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| Status |
Public on Feb 17, 2012 |
| Title |
Expression analysis of Magnetospirillum magneticum AMB-1 WT, ΔMAI, ΔctrA, ΔdivK, and ΔctrA complemented with CtrA D51E, CtrA D51A, and an empty vector control |
| Organism |
Paramagnetospirillum magneticum AMB-1 |
| Experiment type |
Expression profiling by array
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| Summary |
Investigation of whole genome expression changes in Magnetospririllum magneticum mutants, probing the role of the CtrA regulatory pathway.
The mutants are further described in a manuscript submitted for publication at J. Bacteriology.
Developmental events across the prokaryotic life cycle are highly regulated at the transcriptional and post-translational levels. Key elements of a few regulatory networks are conserved among phylogenetic groups of bacteria, although the features controlled by these conserved systems are as diverse as the organisms encoding them. In this work, we probe the role of the CtrA regulatory network, conserved throughout the Alphaproteobacteria, in the magnetotactic bacterium, Magnetospirillum magneticum strain AMB-1, which possesses unique intracellular organization and compartmentalization. While we show that CtrA in AMB-1 is not essential for viability, it is required for motility, and its putative phosphorylation state dictates the ability of CtrA to activate the flagella biosynthesis gene cascade. Gene expression analysis of strains expressing active and inactive CtrA alleles point to the composition of the extended CtrA regulon, including both direct and indirect targets. These results, combined with a bioinformatic study of the AMB-1 genome, enabled the prediction of an AMB-1 specific CtrA binding site. Further, phylogenetic studies comparing CtrA sequences from Alphaproteobacteria in which the role of CtrA has been experimentally examined reveals an ancestral role of CtrA in the regulation of motility and suggests that its essential functions in other Alphaproteobacteria were acquired subsequently.
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| Overall design |
Total RNA was recovered from each of the wild-type and mutant strains, reverse transcribed to cDNA, fluorescently labeled, and hybridized to whole genome microarrays. The arrays contain 7 probes/gene, with the entire genome duplicated twice. In addition, the arrays contain 7 probes for 22 unannotated ORFs and tiling of a genomic region from coordinates 977403-1097027.
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| Contributor(s) |
Greene S, Komeili A |
| Citation(s) |
22467786 |
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| Submission date |
Feb 08, 2012 |
| Last update date |
May 19, 2012 |
| Contact name |
Arash Komeili |
| E-mail(s) |
komeili@berkeley.edu
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| Phone |
510-642-2140
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| Organization name |
UC Berkeley
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| Department |
Plant and Microbial Biology
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| Lab |
Komeili
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| Street address |
111 Koshland Hall #3102
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| City |
Berkeley |
| State/province |
CA |
| ZIP/Postal code |
94720 |
| Country |
USA |
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| Platforms (1) |
| GPL15199 |
NimbleGen Magnetospirillum magneticum str. AMB-1 - 4x72k custom expression array |
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| Samples (16)
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| Relations |
| BioProject |
PRJNA152467 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE35625_RAW.tar |
21.3 Mb |
(http)(custom) |
TAR (of PAIR) |
| Processed data included within Sample table |
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