|
| Status |
Public on Feb 14, 2011 |
| Title |
Enterococcus faecalis OG1RF wild-type Cu treatment 1 |
| Sample type |
RNA |
| |
|
| Source name |
Enterococcus faecalis OG1RF wild-type Cu treatment
|
| Organism |
Enterococcus faecalis OG1RF |
| Characteristics |
genotype: Wild-type
|
| Treatment protocol |
All Cu-treated cells were exposed for 3 hours prior to harvesting (at mid-log phase, OD600nm 1.0); the untreated cells were collected simultaneously.
|
| Growth protocol |
Enterococcus faeclis OG1RF wild-type and copY mutant were grown to mid-log phase (O.D600nm 1.0), aerobically estandar condition at 37°C in N medium (Peptone 1 % (Difco), yeast extract 0.5 % (Difco), Na2HPO4 1 % (Merck) and glucose 1 % (Oxoid). For copper treatment, cultures were grown at the same condition by adding Cu (CuSO4 0.5 mM) to the control medium.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The RNA was extracted using a Qiagen RNeasy mini kit (Qiagen). Residual contaminating genomic DNA was removed with RQ1 RNase-free DNase (Promega) treatment according to the manufacturer’s protocol. The integrity of the RNA was assessed by gel electrophoresis.
|
| 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.
|
| Description |
GEO_EFREYES2010_080625_Efae_V583_EXP_growth_medium_N_Cu_strain_E_faecalis_OG1RF_wild-type_rep1
This sample is of wild-type Enterococcus faecalis V583 exposed to Cu treatment, correspond to the first of two biological replicates used in this experiment, each from separate cultures.
|
| Data processing |
All data was processes automatically using DNASTAR software Array star 3.0. See www.dnastar.com.
Student's t-test was used to identify significantly different gene expression levels with a p<0.05 and a 4-fold magnitude of change between the average value of each gene and its corresponding reference, using the DNASTAR software Array star 3.0. See www.dnastar.com.
|
| |
|
| Submission date |
Feb 22, 2010 |
| Last update date |
Feb 14, 2011 |
| Contact name |
Mauricio Alejandro Latorre |
| E-mail(s) |
mauricio.latorre@uoh.cl
|
| Phone |
56-992783240
|
| Organization name |
Universidad de OHiggins
|
| Department |
ICI
|
| Lab |
Laboratorio de Bioingenieria
|
| Street address |
Av. Libertador Bernardo OHiggins 611
|
| City |
Rancagua |
| State/province |
VI |
| ZIP/Postal code |
2841959 |
| Country |
Chile |
| |
|
| Platform ID |
GPL10089 |
| Series (1) |
| GSE20453 |
Global transcriptional response to copper of Enterococcus faecalis wild-type and copY mutant |
|
