|
| Status |
Public on May 06, 2020 |
| Title |
Tol-7000(3) |
| Sample type |
RNA |
| |
|
| Source name |
PCC6803 HL tolerant, Light7000
|
| Organism |
Synechocystis sp. PCC 6803 |
| Characteristics |
strain: HL Tolerant Strain
light intensity: 7000
replicate: 3
|
| Treatment protocol |
The culture broth was mixed with an equal volume of 10% (w/v) phenol in ethanol and then centrifuged to harvest the cells at mid-log growth phase (OD730 = around 0.6). Harvested cells were immediately frozen in liquid nitrogen and stored at –80°C.
|
| Growth protocol |
The glucose-tolerant wild type strain of Synechocystis sp. PCC 6803 and PCC 6803 HL Tolerant Strain were cultivated in modified BG-11 medium. The main culture was performed using test tube (φ3 cm×20 cm, AGC Techno Glass, Shizuoka, Japan) with 30 mL modified BG11 medium at 34°C under continuous light illumination at 4000 ~ 9000 µmol m-2 s-1 by point source LED (LA-HDF158AS, HAYASHI watch-works, Tokyo, Japan). The cultures were aerated and mixed by sterile air. The light intensity (4000 ~ 9000 µmol m-2 s-1) of the present study was too high compared to other studies. Because the point source LED used in the present study was very small and all the culture broth in the test tube was not exposed by the described light intensity, the cells could grow under such HL intensity condition. The light intensity described in this paper was the highest light intensity measured by the surface of the test tube using for culture experiment.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Ambion Ribopure yeast kit (Life Technologies Co., Carlsbad, CA)
|
| Label |
Cy3
|
| Label protocol |
Fairplay III microarray labeling kit (Agilent Technologies)
|
| |
|
| Hybridization protocol |
Gene Expression Hybridization kit (Agilent Technologies)
|
| Scan protocol |
Agilent G2565CA microarray scanner (Agilent Technologies), Scan control software (Agilent Technologies), and Feature extraction software (Agilent Technologies)
|
| Description |
PCC6803 HL Tolerant Strain cultured under Light 7000 in replicate 3
|
| Data processing |
The software program Matlab 2013b (The Mathworks Inc., Natick, MA) was used for data analysis. After removing signal intensities that the Feature extraction software judged unreliable, the median of the probe signal intensities representing each ORF was defined as the gene expression level.
The median of the intensities of the 10 probes representing each ORF was defined as the expression level of the corresponding gene. Expression data was normalized by quantile normalization to compare the expression data each other.
Quantile normalized median of the probe signal intensities (see Supplemental_Data_gene_expression_ratios.xlsx).
|
| |
|
| Submission date |
May 05, 2020 |
| Last update date |
May 08, 2020 |
| Contact name |
Kenichi Ogawa |
| E-mail(s) |
[email protected]
|
| Phone |
81-90-6962-9302
|
| Organization name |
Osaka University
|
| Lab |
Metabolic Engineering Lab
|
| Street address |
1-5, Yamadaoka
|
| City |
Suita |
| State/province |
Osaka |
| ZIP/Postal code |
565-0871 |
| Country |
Japan |
| |
|
| Platform ID |
GPL24690 |
| Series (1) |
| GSE149892 |
Adaptive evolution provides a high-light stress tolerance in Synechocystis sp. PCC 6803 |
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