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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
MetabolomicsExploring the Glucose Fluxotype of the E. coli y-ome Using High-Resolution Fluxomics
We have developed a robust workflow to measure high-resolution fluxotypes (metabolic flux phenotypes) for large strain libraries under fully controlled growth conditions. This was achieved by optimizing and automating the whole high-throughput fluxomics process and integrating all relevant software ...
2021-05-13 | MTBLS2188 | MetaboLights
MetabolomicsMetabolomic analysis of riboswitch containing E. coli recombinant expression system
In this study we have employed metabolomics approaches to understand the metabolic effects of producing enhanced green fluorescent protein (eGFP) as a recombinant protein in Escherichia coli cells. This metabolic burden analysis was performed against a number of recombinant expression systems and co...
2017-11-16 | MTBLS393 | MetaboLights
MetabolomicsIdentification of the modifications in artificial E. coli rRNAs
Ribosome biogenesis is pivotal in the self-replication of life. In Escherichia coli, three ribosomal RNAs and 54 ribosomal proteins are synthesized and subjected to cooperative hierarchical assembly facilitated by numerous accessory factors. Realizing ribosome biogenesis in vitro is a critical miles...
2024-12-09 | MTBLS7425 | 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
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
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
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
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
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