Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1157568 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR30565934_1.fastq.gz | Fastqsanger.gz | |||
| SRR30565934_2.fastq.gz | Fastqsanger.gz | |||
| SRR30565935_1.fastq.gz | Fastqsanger.gz | |||
| SRR30565935_2.fastq.gz | Fastqsanger.gz | |||
| SRR30565936_1.fastq.gz | Fastqsanger.gz |
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Project description:Escherichia coli Nissle 1917 (EcN) is a probiotic used for treatment of intestinal disorders. EcN improves gastrointestinal homeostasis and microbiota balance; however little is known about how this probiotic delivers effector molecules to the host. Outer membrane vesicles (OMVs) are constitutively produced by gram-negative bacteria and have a relevant role in bacteria-host interactions. Here we performed proteomic analysis of EcN OMVs. Using 1D SDSD-PAGE and highly sensitive LC-MS/MS analysis we identified 192 EcN vesicular proteins with high confidence in three independent experiments. Of these proteins, 18 were encoded by strain-linked genes and 57 were common to pathogen-derived OMVs. These proteins may contribute to the ability of this probiotic to colonize the human gut as they fulfil functions related to adhesion to host tissues, immune modulation or bacterial survival in host niches. This study describes the first global OMV proteome of a probiotic strain and provides evidence that probiotic-derived OMVs contain proteins that can target these vesicles to the host and mediate their beneficial effects on intestinal function.
2013-12-19 | PXD000367 | Pride
Project description:Probiotic bacterium Escherichia coli Nissle 1917 (EcN) is a Gram-negative probiotic bacterium found in the human intestine. Related researches have shown that EcN has good effects in regulating host immune function and treating intestinal diseases. Compared with EcN probiotics themselves, EcN-derived outer membrane vesicles (OMVs) are more likely to spread, cross the mucus layer, and migrate directly to the intestinal submucosa tissue to interact with cells of the host immune system. EcN-derived OMVs play an important role in intestinal immune regulation. However, there are relatively few studies on the regulation of intestinal immunity by EcN-derived OMVs of different sizes. In this project, we first isolated EcN-derived OMVs and then conducted proteomic analyses on the isolated EcN-derived OMVs. Second, we used the filtration method to obtain EcN-derived OMVs of three specific sizes: < 50 nm, 50–100 nm, and 100–300 nm. We then conducted proteomic analyses on EcN-derived OMVs of three specific sizes.
2024-11-30 | PXD058454 |
Project description:Outer membrane vehicles (OMVs) are secreted from gram-negative bacterium to enable bacterial survival and regulate microbial interactions within bacterial communities. The components of OMVs comprise RNA, but the generation as well as the function of OMVs RNA needs to be elucidated. Here, we report that a small non-coding RNA fragment tRF-Leu-CAG, detected in Brucella OMVs, regulates interleukin 13 receptor subunit alpha 1 (IL13RA1) to activate the phosphorylation of Signal Transducer and activator of Transcription 6 (STAT6) via the JAK-STAT6 pathway to reprogram macrophage M2 polarization. We identified the presence of tRF-Leu-CAG in Brucella OMVs by sRNA sequencing and tRF sequencing from bacterial lysate. tRF-Leu-CAG interacts with argonaute 2 (AGO2) protein to exert its function. Meanwhile, the interleukin 13 receptor subunit alpha 1 (IL13RA1) was proved to be the target genes of tRF-Leu-CAG. Overexpression of phosphorylated STAT6 by western blot further substantiated that tRF-Leu-CAG promotes macrophage M2 polarization via the JAK-STAT6 pathway. Finally, tRF-Leu-CAG and small interfering IL13RA1 facilitates the survival of Brucella in macrophage. Thus, our results highlight the function of tRF-Leu-CAG in Brucella OMVs by reprogramming macrophage M2 polarization to improve the survival of extracellular Brucella. The study unravels a new mechanism of intracellular parasitism and immune escape in Brucella, providing strategy for the mechanisms of other intracellular parasitic bacteria.
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Project description:We analyzed the protein composition of the OMVs from E. coli Nissle 1917 (EcN) and the OmpA-depleted EcN strain
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Project description:<p>Chronic, drug-resistant bone infection caused by methicillin-resistant Staphylococcus aureus (MRSA) features an immunosuppressive niche enabling persistent infection and impaired bone healing. Specific treatment requires initial antibacterial immune activation against infection, followed by reshaping an anti-inflammatory microenvironment for later bone repair. Here, we screen out Lactococcus lactis outer membrane vesicles (Lac-OMVs) with first-stage dendritic cells (DCs) activation and later-stage inflammatory macrophage repolarization potential. Mechanistically, enrichment of the nicotinamide metabolism pathway within Lac-OMVs is discovered, with nicotinamide adenine dinucleotide (NAD+) as a key anti-inflammatory mediator. NAD+-enriched Lac-OMVs (NAD+-Lac-OMVs) is thus metabolically engineered via targeted culture condition optimizing, exerting biphasic immunomodulatory effects: (i) Early-stage DCs activation establishes robust humoral immunity, protecting against primary and recurrent MRSA challenge (99.35 % and 98.07 % bacteria clearance each); (ii) Later-stage targeted NAD+ delivery reprograms inflammatory macrophages at defect site, resolving inflammation and establishing a pro-osteogenic microenvironment (~10 times higher bone-repair rate).</p>
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2025-05-30 | E-MTAB-14493 | biostudies-arrayexpress
Project description:To investigate the effects of OMVs and IN@OMVs treatments on mouse tumor-associated macrophages, mouse tumors were harvested after treatment, and CD11b+ F4/80+ labeled cells (TAMs) were sorted by FACS for RNA sequencing.
2025-07-23 | GSE285523 | GEO
Project description:Carbapenem-resistant Acinetobacter baumannii (CRAB) is a critical nosocomial pathogen with limited treatment options. Although antibiotic resistance in CRAB is well-characterized, its interactions with host immunity and the contribution of outer membrane vesicles (OMVs) to pathogenesis remain poorly understood. We examined a clinical CRAB isolate and compared it with the reference strain A19606. Antimicrobial susceptibility testing revealed complete resistance of CRAB to commonly used antibiotics in clinical practice, while A19606 remained susceptible to most agents. In murine intranasal infection models and bone marrow-derived macrophages, CRAB induced significantly stronger activation of inflammatory signaling pathways and elevated levels of pro-inflammatory cytokines relative to A19606. Transcriptomic analysis of infected lung tissue identified differentially expressed genes, enriched for inflammatory response pathways. proteomics showed upregulated proteins in CRAB related to secretion systems. OMVs characterization revealed that CRAB-derived OMVs highly enriched in proteins associated with periplasmic and outer membrane spaces, and more potent in triggering macrophage inflammatory signaling. CRAB displays expansive antibiotic resistance and enhanced pro-inflammatory potential mediated in part by unique OMVs properties. Targeting OMVs formation or host immune modulation may represent effective strategies for combating CRAB infections.
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