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TranscriptomicsSpecific growth rate dependent transcriptome profiling of Escherichia coli K12 MG1655 in accelerostat cultures
Specific growth rate dependent gene expression changes of Escherichia coli K12 MG1655 were determined by microarray and real time PCR analyses. The bacteria were cultivated on glucose limited minimal medium using the accelerostat method (A-stat), where starting from steady state conditions in a chem...
ORGANISM(S): Escherichia coli 
2010-05-22 | E-GEOD-18183 | biostudies-arrayexpress
TranscriptomicsGenome-scale reconstruction of the sigma factor network in E. coli
We report the application of single-molecule-based sequencing technology for high-throughput profiling of transcription start sites for Escherichia coli under different conditions. By obtaining sequence from 5' RACE (rapid amplification of cDNA ends) followed by deep sequencing, we generated genome-...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2014-02-05 | E-GEOD-46737 | biostudies-arrayexpress
TranscriptomicsVariation in the Genomic islands of porcine enteropathogenic E. coli strains of serogroup O45 revealed by CGH and PCR.
Background: Members of E. coli serogroup O45 are porcine enteropathogenic E. coli (PEPEC) strains which cause post-weaning diarrhea and produce characteristic attaching and effacing (A/E) lesions. Most of O45 PEPEC strains possess the locus of enterocyte effacement (LEE), encoding the virulence fact...
ORGANISM(S): Escherichia coli 
2010-05-16 | E-GEOD-17036 | biostudies-arrayexpress
TranscriptomicsComparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling [TSS-Seq]
We report the application of single-molecule-based sequencing technology for high-throughput profiling of transcription start sites for two enterobacteria: Escherichia coli and Klebsiella pneumoniae.By obtaining over fourteen billion bases of sequence from 5' RACE (rapid amplification of cDNA ends) ...
ORGANISM(S): Escherichia coli K-12 
2012-07-30 | E-GEOD-35821 | biostudies-arrayexpress
MetabolomicsGlutamate-mediated metabolic rewiring boosts CpxA/R-OmpF porin and proton motive force to resensitize antibiotic-resistant Escherichia coli to ceftazidime

Ceftazidime (CAZ) is a critically important broad-spectrum antibiotic widely used in clinical practice. However, the rapid emergence of bacterial resistance to CAZ poses a significant challenge in treating infections caused by multidrug-resistant pathogens. In this study, we employed a metabolism...

2026-01-20 | MTBLS13732 | MetaboLights
TranscriptomicsRNA sequencing in E. coli K12
Transcriptome sequencing of E.coli K12 in LB media in early exponential phase and transition to stationary phase
ORGANISM(S): Escherichia coli 
2010-10-20 | E-MTAB-387 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of E. coli K12 luxS-dependent gene regulation
The bacterial quorum-sensing autoinducer 2 (AI-2) has received intense interest because the gene for its synthase, luxS, is common among a large number of bacterial species. We have identified luxS-controlled genes in Escherichia coli under two different growth conditions using DNA microarrays. Twen...
ORGANISM(S): Escherichia coli 
2008-06-16 | E-GEOD-9582 | biostudies-arrayexpress
TranscriptomicsComparison of the nucleotide-resolution, genome-wide, 5'-end maps of the transcriptomes of Escherichia coli K12 strain BW25113 and Streptomyces coelicolor A3(2) strain M145
The differential RNA-seq data contained within this entry is complemented by global RNA-seq. S. coelicolor and E. coli reference strains were grown in batch culture with shaking. The E. coli sample was extracted during mid-exponential growth, while the S. coelicolor sample was extracted at the start...
ORGANISM(S): Escherichia coli BW25113 
2013-05-01 | E-GEOD-46507 | biostudies-arrayexpress
TranscriptomicsComparison of nucleotide-resolution, genome-wide transcriptome maps of Escherichia coli K12 strain BW25113 and Streptomyces coelicolor A3(2) strain M145.
This data contained within this entry was produced as part of a study that included differential RNA-sequencing. S. coelicolor and E. coli reference strains were grown in batch culture with shaking. The E. coli sample was extracted during mid-exponential growth, while the S. coelicolor sample was ex...
ORGANISM(S): Escherichia coli K-12 
2013-04-20 | E-GEOD-46232 | biostudies-arrayexpress
TranscriptomicsIHF and HU gene expression in E coli K12
IHF and HU are two heterodimeric nucleoid associated proteins (NAP) that belong to the same protein family but interact differently with the DNA. IHF is a sequence-specific DNA-binding protein that bends the DNA by over 160o. HU is the most conserved NAP which binds non-specifically to duplex DNA wi...
ORGANISM(S): Escherichia coli 
2011-11-30 | E-MEXP-3461 | biostudies-arrayexpress
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