|
| Status |
Public on May 09, 2012 |
| Title |
10824A_F1-3 |
| Sample type |
RNA |
| |
|
| Source name |
wild type_furfural stress
|
| Organism |
Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821 |
| Characteristics |
atcc accn: 31821
genotype/variation: wild type
cultured in: Rich media (RM) with 1.0 g/l furfural for 24hr
|
| Treatment protocol |
Z. mobilis ZM4 (ATCC31821) was cultured in Rich media (RM) with 1.0 g/l furfural added at 30°C without shaking (Goodman, Rogers, and Skotnicki, 1982).
|
| Growth protocol |
Z. mobilis ZM4 (ATCC31821) was cultured in Rich media (RM) at 30°C without shaking (Goodman, Rogers, and Skotnicki, 1982).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Two samples from Z. mobilis 24 h culture were harvested by centrifugation and the TRIzol reagent (Invitrogen) was used to extract total cellular RNA. Each total RNA preparation was further purified using NucleoSpin® RNA clean-up (MACHEREY-NAGEL, Germany) according to the manufactures’ instructions. The RNA quality was assessed by formaldehyde agarose gel electrophoresis and quantitated at OD260 and OD280 by spectrophotometer, respectively.
|
| Label |
Cy3
|
| Label protocol |
The purified RNA from each sample was used as the template to generate cDNAs while labeled with either Cy3-dUTP or Cy5-dUTP (CapitalBio).
|
| |
|
| 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 |
SAMPLE 6
|
| Data processing |
Hierarchical clustering with the average linkage method was performed with Cluster 3.0 software and the cluster result was visualized through with the Treeview software. In a comparison analysis, two class unpaired method in the Significant Analysis of Microarray software (SAM, version 3.02) was performed to identify significantly differentially expressed genes
|
| |
|
| Submission date |
May 08, 2012 |
| Last update date |
May 09, 2012 |
| Contact name |
Mingxiong He |
| E-mail(s) |
[email protected]
|
| Organization name |
Biogas Institute of Ministry of Agriculture
|
| Department |
Biomass Energy Technology Research Centre
|
| Street address |
Section 4-13, Renming Nanlu
|
| City |
Chengdu |
| State/province |
Sichuan |
| ZIP/Postal code |
610041 |
| Country |
China |
| |
|
| Platform ID |
GPL15541 |
| Series (1) |
| GSE37848 |
Transcriptome Profiling of Zymomonas mobilis under furfural stress |
|
