|
| Status |
Public on Oct 17, 2014 |
| Title |
treatment,biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Bacillus subtilis in response to rice seedlings
|
| Organism |
Bacillus subtilis |
| Characteristics |
treatment: in response to rice seedlings
|
| Treatment protocol |
50 ml 106 cfu/ml B. subtilis OKB105 suspensions incubating with 30 rice seedlings for 2 h were harvested for following microarray analysis, and OKB105 cells that without interacting with rice were used as control.
|
| Growth protocol |
B. subtilis OKB105 was grown in LB at 37℃for 12 h. Cells were harvested by centrifugation at 8000 rpm for 15 min at 4℃, resuspended in distilled water and adjusted to a final concentration of 106 cfu ml-1.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the Bacterial RNA Kit according to the manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
A total of 1000ng of total RNA was labelled using the Genisphere HSR labelling Kit.
|
| |
|
| Hybridization protocol |
Complex probes were hybridized to eachGeneChip® B. subtilisGenome Array according to the manufacturer's recommendations (Affymetrix).
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000.
|
| Description |
Gene expression data from Bacillus subtilis in response to rice seedlings
|
| Data processing |
Scanned images of microarray chips were analyzed using Expression Console (Affymetrix) with the default settings. Raw data were processed using different algorithms. Detected Above Background algorithm (DABD) and RMA Background Adjustment algorithm were performed in order to remove the background value.
|
| |
|
| Submission date |
Oct 16, 2014 |
| Last update date |
Oct 17, 2014 |
| Contact name |
Shanshan Xie |
| Organization name |
Anhui agricultural university
|
| Street address |
No.130 changjiang west road
|
| City |
hefei |
| State/province |
anhui |
| ZIP/Postal code |
230036 |
| Country |
China |
| |
|
| Platform ID |
GPL343 |
| Series (1) |
| GSE62421 |
Transcriptome profiling of Bacillus subtilis OKB105 in response to rice seedlings |
|
