|
| Status |
Public on May 20, 2013 |
| Title |
S_aureus_USA300_TDZ_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
S. aureus TDZ treated
|
| Organism |
Staphylococcus aureus subsp. aureus USA300_FPR3757 |
| Characteristics |
treatment: Thioridazine
|
| Treatment protocol |
For each replicate, one part was treated with thioridazine hydrochloride (final conc. 16 mg/l), one part was treated with thioridazine hydrochloride (final conc. 16 mg/l) AND dicloxacillin (final conc. 0.125 mg/l), and the remaining part was left untreated (control). During the 30 min treatment, cultures were incubated at 37 °C with agitation.
|
| Growth protocol |
Three independent ON cultures (replicates) of S. aureus USA300 (grown aerobically in Mueller-Hinton broth at 37 °C) were diluted in Brain Heart Infusion broth in seperate flasks and grown to early exponential phase (OD600 0.2) at 37 °C with agitation. Each culture was then split in three parts and treated as described under treatment protocol.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Samples were immediately stabilized with the RNAprotect reagent (Qiagen) and total RNA was extracted by a hot acid-phenol procedure (Moazed et al. J Mol Biol. 187:399). Genomic DNA was removed with Dnase I (Roche) and the purification procedure was repeated. RNA integrity and gDNA absence was confirmed using a 2100 Bioanalyzer (Agilent).
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
|
| |
|
| Hybridization protocol |
Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.
|
| Scan protocol |
Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
|
| Data processing |
The raw data (.xys files) was preprocessed using the BioConductor Oligo package and R program language based on the Robust Multichip Average (RMA) method (Irizarry et al. Nucleic Acids Res 31:e15).
|
| |
|
| Submission date |
Jan 25, 2013 |
| Last update date |
May 20, 2013 |
| Contact name |
Mette Thorsing |
| Organization name |
University of Southern Denmark
|
| Department |
Department of Biochemistry and Molecular Biology
|
| Lab |
Microbiology
|
| Street address |
Campusvej 55
|
| City |
Odense M |
| ZIP/Postal code |
5230 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL16549 |
| Series (1) |
| GSE43759 |
Response of methicillin-resistant Staphylococcus aureus USA300 to a subinhibitory concentration of thioridazine - alone and in combination with dicloxacillin |
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