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| Status |
Public on May 31, 2006 |
| Title |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, MnSO4.H2O Stress Response |
| Organism |
Halobacterium salinarum NRC-1 |
| Experiment type |
Expression profiling by array
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| Summary |
Given that transition metals are essential cofactors in central biological processes, misallocation of the wrong metal ion to a metalloprotein can have resounding and often detrimental effects on diverse aspects of cellular physiology. Therefore, in an attempt to characterize unique and shared responses to chemically similar metals we have reconstructed physiological behaviors of Halobacterium NRC-1, an archaeal halophile, in sub-lethal levels of Mn(II), Fe(II), Co(II), Ni(II), Cu(II) and Zn(II). Over 20% of all genes responded transiently within minutes of exposure to Fe(II), perhaps reflecting immediate large scale physiological adjustments to maintain homeostasis. At steady state, each transition metal induced growth arrest, attempts to minimize oxidative stress, toxic ion scavenging, increased protein turnover and DNA repair, and modulation of active ion transport. While several of these constitute generalized stress responses, up regulation of active efflux of Co(II), Ni(II), Cu(II), and Zn(II), down regulation of Mn(II) uptake and up regulation of Fe(II) chelation, confer resistance to the respective metals. We have synthesized all these discoveries into a unified systems level model to provide an integrated perspective of responses to six transition metals with emphasis on experimentally verified regulatory mechanisms. Finally, through comparisons across global transcriptional responses to different metals we provide insights into putative in vivo metal selectivity of metalloregulatory proteins and demonstrate that a systems approach can help rapidly unravel novel metabolic potential and regulatory programs of poorly studied organisms.
Keywords: stress response, dose response, gene knockout
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| Overall design |
8 samples were analyzed. Each sample was dye-swapped (2 replicates per condition) and hybridized against a standard control.
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| Contributor(s) |
Baliga NS, Pan M, Kaur A, Meislin M, Facciotti MT, El-Geweley R |
| Citation(s) |
16751342 |
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| Submission date |
May 23, 2006 |
| Last update date |
Jan 15, 2017 |
| Contact name |
Michael Hiroshi Johnson |
| E-mail(s) |
mjohnson@systemsbiology.org
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| Phone |
(206) 732-1319
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| Fax |
(206) 732-1299
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| URL |
http://db.systemsbiology.net/users/mjohnson/
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| Organization name |
Institute for Systems Biology
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| Department |
Computational Biology
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| Lab |
Hood Lab
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| Street address |
1441 North 34th Street
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| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98103 |
| Country |
USA |
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| Platforms (1) |
| GPL3739 |
ISB Halobacterium Spotted Microarray |
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| Samples (16)
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| GSM109431 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set A, 0.0mM MnSO4.H2O, Array 08886 |
| GSM109432 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set A, 0.0mM MnSO4.H2O, Array 08887 |
| GSM109433 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set B, 0.0mM MnSO4.H2O, Array 08888 |
| GSM109434 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set B, 0.0mM MnSO4.H2O, Array 08889 |
| GSM109435 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set A, 0.8mM MnSO4.H2O, Array 08890 |
| GSM109436 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set A, 0.8mM MnSO4.H2O, Array 08891 |
| GSM109437 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set B, 0.8mM MnSO4.H2O, Array 08892 |
| GSM109438 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set B, 0.8mM MnSO4.H2O, Array 08893 |
| GSM109439 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set A, 1.0mM MnSO4.H2O, Array 08894 |
| GSM109440 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set A, 1.0mM MnSO4.H2O, Array 08895 |
| GSM109441 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set B, 1.0mM MnSO4.H2O, Array 08896 |
| GSM109442 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set B, 1.0mM MnSO4.H2O, Array 08897 |
| GSM109443 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set A, 1.5mM MnSO4.H2O, Array 08898 |
| GSM109444 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set A, 1.5mM MnSO4.H2O, Array 08899 |
| GSM109445 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set B, 1.5mM MnSO4.H2O, Array 08900 |
| GSM109446 |
Halobacterium NRC-1, ura3 Knockout, sirR Knockout, Set B, 1.5mM MnSO4.H2O, Array 08901 |
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| This SubSeries is part of SuperSeries: |
| GSE4925 |
Halobacterium NRC-1 response to sub-lethal levels of Mn(II), Fe(II), Co(II), Ni(II), Cu(II) and Zn(II) |
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| Relations |
| BioProject |
PRJNA104483 |
| Supplementary data files not provided |
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