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ProteomicsUnravelling metabolic cross-feeding in a yeast-bacteria community using 13C proteomics
Cross-feeding is fundamental to the diversity and function of microbial communities. However, identification of cross-fed metabolites is often challenging due to the universality of metabolic and biosynthetic intermediates. Here, we use 13C isotope tracing in peptides to elucidate cross-fed metaboli...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2023-02-07 | PXD019952 | Pride
Protein stable-isotope labeling (protein-sip) Cross-feeding Synthetic community : microbial interaction 
ProteomicsSMD-IPTL 4-plex yeast and BSA-yeast
Isobaric peptide termini labeling (IPTL) is an attractive protein quantification method, because it provides more accurate and reliable quantification information than traditional isobaric labelling methods (TMT, iTRAQ) by making use of the entire fragment ion series instead of only a single reporte...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-04-27 | PXD018589 | Pride
Smd-iptl 
ProteomicsTransfer of Alarmins from Neutrophils to Platelets after Acute Myocardial Infarction
Platelets are central to the pathophysiology of myocardial infarction (MI). How the platelet proteome is altered during MI is unknown. We sought to describe changes in the platelet proteome at the time of MI and identify potential mechanisms. Platelets from patients experiencing ST-elevation myocard...
ORGANISM(S): Homo sapiens (Human) 
2023-11-15 | PXD024159 | Pride
Cellular hemostasis and platelets Atherosclerosis and ischemic disease Q exactive hf Human 
ProteomicsProteomics of biphenyl labelling study
protein based stable isotope probing was performed for identifying microorganisms actually responsible for biphenyl biodegradation in soil environment.
ORGANISM(S): soil metagenome 
2022-02-16 | PXD023646 | Pride
Soil 13c-labelled peptides 
ProteomicsStability assessment of the human proteotypic peptides for proteomics quantification
Mass spectrometry coupled to liquid chromatography is one of the most powerful technologies for proteome quantification in a variety of biomedical samples, including cells, tissues and liquid biopsies. In peptide-centric workflows protein mixtures proteins are enzymatically digested to peptides prio...
ORGANISM(S): Homo sapiens (Human) 
2025-02-24 | PXD035198 | Pride
Proteotypic Proteome tools Peptide stability Quantitation 
ProteomicsMAA-SIP biomethanisation with hydrogen addition
By using metagenome resolved protein stable isotope probing (protein-SIP) through incubations of identical reactors with 13C labelled bicarbonate over a period of 48 hours, the study aims to map differences in the metabolic behaviour of the microbial community during anaerobic digestion.
ORGANISM(S): anaerobic digester metagenome 
2021-12-05 | PXD027519 | Pride
Biomethanisation Anaerobic digestion Protein-sip Metagenomics Wood-ljungdahl pathway Anaplerotic carbon fixation 
ProteomicsMycelial nutrient transfer promotes bacterial co-metabolic organochlorine pesticide degradation in nutrient-deprived environments
Biotransformation of soil organochlorine pesticides (OCP) is often impeded by a lack of nutrients relevant for bacterial growth and/or co-metabolic OCP biotransformation. By providing space-filling mycelia, fungi promote contaminant biodegradation by facilitating bacterial dispersal and the mobiliza...
ORGANISM(S): Sphingobium sp. S8 Fusarium equiseti 
2023-02-24 | PXD038571 | Pride
Protein-sip Fungal-bacterial interactions Biotransformation Pesticides Nutrient transport Mycelia 
ProteomicsIdentification of TBBPA-degraders in anaerobic bioreactor at environmentally relevant concentrations by combined protein-based stable isotope probing and metagenomics
The aim of this study was to identify TBBPA-degrading organisms in a complex microbial community by a metagenome-based functional metaproteomic approach, using protein-based stable isotope probing (protein-SIP). Firstly, the degradation kinetics were evaluated in order to simulate the decrease of re...
ORGANISM(S): anaerobic digester metagenome 
2022-09-12 | PXD030335 | Pride
Anaerobic digestion Stable isotope probing Tetrabromobisphenol a Metaproteomics 
ProteomicsMyoinositol usage in ileum microbiomes
Myo-inositol (MI) is a dietary polyol and phytate hydrolysis product whose microbial fate in poultry is poorly understood. We combined 13C-labelled MI, metaproteomic stable-isotope probing (SIP), untargeted metaproteomics, and 13C-NMR metabolomics to map MI utilisation by ileal and caecal anaerobic ...
ORGANISM(S): Gallus gallus (Chicken) 
2026-09-11 | PXD077163 | Pride
Chicken Myoinositol Sip Ileum 
ProteomicsMyoinositol usage in caecal microbiomes
Myo-inositol (MI) is a dietary polyol and phytate hydrolysis product whose microbial fate in poultry is poorly understood. We combined 13C-labelled MI, metaproteomic stable-isotope probing (SIP), untargeted metaproteomics, and 13C-NMR metabolomics to map MI utilisation by ileal and caecal anaerobic ...
ORGANISM(S): Gallus gallus (Chicken) 
2026-09-11 | PXD077115 | Pride
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