |
biotin
|
| Label protocol |
Labelling was performed according to the Affymetrix protocol (Affymetrix, Santa Clara, CA, US)
|
| |
|
| Hybridization protocol |
The labeled, fragmented DNA was hybridized to the GeneChip E. Coli Genome 2.0 Array (Affymetrix, Santa Clara, CA) for 18 hours in a GeneChip Hybridization oven 640 at 45C with rotation (60 rpm). The hybridized samples were washed and stained using an Affymetrix fluidics station 450.
|
| Scan protocol |
After washing and staining, the probe array was scanned using Affymetrix Genechip scanner GCS3000 7G system and the software Genechip Command Console Software (AGCC)
|
| Data processing |
The intensity cell files were then imported, normalized for background correction (used RMA for normalization) with Genechip Expression Console Software
|
| |
|
| Submission date |
Oct 06, 2014 |
| Last update date |
Oct 07, 2014 |
| Contact name |
Sara Castaño Cerezo |
| Organization name |
University of Murcia
|
| Department |
Dpt. Biochemistry and Molecular Biology B and Immunology
|
| Lab |
Manuel Canovas Lab
|
| Street address |
Faculty of Chemistry. Campus de Espinardo. University of Murcia
|
| City |
Murcia |
| ZIP/Postal code |
30100 |
| Country |
Spain |
| |
|
| Platform ID |
GPL3154 |
| Series (1) |
| GSE62094 |
Lysine acetylation effect in gene expression in Escherichia coli |
|
