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Series GSE7885 Query DataSets for GSE7885
Status Public on May 23, 2008
Title Gene expression of E. coli MG1655 wild type and rpoS knock-out strains
Platform organism Escherichia coli K-12
Sample organism Escherichia coli
Experiment type Expression profiling by array
Summary The role of rpoS gene in the formation of Escherichia coli biofilms were investigated. The gene expression was compared among E. coli MG1655 wild type strain and rpoS knock-out strain in the biofilms, the planktonic exponential phase, and the planktonic stationary phase. The analysis revealed that the wild type bilfilms (WBF) showed similar pattern of gene expression with the WT planktonic stationary phase (WS), whereas the rpoS knock-out biofilms (MBF) showed similar pattern of gene expression with the wild type planktonic exponential phase (WE). Genes involved in the energy metabolism and the flagella synthesis showed higher expression in the rpoS knock-out biofilms (MBF), but not in the wild type biofilms (WBF). Moreover, genes involved in the stress responses showed higher expression in the wild type biofilms (WBF), but not in the rpoS knock-out biofilms (MBF).
Keywords: cell type comparison (biofilms vs planktonic cells, wild type vs rpoS knock-out strains)
 
Overall design Affymetrix E. coli antisense genome array was used to compare the gene expression among E. coli wild type and rpoS konck-out strains in the biofilms, the planktonic exponential phase, and the planktonic stationary phase. All samples were grown in MOPS minimal media with 0.2% glucose. Biofilms were grown for 72 hours on glass surface in flow cells (1x4x40 mm), and planktonic cells were grown for 8 hours (exponential phase) and 12 hours (stationary phase). Experiments were repeated 3 times, which resulted in 3 replicates of 6 different samples.
 
Contributor(s) Ito A, May T, Kawata K, Okabe S
Citation(s) 17979199
Submission date May 24, 2007
Last update date Mar 16, 2012
Contact name Akinobu Ito
E-mail(s) akito@eng.hokudai.ac.jp
Phone +81-11-706-7588
Fax +81-11-706-7588
Organization name Hokkaido University
Department Graduate School of Engineering
Lab Water Quality Control Engineering
Street address North-13, West-8, Kitaku
City Sapporo
ZIP/Postal code 060-8628
Country Japan
 
Platforms (1)
GPL199 [Ecoli_ASv2] Affymetrix E. coli Antisense Genome Array
Samples (18)
GSM194046 rpoS_biofilm_rep1
GSM194047 rpoS_biofilm_rep2
GSM194048 rpoS_biofilm_rep3
Relations
BioProject PRJNA99921

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE7885_RAW.tar 20.8 Mb (http)(custom) TAR (of CEL)
SRA Run SelectorHelp
Raw data provided as supplementary file
Processed data included within Sample table

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