Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Novel misos shape distinct microbial ecologies

PROVIDER: PRJNA992639 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR25203504_1.fastq.gz	Fastqsanger.gz
	SRR25203504_2.fastq.gz	Fastqsanger.gz
	SRR25203505_1.fastq.gz	Fastqsanger.gz
	SRR25203505_2.fastq.gz	Fastqsanger.gz
	SRR25203506_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 76

Similar Datasets

Dietary composition analysis of chow diet and purified diet using untargeted metabonomics

Project description:Dietary patterns and psychosocial factors, ubiquitous part of modern lifestyle, critically shape the gut microbiota and human health. However, it remains obscure how dietary and psychosocial inputs coordinately modulate the gut microbiota and host impact. Here, we show that dietary raffinose metabolism to fructose couples stress-induced gut microbial remodeling to intestinal stem cells (ISC) renewal and epithelial homeostasis. Chow diet (CD) and purified diet (PD) confer distinct vulnerability to gut epithelial injury, microbial alternation and ISC dysfunction in chronically restrained mice. CD preferably enriches Lactobacillus reuteri, and its colonization is sufficient to rescue stress-triggered epithelial injury.

2020-12-09 | ST001620 | MetabolomicsWorkbench

Project description:MLL-fusions shape distinct chromatin landscapes

| PRJNA1048517 | ENA

Arginine-derived polyketides are ubiquitous signals shaping cross-kingdom microbial interactions

Project description:Microbial consortia consist of a multitude of prokaryotic and eukaryotic microorganisms. Their interaction is critical for the functioning of ecosystems. Until now, there is limited knowledge about the communication signals determining the interaction between bacteria and fungi and how they influence microbial consortia. Here, we discovered that bacterial low molecular weight arginine-derived polyketides trigger the production of distinct natural products in fungi. These compounds are produced by actinomycetes found on all continents except Antarctica and are characterized by an arginine-derived positively charged group linked to a linear or cyclic polyene moiety. Producer bacteria can be readily isolated from soil as well as fungi that decode the signal and respond with the biosynthesis of natural products. Both arginine-derived polyketides and the compounds produced by fungi in response shape microbial interactions.

2023-06-16 | PXD033242 | Pride

Project description:Distinct sources of silicon shape differently the rhizospheric microbial community in sugarcane

| PRJNA954752 | ENA

Different allergic phenotypes exhibit unique patterns of gut microbiota from early life

Project description:Subjects with different allergic phenotypes showed distinct gut microbial patterns and functions. AD+FA subjects showed the mixtures of gut microbial patterns of FA and AD, while gut microbial pattern of FA seems to dominate in subjects with AD+FA

2021-08-04 | PXD027692 | JPOST Repository

ATAC-seq analysis of immune responses from bone marrow derived dendritic cells stimulated with 7 pattern recognition receptor (PRR) ligands along with their pairwise and triplet combinations

Project description:The immune system makes decisions in response to combinations of multiple microbial inputs. We do not understand the combinatorial logic governing how higher-order combinations of microbial signals shape immune responses. Here, using coculture experiments and statistical analyses, we discover a general property for the combinatorial sensing of microbial signals, whereby the effects of triplet combinations of microbial signals on immune responses can be predicted by combining the effects of single and pairs. Mechanistically, we find that singles and pairs dictate the information signaled by triplets in mouse and human DCs at the levels of transcription, chromatin and protein secretion. We exploit this simplifying property to develop cell-based immunotherapies prepared with adjuvant combinations that trigger protective responses in mouse models of cancer. We conclude that the processing of multiple input signals by innate immune cells is governed by pairwise effects, which will inform the rationale combination of adjuvants to manipulate immunity.

2020-07-01 | GSE134867 | GEO

Novel integrated computational AMP discovery approaches highlight diversity in the helminth AMP repertoire

Project description:Invertebrate antimicrobial peptides (AMPs) form the first line of defence against pathogenic microbes. Understanding AMP profiles in helminths, their importance to helminth biology, and how they shape microbial communities could reveal novel approaches for anthelmintic and/or antimicrobial development. In this study, we employed a LC-MS/MS peptidomics pipeline to validate a novel integrated homology- and computational-based pipeline for the discovery of helminth AMPs. Our peptidomics pipeline found 60 high-confidence PSMs correlating to 15 high-confidence novel AMP-LPs within Ascaris suum body-cavity fluid supporting the need for further characterisation of these peptides and their functions within helminths.

2023-07-26 | PXD042293 | Pride

Comparative, quantitative proteomic analysis of cell shape transitions in Haloferax volcanii

Project description:Cell shape plays a crucial role in microbial survival. While Haloferax volcanii, a model haloarchaeon, forms rods and disks, depending on environmental conditions, little is known about mechanisms underpinning archaeal cell-shape determination. We identified mutants that exclusively form rods and carried out comprehensive proteomics studies in which we compared these mutants to previously identified disk-only mutant strains and wild-type. Using this approach, we identified several additional candidates for shape determination. The generation of deletion mutants lacking genes encoding potential rod- and disk-determining factors, HVO_2174 (RdfA) and HVO_2176 (DdfA), respectively, resulted in rod- and disk-defective phenotypes. Comprehensive proteomics performed with ∆rdfA and ∆ddfA on these shape mutants implicated a diverse set of proteins, including transporters, signaling components, and transducers, as important for cell shape determination. We also identified structural proteins including the H. volcanii actin homolog volactin (VolA), a previously unknown cytoskeletal element, required for disk-shape morphogenesis.

2024-02-17 | PXD040781 | Pride

Trained immunity of alveolar macrophages depends on metabolic rewiring and type 1 interferon signaling (ATAC-Seq)

Project description:Environmental microbial triggers shape the development and functionality of the immune system. Alveolar macrophages (AMs), tissue-resident macrophages of the lungs, are in constant and direct contact with inhaled particles and microbes. Such exposures likely impact AM reactivity to subsequent challenges by immunological imprinting mechanisms referred to as trained immunity. Here, we investigated whether a ubiquitous microbial compound has the potential to induce AM training in vivo. We showed that intranasal exposure to ambient amounts of lipopolysaccharide (LPS) protected mice from bacterial pneumonia six days later and discovered a pronounced AM memory response, characterized by enhanced reactivity upon pneumococcal challenge. Exploring the mechanistic basis of AM training, we identified a critical role of type 1 interferon signaling and found that trained AMs displayed a substantially modulated metabolite and lipid composition. Inhibition of fatty acid oxidation and glutaminolysis significantly attenuated the training effect, suggesting a key function of metabolic rewiring in LPS-induced AM memory. Collectively, our findings demonstrate the profound impact of ambient microbial exposure on pulmonary immune memory and highlight tissue-specific features of trained immunity.

2022-07-18 | GSE184682 | GEO

Distinct modes of cell competition shape mammalian tissue morphogenesis

Project description:Distinct modes of cell competition shape mammalian tissue morphogenesis

| PRJNA526869 | ENA