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MetabolomicsA general non-self response as part of plant immunity
Plants, like other multicellular lifeforms, are colonized by microorganisms. How plants respond to their microbiota is currently not well understood. We used a phylogenetically diverse set of 39 endogenous bacterial strains from Arabidopsis thaliana leaves to assess host transcriptional and metaboli...
2021-09-13 | MTBLS2522 | MetaboLights
MetabolomicsUntargeted extraction of metabolites 13C labeling profiles from time course labeling switch experiment
Dynamic isotope labeling data provide crucial information about the operation of metabolic pathways, and are commonly generated via liquid chromatography mass spectrometry (LC-MS). Metabolome-wide analysis is challenging as it requires grouping of metabolite features over different samples. We devel...
2015-10-19 | MTBLS228 | MetaboLights
MetabolomicsUntargeted extraction of metabolites 13C labeling profiles from time course labeling switch experiment
Dynamic isotope labeling data provide crucial information about the operation of metabolic pathways, and are commonly generated via liquid chromatography mass spectrometry (LC-MS). Metabolome-wide analysis is challenging as it requires grouping of metabolite features over different samples. We devel...
2015-10-19 | MTBLS229 | MetaboLights
MetabolomicsUntargeted metabolomics links glutathione to bacterial cell cycle progression
Cell cycle progression requires the coordination of cell growth, chromosome replication, and division. Consequently, a functional cell cycle must be coupled with metabolism. However, direct measurements of metabolome dynamics remained scarce, in particular in bacteria. Here, we describe an untargete...
2020-10-15 | MTBLS1402 | MetaboLights
ProteomicsA synthetically methylotrophic Escherichia coli as a chassis for bioproduction
Proteome characterization of three E. coli strains: a methanol-dependent strain (MEvo1-0) and two synthetically methylotrophic strains (MEcoli_ref_1, MEcoli_ref_2)
ORGANISM(S): Escherichia coli 
2024-02-08 | PXD046243 | Pride
Synthetic biology Metabolic engineering Synthetic methylotrophy Biotechnology E. coli 
ProteomicsDynamic character displacement among a pair of bacterial phyllosphere commensals in situ
Differences between species promote stable coexistence in a resource-limited environment. These differences can result from interspecies competition leading to character shifts, a process referred to as character displacement. While character displacement is often interpreted as a consequence of gen...
ORGANISM(S): Rhizobium sp. Leaf68 Sphingomonas sp. Leaf257 
2022-05-26 | PXD026619 | Pride
Sphingomonas Phyllosphere Dynamic character displacement Rhizobium Proteomics 
ProteomicsLanthanide response of the obligate methylotroph Methylobacillus flagellatus and discovery of lanpepsy, a novel lanthanide-binding protein
Lanthanides were recently discovered as metals required in the active site of certain methanol dehydrogenases. Since then, the characterization of the lanthanome, i.e. all proteins involved in sensing, uptake, and utilization of lanthanides, has become an active field of research. Initial exploratio...
ORGANISM(S): Methylobacillus flagellatus KT 
2023-01-31 | PXD032828 | Pride
Lanthanides Methylotroph Proteomics 
ProteomicsTransposon sequencing uncovers an essential regulatory function of phosphoribulokinase for methylotrophy
Methylotrophy is the ability of organisms to grow at the expense of reduced one-carbon compounds such as methanol or methane. Here, we used transposon sequencing combining hyper-saturated transposon mutagenesis with high-throughput sequencing to define the essential methylotrophy genome of Methyloba...
ORGANISM(S): Methylobacterium extorquens PA1 
2017-07-11 | PXD006834 | Pride
Methylobacterium extorquens pa1 Lc-ms/ms Label-free quantification 
ProteomicsUse of rare-earth elements in the phyllosphere colonizer Methylobacterium extorquens PA1
Until recently, rare-earth elements (REEs) had been thought to be biologically inactive. This view changed with the discovery of the methanol dehydrogenase (Mdh) XoxF that strictly relies on REEs for its activity. Some methylotrophs only contain xoxF, while others, including the model phyllosphere c...
ORGANISM(S): Methylobacterium extorquens PA1 
2019-01-21 | PXD011842 | Pride
Rare earth metals Arabidopsis Methanol Ion transport Proteomics Methylobacterium extorquens 
ProteomicsGeneration of an Escherichia coli strain growing on methanol as sole energy and carbon source via the ribulose monophosphate cycle
The increasing demand for non-food competitive carbon sources such as methanol for biotechnology has brought methanol-utilizing bacteria, so-called methylotrophs, to focus. The product spectrum of natural methylotrophs and their genetic accessibility is limited and as an alternative approach, the in...
ORGANISM(S): Escherichia coli 
2022-08-05 | PXD034138 | Pride
Synthetic methylotrophy Proteomics E.coli 
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