ArticlePloS one2011
A metaproteomic approach to study human-microbial ecosystems at the mucosal luminal interface.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
What it found
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
50 citing papers in PubMed, 84 citations in OpenAlex.
- Comparison of sampling methods in assessing the microbiome from patients with ulcerative colitis.BMC gastroenterology · 2021Trial
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- Spatial mapping of human colonic niches reveals rapid, mucus-specific microbiota disruption after bowel cleansing.Gut microbes · 2026Article
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- Efficacy of lyophilised bacteria-rich faecal sediment and supernatant with reduced bacterial count for treating patients withFrontiers in cellular and infection microbiology · 2023Article
- Relationship between mucosa-associated gut microbiota and human diseases.Biochemical Society transactions · 2022Review
- Crohn's disease in endoscopic remission, obesity, and cases of high genetic risk demonstrates overlapping shifts in the colonic mucosal-luminal interface microbiome.Genome medicine · 2022Article
- Metaproteomic Profile of the Colonic Luminal Microbiota From Patients With Colon Cancer.Frontiers in microbiology · 2022Article
- Epithelial production of elastase is increased in inflammatory bowel disease and causes mucosal inflammation.Mucosal immunology · 2021Article
- Metaproteomics-An Advantageous Option in Studies of Host-Microbiota Interaction.Microorganisms · 2021Article
- Metaproteomics Analysis of Host-Microbiota Interfaces.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Proteomics and Metaproteomics Add Functional, Taxonomic and Biomass Dimensions to Modeling the Ecosystem at the Mucosal-luminal Interface.Molecular & cellular proteomics : MCP · 2020Review
- Precursor Intensity-Based Label-Free Quantification Software Tools for Proteomic and Multi-Omic Analysis within the Galaxy Platform.Proteomes · 2020Article
- Metaproteomics of the human gut microbiota: Challenges and contributions to other OMICS.Clinical mass spectrometry (Del Mar, Calif.) · 2019Review
- Chronic kidney disease and the gut microbiome.American journal of physiology. Renal physiology · 2019Review
- The mucosal-luminal interface: an ideal sample to study the mucosa-associated microbiota and the intestinal microbial biogeography.Pediatric research · 2019Article
- Malassezia Is Associated with Crohn's Disease and Exacerbates Colitis in Mouse Models.Cell host & microbe · 2019Article
- Functional Proteomic Profiling of Secreted Serine Proteases in Health and Inflammatory Bowel Disease.Scientific reports · 2018Article
- Metaproteomics of Colonic Microbiota Unveils Discrete Protein Functions among Colitic Mice and Control Groups.Proteomics · 2018Article
- Metaproteomic analysis of human gut microbiota: where are we heading?Journal of biomedical science · 2017Review
Corrections and comments
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Authors and funding
17 authors at 5 institutions in 1 country.
Funding
Abstract
Aberrant interactions between the host and the intestinal bacteria are thought to contribute to the pathogenesis of many digestive diseases. However, studying the complex ecosystem at the human mucosal-luminal interface (MLI) is challenging and requires an integrative systems biology approach. Therefore, we developed a novel method integrating lavage sampling of the human mucosal surface, high-throughput proteomics, and a unique suite of bioinformatic and statistical analyses. Shotgun proteomic analysis of secreted proteins recovered from the MLI confirmed the presence of both human and bacterial components. To profile the MLI metaproteome, we collected 205 mucosal lavage samples from 38 healthy subjects, and subjected them to high-throughput proteomics. The spectral data were subjected to a rigorous data processing pipeline to optimize suitability for quantitation and analysis, and then were evaluated using a set of biostatistical tools. Compared to the mucosal transcriptome, the MLI metaproteome was enriched for extracellular proteins involved in response to stimulus and immune system processes. Analysis of the metaproteome revealed significant individual-related as well as anatomic region-related (biogeographic) features. Quantitative shotgun proteomics established the identity and confirmed the biogeographic association of 49 proteins (including 3 functional protein networks) demarcating the proximal and distal colon. This robust and integrated proteomic approach is thus effective for identifying functional features of the human mucosal ecosystem, and a fresh understanding of the basic biology and disease processes at the MLI.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.