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ProteomicsComparison and applications of label-free absolute proteome quantification methods on Escherichia coli
Three different label-free proteome quantification methods - APEX, emPAI and iBAQ - were evaluated to measure proteome-wide protein concentrations in the cell. All the methods were applied to a sample from Escherichia coli chemostat culture. A Pearson squared correlation of approximately 0.6 among t...
ORGANISM(S): Escherichia coli 
2013-07-24 | PXD000283 | Pride
Ups2 Shotgun proteomics Ibaq E. coli 
ProteomicsFiber-associated microbiota protects against diet-induced amelioration of the colonic mucus barrier
Here we have shown that diet-mediated alterations of the gut microbiota composition cause an erosion of the colonic mucus barrier. A compensatory increase in cellular mucus production by the host is not sufficient to re-establish the barrier, possibly due to a lacking increase in mucus secretion. Wh...
ORGANISM(S): Mus musculus (Mouse) 
2017-12-22 | PXD006129 | Pride
Gut microbiota Obesity Fiber Mucus layer Metabolic disease Barrier function Western diet Diet-microbe-host interaction 
ProteomicsMulti-omics approach to study the growth efficiency and amino acid metabolism in Lactococcus lactis at various specific growth rates
Biological replicate 1, technical replicate 1, SCX fraction 100 mM KH2PO4
ORGANISM(S): Lactococcus lactis subsp. lactis Il1403 
2011-05-05 | PRD000266 | Pride
ProteomicsStudy of the growth efficiency and amino acid metabolism in Lactococcus lactis at various specific growth rates
Biological replicate 2, technical replicate 1, SCX fraction 100 mM KH2PO4
ORGANISM(S): Lactococcus lactis subsp. lactis Il1403 
2011-05-05 | PRD000267 | Pride
ProteomicsOverflow metabolism of acetate in Escherichia coli is triggered by carbon catabolite repression of acetyl-CoA synthethase
Fermentation F143 sample P1, growth rate 0.1 h-1 mixed with 15N batch culture in ratio 1:1
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2011-05-05 | PRD000232 | Pride
ProteomicsLactococcus lactis protein turnover
Triplicate chemostat cultivations were carried out with L. lactis subsp. lactis IL1403 at specific growth rates 0.1 and 0.5 h-1 on a chemically defined medium, where both, glucose and lysin (Lys) were jointly limiting the growth. After reaching the steady physiological state, medium was switched to ...
ORGANISM(S): Lactococcus lactis subsp. lactis Il1403 
2014-01-28 | PXD000494 | Pride
Lc-msms Lactococcus lactis Protein turnover 
ProteomicsIL-22 promotes postnatal formation of MUC17 glycocalyx barrier that protects host enterocytes
The apical aspects of absorptive epithelial cells form a highly organized brush border membrane (BBM), shaped by densely packed microvilli that are coated with a glycocalyx. Here, we present evidence showing that the glycocalyx forms an epithelial barrier that prevents exogenous molecules from gaini...
ORGANISM(S): Mus musculus (Mouse) 
2021-02-16 | PXD018592 | Pride
Innate immunity Mucin Intestine Microvilli Enterocyte Muc13 Microbiota Muc17 Glycocalyx 
ProteomicsIleum and colon goblet cell proteome
This study is a comparative proteomics study of FACS sorted Muc2 expressing and non expressing cells in mouse ileum and colon.
ORGANISM(S): Mus musculus (Mouse) 
2021-04-19 | PXD011527 | Pride
Ileum Proteomics Goblet cells Colon 
ProteomicsProteomics of Muc17-deficient mice small intestine epithelial cells
To evaluate the impact of Muc17 deletion on other major intestinal mucins, we employed proteomic analysis of isolated Si5 epithelial cells fromMuc17fl/fl and Muc17∆IEC cohoused littermates. Deletion of Muc17 did not result in a compensatory change in the abundance of the gel-forming mucin Muc2 and m...
ORGANISM(S): Mus musculus (Mouse) 
2025-05-06 | PXD048896 | Pride
Muc17  muc3  small intestine  epithelial cells  lfq 
ProteomicsProteomic analysis of neonatal rats distal colon mucus
Compositional analysis of the neonatal rats distal colon mucus proteome by label-free mass spectrometry indicated significant variability in mucus protein composition at different ages.
ORGANISM(S): Rattus norvegicus (Rat) 
2025-04-01 | PXD052791 | Pride
Mass-spectrometry Lfq proteomics Rats Mucus Colon 
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