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Status |
Public on Aug 15, 2013 |
Title |
Genome-enabled studies of anaerobic, nitrate-dependent Fe(II) oxidation in the chemolithoautotrophic bacterium Thiobacillus denitrificans |
Organism |
Thiobacillus denitrificans ATCC 25259 |
Experiment type |
Expression profiling by array
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Summary |
Investigation of whole genome gene expression level changes in anaerobic, nitrate-dependent Fe(II) oxidation in the chemolithoautotrophic bacterium Thiobacillus denitrificans
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Overall design |
Here we report on a study to identify genes associated with nitrate-dependent Fe(II) oxidation by whole-genome transcriptional (microarray) assays including the use of FeCO3, Fe2+, and U(IV) oxides as electron donors under denitrifying conditions. A 25 chip study using total RNA recovered from wild-type T. denitrificans was cultivated at 30oC under strictly anaerobic conditions with growth medium that contained 20 mM thiosulfate, 20 mM nitrate, and 30 mM bicarbonate (pH ~7) and exposed to 8 treatments. Each chip measures the expression level of 2832 ORFs with N 24-mer probe pairs (PM/MM) per gene, with three-fold technical redundancy.
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Contributor(s) |
Beller HR, Zhou P, Legler T, Chakicherla A, Kane SR, Letain T, O'Day P |
Citation |
Beller, H. R., P. Zhou, T. C. Legler, A. Chakicherla, S. Kane, T. E. Letain, P.O'Day. Genome-enabled studies of anaerobic, nitrate-dependent iron oxidation in the chemolithoautotrophic bacterium Thiobacillus denitrificans.Frontiers in Microbiology 4:249. doi: 10.3389/fmicb.2013.00249
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Submission date |
Apr 24, 2013 |
Last update date |
Aug 15, 2013 |
Contact name |
Anu Chakicherla |
E-mail(s) |
chakicherla1@llnl.gov
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Organization name |
Lawrence Livermore National Lab
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Street address |
7000 East Avenue, Mail Stop: L-446
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City |
Livermore |
State/province |
CA |
ZIP/Postal code |
94551 |
Country |
USA |
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Platforms (1) |
GPL3977 |
LLNL Thiobacillus denitrificans array (gene-view) |
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Samples (25)
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Relations |
BioProject |
PRJNA198860 |