|
| Status |
Public on Jan 01, 2017 |
| Title |
UpsM t90_1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
R. sphaeroides pBBRUpsMx2 total cells replicate 1
|
| Organism |
Cereibacter sphaeroides 2.4.1 |
| Characteristics |
genotype/variation: R. sphaeroides pBBRUpsMx2
protocol: singlet oxygen for 90 minutes
|
| Growth protocol |
R. sphaeroides strains grown under high oxygen tension or singlet oxygen stress
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were harvested either under high aeration or under sinlget oxygen stress for 90 minutes.
|
| Label |
Cy3
|
| Label protocol |
Total RNA was isolated by using the hot phenol method (Janzon et al., 1986). After DNase I treatment the RNA was purified by using mixtures of phenol-chloroform-isoamylalcohol and chloroform-isoamylacohol. The RNA was further purified by RNeasy®MinElute™ spin columns (Qiagen) following the manufacturer’s instructions.
|
| |
|
| Channel 2 |
| Source name |
R. sphaeroides 2.4.1 pBBR total cells
|
| Organism |
Cereibacter sphaeroides 2.4.1 |
| Characteristics |
genotype/variation: R. sphaeroides pBBR
protocol: singlet oxygen for 90 minutes
|
| Growth protocol |
R. sphaeroides strains grown under high oxygen tension or singlet oxygen stress
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were harvested either under high aeration or under sinlget oxygen stress for 90 minutes.
|
| Label |
Cy5
|
| Label protocol |
Total RNA was isolated by using the hot phenol method (Janzon et al., 1986). After DNase I treatment the RNA was purified by using mixtures of phenol-chloroform-isoamylalcohol and chloroform-isoamylacohol. The RNA was further purified by RNeasy®MinElute™ spin columns (Qiagen) following the manufacturer’s instructions.
|
| |
|
| |
| Hybridization protocol |
The ULSTM Fluorescent Labeling Kit for Agilent arrays (Kreatech) was used for RNA labeling and fragmentation
|
| Scan protocol |
Total RNA of three independent experiments of two different growth phases were pooled and hybridized to one array. Two arrays were hybridized with independent experimental runs. Gene chip hybridization and scanning were performed according to the specifications from Agilent.
|
| Description |
biological sample of cells grown in presence of singlet oxygen for 90 minutes 1-3
|
| Data processing |
Scanned on an Agilent High Resolution Microarray Scanner. Images were quantified using Agilent Feature Extraction Software (version A.7.5)
|
| |
|
| Submission date |
Oct 11, 2016 |
| Last update date |
Jan 01, 2017 |
| Contact name |
Gabriele Klug |
| E-mail(s) |
Gabriele.Klug@mikro.bio.uni-giessen.de
|
| Organization name |
Justus-Liebig University Gießen
|
| Department |
Molecular- and Microbiology
|
| Street address |
Heinrich-Buff-Ring 26-32
|
| City |
Gießen |
| ZIP/Postal code |
35392 |
| Country |
Germany |
| |
|
| Platform ID |
GPL22542 |
| Series (1) |
| GSE87789 |
R. sphaeroides pBBBRUpsMx2 vs. R. sphaeroides pBBR under singlet oxygen stress |
|
