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MetabolomicsIntegrating two chromatographies in a co-fractionation mass spectrometry approach improved protein-metabolite interactions (PMIs) mapping capabilities and revealed novel protein-ligand pairings in Escherichia coli.
The protein-metabolite interactome remains understudied. We previously developed a co-fractionation mass-spectrometry-based approach called PROMIS to address this gap. PROMIS relies on size separation chromatography of protein-metabolite complexes from lysates, followed by proteomics and metabolomic...
2025-04-25 | MTBLS9098 | MetaboLights
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
MetabolomicsOn-line untargeted metabolomics monitoring of an Escherichia coli succinate fermentation process
The real-time monitoring of metabolites (RTMet) is instrumental for the industrial production of biobased fermentation products. This study shows the first application of untargeted on-line metabolomics for the monitoring of undiluted fermentation broth samples taken automatically from a 5 L bioreac...
2023-04-26 | MTBLS5197 | MetaboLights
MetabolomicsNon-targeted in vitro metabolomics for proteome-scale identification of novel enzymes in Escherichia coli
Many yet undiscovered enzymes still limit our understanding of metabolism. Here, we develop a high-throughput mass spectrometry approach to comprehensively profile proteome-scale protein collections for in vitro enzymatic activity. Overexpressed or purified proteins are incubated in a supplemented m...
2016-01-11 | MTBLS373 | MetaboLights
MetabolomicsRecombinant Production of Biliverdin IXβ and δ Isomers in the T7 Promoter Compatible Escherichia coli Nissle
The ability to obtain purified biliverdin IX (BVIX) isomers other than the commercially available BVIXα is limited due to the low yields obtained by the chemical coupled oxidation of heme. Chemical oxidation requires toxic chemicals, has very poor BVIX yields (<0.05%), and is not conducive to scalab...
2021-12-16 | MTBLS3555 | MetaboLights
MetabolomicsExometabolomic-enabled discovery of compounds associated with Escherichia coli O157:H7 population dynamics in the lettuce phyllosphere

Contamination of fresh produce with human pathogens remains a serious public health and economic concerns due to the absence of effective kill steps in the farm-to-fork chain. In particular, the pathogenic Escherichia coli O157:H7 has been implicated in multiple illness outbreaks linked to lettuc...

2026-06-11 | MTBLS14653 | MetaboLights
MetabolomicsHelicobacter pylori infection promotes TMAO accumulation through Escherichia coli enrichment with gut–liver circadian disruption and hepatic metabolic injury
Helicobacter pylori (H. pylori) infection is associated with metabolic dysfunction-associated steatotic liver disease, but the microbial changes and circadian disturbances accompanying distal hepatic injury remain unclear. In specific pathogen-free (SPF) mice exposed to dietary choline, H. pylori in...
2026-09-18 | MTBLS15673 | MetaboLights
ProteomicsOptimization of a heterologous pathway for protocatechuate catabolism in Escherichia coli
Optimization of a heterologous pathway for protocatechuate catabolism in Escherichia coli
ORGANISM(S): Escherichia Coli (ncbitaxon:562) 
2017-05-30 | MSV000081122 | MassIVE
MetabolomicsBioplatforms Australia: Antibiotic Resistant Sepsis Pathogens Framework Initiative (Escherichia coli assays)

The Antibiotic Resistant Sepsis Pathogens Framework Initiative aims to develop a framework dataset of 5 sepsis pathogens (5 strains each) using an integrated application of genomic, transcriptomic, metabolomic and proteomic technologies. The pathogens included in this initiative are: Escheric...

2022-08-03 | MTBLS2015 | MetaboLights
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
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