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MetabolomicsHomeostasis of the biosynthetic E. coli metabolome
Metabolite concentrations vary across conditions and such metabolome changes are relevant for metabolic and gene regulation. Here, we used LC-MS/MS to explore metabolite concentration changes in Escherichia coli. We measured 101 primary metabolites in 19 experimental conditions that include v...
2022-11-02 | MTBLS4249 | MetaboLights
MetabolomicsSystematic identification of metabolites controlling gene expression in E. coli
Metabolism controls gene expression through allosteric interactions between metabolites and transcription factors. These interactions are usually measured with in vitro assays, but there are no methods to identify them at a genome-scale in vivo. Here we show that dynamic transcriptome and metabolome...
2019-08-23 | MTBLS1044 | MetaboLights
MetabolomicsMetabolomic changes in growth of E. colik at four timespoints in MOPS rich and minimum medium
Not available
ORGANISM(S): Escherichia coli 
ST002419 | MetabolomicsWorkbench
MetabolomicsNutrient environment drives strain-specific remodelling of Escherichia coli lipidomes
Background/Objectives: Escherichia coli causes more than 2.8 million infections annually and is widely used as a model organism. Despite its importance, strain-level and handling differences in E. coli lipidomes remain poorly defined. Lipid composition can reveal membrane organization, metabolic sta...
2026-09-23 | MTBLS14565 | MetaboLights
ProteomicsE. coli BW25113 proteomics in nutrient-rich and minimal medium
E. coli BW25113 growth in a nutrient-rich medium supplemented with 20 proteinogenic amino acid medium was studied and compared to growth in minimal medium. Proteome data from these experiments revealed significant differences in amino acid synthesis and transport proteins that were reduced in the nu...
ORGANISM(S): Escherichia coli 
2020-02-18 | PXD011726 | Pride
E. coli rich medium 
MetabolomicsAnalysis of Growth Phases of Enterotoxigenic Escherichia coli Reveals a Distinct Transition Phase before Entry into Early Stationary Phase with Shifts in Tryptophan, Fucose, and Putrescine Metabolism and Degradation of Neurotransmitter Precursors

Enterotoxigenic Escherichia coli (ETEC) is a major cause of diarrhea in children and adults in endemic areas. Gene regulation of ETEC during growth in vitro and in vivo needs to be further evaluated, and here we describe the full transcriptome and metabolome of ETEC dur...

2022-07-15 | MTBLS3540 | MetaboLights
TranscriptomicsRNA-seq analysis of E. coli BW25113 during exponential growth on M9 minimal medium supplemented with either glucose, xylose or glucose+xylose (glucose exponential phase)
Escherichia coli strain BW25113 carying the plasmid [pBR322 PihfB-mTagBFP PxylA-mRFP1] was grown on minimal M9 medium with either glucose (15 mM), xylose (18 mM), or a mix of glucose (6 mM) and xylose (11 mM). The scope here was to observe transcriptomic differences on glucose versus xylose and to p...
ORGANISM(S): Escherichia coli K-12 
2026-06-02 | E-MTAB-14542 | biostudies-arrayexpress
TranscriptomicsMixed Culture Gene Expression of E. coli and Pseudomonas aeruginosa grown on defined media with N-acetyl glucosamine
Transcriptional profiles of Escherichia coli MG1655 in mixed culture with Pseudomonas aeruginosa PAO1 showed a number of E. coli genes to be upregulated including purA-F and other genes associated with purine synthesis. In contrast, genes associated with pyrimidine synthesis were unaffected. Competi...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2011-11-29 | E-GEOD-26932 | biostudies-arrayexpress
TranscriptomicsEffect of acetate during Escherichia coli switch from N-Acetyl Glucosamine to Malate
This experiment was performed to challenge E. coli response to acetate when switched from N-Acetyl Glucosamine (NAG) to malate as the main substrate. Here, E. coli BW25113 strain was grown in M9 medium complemented with 15 mM NAG, The cells were grown to mid-exponential phase in shake flasks at 37...
ORGANISM(S): Escherichia coli K-12 
2026-05-12 | E-MTAB-16650 | biostudies-arrayexpress
TranscriptomicsTime series analysis of glucose-lactose diauxie: involvement of stringent response
Guanosine 3 ,5 -bispyrophosphate (ppGpp), also known as ‘‘magic spot,’’ has been shown to bind prokaryotic RNA polymerase to down-regulate ribosome production and increase transcription of amino acid biosynthesis genes during the stringent response to amino acid starvation. Because many environmenta...
ORGANISM(S): Escherichia coli 
2007-03-17 | E-GEOD-7265 | biostudies-arrayexpress
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