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ProteomicsSoil Metaproteomics LC-MS
Sensitive models of climate change impacts would require a better integration of multi-omics approaches that connect the abundance and activity of microbial populations. Here, we show that climate is a fundamental driver of the protein abundance of microbial populations (metaproteomics), yet not the...
ORGANISM(S): Escherichia coli 
2022-03-01 | PXD009773 | Pride
Shotgun Lc-ms Metaproteomics Climate change Soil 
ProteomicsMicrobial metaproteome data from decayed beech dead wood
Wood-decomposition in terrestrial ecosystems is a very important process with huge ecologic consequences. This decomposition process is a combination of biological respiration, leaching and fragmentation, mainly triggered by organismic activities. In order to gain a deeper insight into these microbi...
ORGANISM(S): Escherichia coli 
2020-05-27 | PXD016801 | Pride
Protein extraction Dead wood decay Fungal-bacterial community Metaproteomics 
ProteomicsSmall proteins in a simplified human gut microbiome
Small proteins (sProteins) with a size of 100 amino acids and less are involved in major biological processes and play an important role in different bacteria. Despite the increasing interest in them, the data on sProteins in bacterial communities, like the human gut microbiome is sparse. A reason f...
ORGANISM(S): Blautia producta ATCC 27340 = DSM 2950 Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482) Anaerostipes caccae DSM 14662 Clostridium butyricum DSM 10702 Escherichia coli str. K-12 substr. MG1655 Bifidobacterium longum NCC2705 Erysipelatoclostridium ramosum DSM 1402 Lactobacillus plantarum subsp. plantarum 
2020-01-07 | PXD016298 | Pride
Sihumix Small proteins Lc-ms/ms Metaproteomics 
ProteomicsStable Isotope Probing Deuterium LC-MS/MS
Competition between commensal and pathogenic microbes for monosaccharides derived from mucus layer O-glycans as nutrient sources has been proposed as a mechanism by which the gut microbiota counteracts pathogen colonization. However, our understanding of the microbial interactions that determine com...
ORGANISM(S): Escherichia coli 
2020-09-09 | PXD015215 | Pride
Stable isotope probing Nutrient competition Mucosal sugars Colonization resistance Metaproteomics 
ProteomicsComparative proteomics of Marinobacter sp. TT1 reveals Corexit impacts on hydrocarbon metabolism, chemotactic motility and biofilm formation
The application of chemical dispersants during marine oil spills can affect the community composition and activity of native marine microorganisms. Several studies have indicated that certain marine hydrocarbon-degrading bacteria, such as Marinobacter spp., can be inhibited by chemical dispersants, ...
ORGANISM(S): Marinobacter sp. DSM 26291 
2020-12-22 | PXD021108 | Pride
Marinobacter sp. tt1  dispersant  corexit  waf  hexadecane  hydrocarbon metabolism  proteomics 
ProteomicsGrowth of complete ammonia oxidizers on guanidine
The nitrogen rich compound guanidine occurs widely in nature and is used by microbes as a nitrogen source, but microorganisms that grow on guanidine have not yet been discovered. Here we show that complete ammonia-oxidizing microbes (comammox), but no other known nitrifiers, encode homologues of a g...
ORGANISM(S): Candidatus Nitrospira inopinata 
2024-08-03 | PXD038826 | Pride
Nitrogen Proteomics Guanidine Complete ammonia oxidizers Reductant 
ProteomicsHypoosmolarity inhibits archaeal ammonia oxidation
Salinity strongly influences the physiology and distribution of nitrifying microorganisms, yet the effects of low salinity on these key players in nitrogen cycling remain understudied. This study investigates the impact of hypoosmolarity on different groups of ammonia oxidizers in soil and lake envi...
ORGANISM(S): Candidatus Nitrosotenuis chungbukensis Nitrososphaera viennensis EN76 
2026-04-06 | PXD064500 | Pride
Freshwater ecosystems Hypoosmolarity Nitrification Osmotic stress 
ProteomicsSearching for the small unknowns - Discovery of novel sProteins in a simplified human intestinal microbiome
The intestinal microbiota plays a crucial role in protecting the host from pathogenic microbes, in modulating immunity and in regulating metabolic processes. We use the simplified human intestinal microbiota (SIHUMIx) consisting of eight bacterial species to study potential synergistic effects with ...
ORGANISM(S): Blautia producta ATCC 27340 = DSM 2950 Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482) Clostridium butyricum DSM 10702 Anaerostipes caccae DSM 14662 Bifidobacterium longum NCC2705 Erysipelatoclostridium ramosum DSM 1402 Escherichia coli Lactobacillus plantarum subsp. plantarum 
2021-09-09 | PXD020005 | Pride
Small proteins (sproteins)  sihumix  human gut microbiome  proteogenomics  metatranscriptomics  metaproteomics 
ProteomicsPlastics investigated can be mineralized by bacteria naturally occurring within the marine environment
Biodegradable plastics are one possible solution for reducing plastic waste, yet the mechanisms and organisms involved in their degradation in the aquatic environment remain understudied. In this study, we have enriched a microbial community from North Sea water and sediment, capable of growing on t...
ORGANISM(S): Alcanivorax Thalassobius sp. 
2023-11-22 | PXD038098 | Pride
Marine environment Biodegradable plastic Metaproteomics 
ProteomicsSoil Metaproteomics - The active microbial diversity drives ecosystem multifunctionality and is physiologically related to carbon availability in Mediterranean semi-arid soils
The availability of organic carbon represents a major bottleneck for the development of soil microbial communities and the regulation of microbially-mediated ecosystem processes. However, there is still a lack of knowledge on how the lifestyle and population abundances are physiologically regulated ...
ORGANISM(S): soil bacterium 10G-05 
2017-07-07 | PXD003572 | Pride
Soil Metaproteomics Dryland 
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