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Series GSE11486 Query DataSets for GSE11486
Status Public on Dec 13, 2008
Title Transcriptional profiles of Salmonella typhimurium wt, hfq and smpB mutants in four different growth conditions
Platform organism Salmonella enterica
Sample organism Salmonella enterica subsp. enterica serovar Typhimurium
Experiment type Expression profiling by array
Summary S. typhimurium 14028 wt, hfq and smpB were harvested from log phase LB (LBlog); (2), stationary phase LB (LBstat); (3) 4h MgM medium pH 5.0 after resuspension of LB stat culture (MgMshock); and (4) log phase MgM medium pH5.0 after 100fold dilution of an LB stat culture (MgMDil). Total RNA was extracted, cDNA labeled and hybridized to a non-redundant Salmonella whole genome PCR product ORF array.
 
Overall design S. typhimurium 14028 cells were harvested, on three separate days, (1), after growth at 30°C to log phase in LB (LBlog); (2), after growth at 30°C to stationary phase in LB (LBstat); (3) after transfer of a stationary phase culture grown in LB into magnesium-deficient MgM medium [100 mM Tris-Cl, 5 mM KCl, 7.5 mM (NH4)2SO4, 0.5 mM K2SO4, 1 mM KH2PO4, 0.2% glycerol, 0.1% Casamino acids, 8uM MgCl2] pH 5.0 and growth for four more hours at 30°C (MgMshock); (4) after 100fold dilution of a stationary phase culture grown in LB into magnesium-deficient MgM medium pH5.0 and growth at 30°C to log phase (MgMDil). This procedure was performed on (A), wild type [WT] cells; (B), cells of an hfq- (STM4361) knockout mutant; and (C), cells of an smpB- (STM2688) knockout mutant, resulting in 36 samples total. Total RNA was extracted, cDNA labeled with Cy5-dCTP and hybridized versus Cy3-labeled 14028 gDNA to a non-redundant Salmonella whole genome PCR product ORF array.
 
Contributor(s) Porwollik S, Yoon H, Heffron F, Cheng P, McClelland M
Citation(s) 19277208
Submission date May 16, 2008
Last update date Mar 19, 2012
Contact name Michael McClelland
E-mail(s) mcclelland.michael@gmail.com
Phone 858-336-9554
Organization name University of California, Irvine
Department Microbiology & Molecular Genetics
Street address 132 Med Surge I
City Irvine
State/province CA
ZIP/Postal code 92697
Country USA
 
Platforms (1)
GPL6868 Salmonella enterica 17K STv7bSws_MMCC
Samples (36)
GSM289174 FH_RDE2_14028s_hfq_LBlog_1_7DS505
GSM289175 FH_RDE2_14028s_hfq_LBlog_2_7DS513
GSM289176 FH_RDE2_14028s_hfq_LBlog_3_7DS535
Relations
BioProject PRJNA106413

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Supplementary data files not provided
Processed data included within Sample table
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