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MetabolomicsStability in metabolic phenotypes and inferred metagenome profiles before the onset of colitis-induced inflammation
Inflammatory bowel disease (IBD) is associated with altered microbiota composition and metabolism, but it is unclear whether these changes precede inflammation or are the result of it since current studies have mainly focused on changes after the onset of disease. We previously showed differences in...
2017-07-14 | MTBLS432 | MetaboLights
ProteomicsRelating human gut metagenome and metaproteome
Gut microbiome research is rapidly moving towards the functional characterization of the microbiota by means of shotgun meta-omics. Here, we selected a cohort of healthy subjects from an indigenous and monitored Sardinian population to analyze their gut microbiota using both shotgun metagenomics and...
ORGANISM(S): human gut metagenome 
2017-07-19 | PXD005780 | Pride
Gut metagenome Gut metaproteome Metaproteomics 
MetabolomicsMulti-level analysis of gut microbiome extracellular vesicles-host interaction reveals a connection to gut-brain axis signaling.

Microbiota-released extracellular vesicles (MEVs) have emerged as a key player in intercellular signaling. However, their involvement in the gut-brain axis has been poorly investigated. In this study, we aimed to investigate the cargo capacity of MEVs for bioactive metabolites and their interacti...

2025-08-12 | MTBLS8494 | MetaboLights
TranscriptomicsXenobiotics shape the physiology and gene expression of the active human gut microbiome
The human gut is colonized by trillions of microorganisms that influence human health and disease through the metabolism of xenobiotics, including therapeutic drugs and antibiotics. The diversity and metabolic potential of the human gut microbiome have been extensively characterized, but it remains ...
ORGANISM(S): human gut metagenome 
2012-10-30 | E-GEOD-38151 | biostudies-arrayexpress
MetabolomicsHost-gut microbiota interactions shape parasite infections in farmed Atlantic salmon

Animals and their associated microbiota share long evolutionary histories. However, it is not always clear how host genotype and microbiota interact to affect phenotype. We applied a hologenomic approach to explore how host-microbiota interactions shape lifetime growth and parasite infection in f...

2024-01-24 | MTBLS8575 | MetaboLights
ProteomicsProteome-Level Functional Redundancy in the Human Gut Microbiome
Here, we quantify the proteome-level functional redundancy in the human gut microbiome using metaproteomics and network approaches.In particular, we used an ultra-deep metaproteomics approach based on high-pH reverse phase fractionation. The data analysis revealed high protein-level functional redun...
ORGANISM(S): human gut metagenome 
2023-06-08 | PXD027297 | Pride
Gut microbiome Network Functional redundancy Metaproteomics 
ProteomicsA Metaproteomic Workflow for Sample Preparation and Data Analysis Applied to Mouse Faeces: 4
A Metaproteomic Workflow for Sample Preparation and Data Analysis Applied to Mouse Faeces: 1 MTD project_description Many diseases have been associated with gut microbiome abnormalities. The root cause of such diseases is not only due to bacterial dysbiosis, but also to change in bacterial functions...
ORGANISM(S): mouse gut metagenome 
2022-02-16 | PXD021932 | Pride
Mus musculus Taxonomy Metaproteomics Metagenome 
ProteomicsSequence database choice significantly affects taxonomic and functional metaproteomic results in gut microbiota studies
Elucidating the role of gut microbiota in physiological and pathological processes has recently emerged as a key research aim in life sciences. In this respect, metaproteomics (the study of the whole protein complement of a microbial community) can provide a unique contribution by revealing which fu...
ORGANISM(S): human gut metagenome 
2016-10-10 | PXD004039 | Pride
Metagenomics Bioinformatics Gut microbiota Metaproteomics 
ProteomicsGenome-resolved metaproteomic characterization of preterm infant gut microbiota development reveals core metabolic functions and variability during early-life
An integrated metagenomics and metaproteomics investigation of human preterm infant gut microbiota.
ORGANISM(S): Gut Microbiota Of Human Preterm Infants 
2017-02-23 | MSV000080565 | MassIVE
TranscriptomicsDetection of antibiotic resistance genes in human gut microbiota
We used a DNA microarray chip covering 369 resistance types to investigate the relation of antibiotic resistance gene diversity with humansM-bM-^@M-^Y age. Metagenomic DNA from fecal samples of 123 healthy volunteers of four different age groups, i.e. pre-school Children (CH), School Children (SC), ...
ORGANISM(S): human gut metagenome 
2014-01-16 | E-GEOD-54070 | biostudies-arrayexpress
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