|
| Status |
Public on Apr 12, 2020 |
| Title |
BL21(DE3)_heatshock_40h |
| Sample type |
RNA |
| |
|
| Source name |
42°C, time=40h
|
| Organism |
Escherichia coli BL21(DE3) |
| Characteristics |
culture medium: Modified R (minimal medium)
cell density in od600: 2.11
temperature: 42°C
time: 40h
|
| Treatment protocol |
Culture broth (4.0 × 10e8 cells) was immediately mixed with two volumes of RNAprotect Bacteria Reagent (Qiagen, Düsseldorf, Germany).
|
| Growth protocol |
Chemostat cultures were grown in glucose-limited defined medium with the dilution rate of 0.1 h-1. The temperature was shifted from 37°C to 42°C within 3.5 min.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was prepared using a mirVana miRNA Isolation Kit (Thermo Fisher Scientific Inc., Waltham, MA, USA), per the manufacturer’s instruction. Any contaminating DNA was digested with Turbo DNase (Applied Biosystems, Austin, TX, USA) for 30 minutes at 37C and then removed using the filter cartridges supplied with the mirVana miRNA Isolation Kit.
|
| Label |
Cy3
|
| Label protocol |
The resulting RNA was directly labeled with Cy3 using a Label IT µArray Labeling Kit (Mirus, Madison, WI, USA), per the manufacturer’s instruction.
|
| |
|
| Hybridization protocol |
The fragmented and labeled RNA was hybridized with the tiling array for 17 hours at 65°C.
|
| Scan protocol |
After the hybridization and wash steps described in the array manufacturer’s instructions, arrays were scanned using an Agilent DNA microarray Scanner (Agilent Technologies).
|
| Data processing |
Signal intensity and local background were determined using Feature Extraction software (Agilent Technologies).
|
| |
|
| Submission date |
Apr 03, 2020 |
| Last update date |
Apr 13, 2020 |
| Contact name |
Sung Ho Yoon |
| Organization name |
Konkuk University
|
| Department |
Department of Bioscience and Biotechnology
|
| Street address |
120 Neungdong-ro, Gwangjin-gu
|
| City |
Seoul |
| ZIP/Postal code |
05029 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL22919 |
| Series (1) |
| GSE148034 |
Time series of Escherichia coli BL21(DE3) after temperature upshift from 37°C to 42°C, tiling arrays |
|
