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Series GSE13589 Query DataSets for GSE13589
Status Public on Apr 01, 2009
Title Gene expression of E. coli MG1655 pOX38Km at the outside and inside of biofilms
Organism Escherichia coli
Experiment type Expression profiling by array
Summary Gene expression changes between outside and inside of biofilms were investigated. The gene expression was compared between the outside and inside of the biofilms. At the same time, the gene expressions were also compared with exponential phase and stationary phase in planktonic cells. The gene expression analysis showed that the physiological activities were higher at the outside of the biofilms than those at the inside of the biofilms. The genes induced at the ouside of the biofilms included genes involved in the stress responses and adhesions.

Keywords: different growth phase
 
Overall design Affymetrix GeneChip E. coli Genome 2.0 Array was used to compare the gene expression among biofilms (outside and inside) and planktonic cells (exponential phase and stationary phase). All samples were grown in MOPS minimal media with 0.2% glucose at 37ÂșC. Biofilms were grown on glass surface in flow cells (1 x 4 x 40 mm), and samples were taken at 72 h. Planktonic cell were grown for 6 h (exponential phase) and 24 h (stationary phase). Experiments were repeated 3 times, which resulted in 3 replicates of 4 different samples.
 
Contributor(s) Ito A, Taniuchi A, May T, Kawata K, Okabe S
Citation(s)
  • Ito A, May T, Taniuchi A, Kawata K et al. Localized expression profiles of rpoS in Escherichia coli biofilms. Biotechnol Bioeng 2009 Aug 1;103(5):975-83. PMID: 19288441
Submission date Nov 13, 2008
Last update date Mar 08, 2019
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)
GPL3154 [E_coli_2] Affymetrix E. coli Genome 2.0 Array
Samples (12)
GSM341911 Biofilm_Inside_rep1
GSM341912 Biofilm_Inside_rep2
GSM341913 Biofilm_Inside_rep3
Relations
BioProject PRJNA110697

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

Supplementary file Size Download File type/resource
GSE13589_RAW.tar 19.1 Mb (http)(custom) TAR (of CEL, DCP)
Processed data included within Sample table
Processed data provided as supplementary file

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