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| Status |
Public on Feb 01, 2011 |
| Title |
S. oneidensis MR-1 with electrode, Fe(III)citrate and oxygen as electron acceptor |
| Organism |
Shewanella oneidensis MR-1 |
| Experiment type |
Expression profiling by array
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| Summary |
S. oneidensis MR-1 was grown with different electron acceptors: an electrode at 0.4 V vs. SHE, 50 mM Fe(III)citrate, and oxygen. The gene expression pattern for each experiment was analyzed and the differences in gene expression for the different experimental conditions were compared.
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| Overall design |
For two samples S. oneidensis was grown with a graphite anode electrode (at 0.4 V. vs. SHE) as the only electron acceptor - one sample was directly fed with 20 mM lactate, one sample was fed with lactate produced during fermentation of glucose by Lactococcus lactis. Four samples were grown anaerobically with 50 mM Fe(III)citrate as the only electron acceptor, and 20 mM lactate for 20 h. Three samples were grown aerobically with 20 mM lactate for 20 h. The same modified M4 medium was used for all samples. For RNA extraction, the biofilm was scraped off the frozen (-80°C) carbon electrode with a sterile razor blade. Biofilm-carbon sludge was combined with 7 mL ice-cold phosphate buffer saline (PBS), vortexed, sonicated at 7 W for 30 s on ice (3 repetitions), and centrifuged. For the liquid cultures, 2 mL of each culture were combined with 2 mL RNA protect, vortexed, and centrifuged at 5,500g for 10 min. The pellets were resuspended in NAES buffer (50 mM sodium acetate buffer, 10 mM EDTA and 1 % SDS at pH 5). RNA was isolated with a phenol:chloroform extraction protocol.
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| Contributor(s) |
Rosenbaum M, Bar HY, Beg Q, Angenent L |
| Citation missing |
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| Submission date |
Feb 17, 2010 |
| Last update date |
Mar 22, 2012 |
| Contact name |
Miriam Rosenbaum |
| E-mail(s) |
mr625@cornell.edu
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| Organization name |
Cornell University
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| Department |
Biological and Environmental Engineering
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| Lab |
Angenent Lab
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| Street address |
325 Riley-Robb Hall
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| City |
Ithaca |
| State/province |
NY |
| ZIP/Postal code |
14853 |
| Country |
USA |
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| Platforms (1) |
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| Samples (9)
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| Relations |
| BioProject |
PRJNA125489 |
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