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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
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
ProteomicsProphage excision switches the primary ribosome rescue pathway and rescue-associated gene regulations in Escherichia coli
Total proteome analysis of CP4-57 prophage- and ssrA-related variants in Escherichia coli. Quantification was performed by SWATH-MS method.
ORGANISM(S): Escherichia Coli 
2022-12-07 | PXD033190 | JPOST Repository
ProteomicsThe ABCF proteins in Escherichia coli individually address "hard-to-translate" nascent peptide sequences.
Total proteome analysis data for ABC-F (YheS, YbiT, EttA, and Uup) deletion strains in Escherichia coli.
ORGANISM(S): Escherichia Coli 
2024-04-26 | PXD049710 | JPOST Repository
ProteomicsFrom coarse to fine: The absolute Escherichia coli proteome under diverse growth conditions
Accurate measurements of cellular protein concentrations are invaluable to quantitative studies of gene expression and physiology in living cells. Here, we developed a versatile mass spectrometric workflow based on data-independent acquisition proteomics (DIA/SWATH) together with a novel protein inf...
ORGANISM(S): Escherichia Coli 
2022-01-12 | PXD017258 | panorama
ProteomicsResiliance and proteome response of Escherichia coli to high levels of isoleucine mistranslation
Correct pairing of amino acids and tRNA is prerequisite for correct translation of genetic information during protein biosynthesis. Here, we present effects of proteome-wide isoleucine mistranslation in Escherichia coli induced by editing-defective isoleucyl-tRNA synthetase (IleRS). Two types of mis...
ORGANISM(S): Escherichia Coli 
2024-02-26 | PXD041341 | JPOST Repository
ProteomicsIncreased carvone production in Escherichia coli by balancing limonene conversion enzyme expression via targeted quantification concatamer proteome analysis
The cytochrome P450 limonene-6-hydroxylase (P450), cytochrome P450 reductase (CPR) and carveol dehydrogenase (CDH) were expressed in Escherichia coli for (−)-carvone production from (−)-limonene. The optimum ratio of enzyme expression to maximize (−)-carvone production was determined using the prote...
ORGANISM(S): Escherichia Coli 
2022-08-24 | PXD028077 | JPOST Repository
ProteomicsOne-dimensional capillary liquid chromatographic separation coupled with tandem mass spectrometry unveils the Escherichia coli proteome on a microarray scale.
We successfully identified the proteome expressed in Escherichia coli (E. coli) cells on a microarray scale using one-dimensional capillary liquid chromatography-tandem mass spectrometry (LC-MS/MS) with a 350 cm long, 100 microm i. d., monolithic silica-C(18) capillary column. E. coli tryptic digest...
ORGANISM(S): Escherichia Coli 
2016-07-20 | PXD004605 | JPOST Repository
TranscriptomicsTranscriptional response of steady-state Escherichia coli cultures to a glucose pulse, in order to elucidate the role of post-transcriptional regulation during carbon catabolite repression
Gene-expression measurements were made over a 60 minute time course as steady state E. coli cells were subjected to a pulse of glucose.
ORGANISM(S): Escherichia coli 
2015-06-29 | E-MTAB-2398 | biostudies-arrayexpress
ProteomicsThe effect of carbon starvation on the Escherichia coli SLE1 proteome.
The project aims at elucidating the effects of carbon starvation on the qualitative and quantitative composition of the Escherichia coli HT115-derived SLE1 strain proteome as determined by the combination of label-free and metabolic labeling-based proteomics.
ORGANISM(S): Escherichia coli HT115 Escherichia coli 
2019-11-08 | PXD003255 | Pride
Escherichia coli Silac Lfq Carbon starvation 
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