Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Microbiome along the gastrointestinal tract of wild mice

ABSTRACT: Spatial heterogeneity of gut microbial composition along the gastrointestinal tract in natural populations of house mice

PROVIDER: PRJEB15238 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR1596920.fastq.gz	Fastqsanger.gz
	ERR1596930.fastq.gz	Fastqsanger.gz
	ERR1596940.fastq.gz	Fastqsanger.gz
	ERR1596950.fastq.gz	Fastqsanger.gz
	ERR1596960.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 60

Similar Datasets

Metabolomics Workbench ST000328 - GNPS - Primary metabolites at different points along dog gastrointestinal tract (CSH chromatography)

Project description:This experiment tests the primary metabolites at four different points along the gastrointestinal tract of a dog. The four points being tested were the duodenum, ileum, colon, and rectum.

2018-08-02 | MSV000082703 | GNPS

Metabolomics Workbench ST000327 - GNPS - Primary metabolites at different points along dog gastrointestinal tract (HILIC chromatography)

2018-08-02 | MSV000082698 | GNPS

Protein turnover rate along the gastrointestinal tract is coordinated by the spatial location and the microbiota

Project description:The gastrointestinal tract is covered by a single layer of epithelial cells that, together with the mucus layers, protect the underlying tissue from bacterial invasion. The epithelium has one of the highest turnover rates in the body, renewing every 4-5 days. Using stable isotope labelling, high-resolution mass spectrometry and computational analysis, we report here a comprehensive dataset of the turnover rate of 3041 and the expression of 5012 intestinal epithelial cell proteins, analyzed under conventional and germ-free conditions across five different segments in mouse intestine. The median protein half-life was shorter in small intestine compared to colon, ranging from 3.5 to 4.2 days. Differences in protein turnover rates along the intestinal tract can be explained by distinct physiological functions and site-specific immune responses between the small and large intestine. Absence of microflora resulted in increased protein half-life by approximately one day.

2020-01-24 | PXD011457 | Pride

Primary metabolites at different points along dog gastrointestinal tract (CSH chromatography)

2015-02-12 | ST000328 | MetabolomicsWorkbench

Primary metabolites at different points along dog gastrointestinal tract (HILIC chromatography)

2015-02-27 | ST000327 | MetabolomicsWorkbench

Transcriptome profiling of organoids from the human and murine gastrointestinal tract

Project description:The epithelial layer of the gastrointestinal tract is the body’s first line of defense against gut pathogens. However, our current understanding of the innate immune response of the epithelial layer is limited. For this study, we used gastrointestinal organoids which have the advantage of being primary, non-transformed epithelium that retains organ-specific characteristics in culture, and also that they lack any confounding immune cells. We systematically profiled the transcriptomes of gastrointestinal epithelial cells using a newly generated biobank of human and murine GI organoids grown from tissue-resident stem cells, providing an atlas of gene expression along the GI tract of both species. RNA sequencing of all lines confirmed the preservation of tissue identity, and in addition revealed extensive organization of innate immune signaling components along the cephalocaudal axis, endowing a specific innate immune profile to each segment.

2020-05-23 | GSE127938 | GEO

Single-cell transcriptomic atlas of enteroendocrine cells along the murine gastrointestinal tract.

Project description:Single-cell transcriptomic atlas of enteroendocrine cells along the murine gastrointestinal tract.

| PRJNA1123675 | ENA

Metabolomic profiles along the gastrointestinal tract of the healthy dog

Project description:Introduction: The fecal microbiome is relevant to the health and disease of many species. The importance of the fecal metabolome has more recently been appreciated, but our knowledge of the microbiome and metabolome at other sites along the gastrointestinal tract remains deficient. Objective: To analyze the gastrointestinal microbiome and metabolome of healthy domestic dogs at four anatomical sites. Methods: Samples of the duodenal, ileal, colonic, and rectal contents were collected from six adult dogs after humane euthanasia for an unrelated study. The microbiota were characterized using Illumina sequencing of 16S rRNA genes. The metabolome was characterized by mass spectrometry-based methods. Results: Prevalent phyla throughout the samples were Proteobacteria, Firmicutes, Fusobacteria, and Bacteroidetes, consistent with previous findings in dogs and other species. A total of 530 unique metabolites were detected; 199 of these were identified as previously named compounds, but 141 of them had at least one significantly different site-pair comparison. Noteworthy examples include amino acids, which decreased from the small to large intestine; pyruvate, which was at peak concentrations in the ileum; and several phenol-containing carboxylic acid compounds that increased in the large intestine. Conclusion: The microbiome and metabolome vary significantly at different sites along the canine gastrointestinal tract.

2016-10-17 | ST000495 | MetabolomicsWorkbench

Mus musculus gastrointestinal tract

Project description:Mus musculus gastrointestinal tract Raw sequence reads

| PRJNA801221 | ENA

mice gastrointestinal tract microbiota metagenome

Project description:mice gastrointestinal tract microbiota metagenome Raw sequence reads

| PRJNA660631 | ENA