Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The sheep host fecal proteome - The Sarda Sheep Host Fecal Proteome

ABSTRACT: Characterization of the fecal (host) proteome in 5 Sarda sheep

INSTRUMENT(S): LTQ Orbitrap Velos

ORGANISM(S): Ovis Aries

TISSUE(S): Feces

SUBMITTER: Alessandro Tanca

LAB HEAD: Sergio Uzzau

PROVIDER: PXD006145 | Pride | 2018-01-15

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	MS_spectra.zip	Other
	PSMs.xlsx	Xlsx
	Peptides.xlsx	Xlsx
	Proteins.xlsx	Xlsx
	Sheep_1.raw	Raw

Items per page:

1 - 5 of 14

Publications

The Sarda Sheep Host Fecal Proteome.

Palomba Antonio A Tanca Alessandro A Addis Maria Filippa MF Pagnozzi Daniela D Uzzau Sergio S

Proteomics 20180206 3-4

The first characterization of the sheep fecal microbiota was recently reported, as obtained by using a multi meta-omic approach. Here, the mass spectra generated by single-run LC/high-resolution MS in the context of that study were reanalyzed using a host-specific database, in order to gain insights for the first time into the host fecal proteome of healthy Sarda sheep. On the whole, 5349 non-redundant tryptic peptide sequences were identified, belonging to 1046 different proteins. The "core" fe ...[more]

PMID: 29328543

Similar Datasets

Caloric restriction and rat fecal microbiota

Project description:Characterization of the fecal metaproteome in rats fed ad libitum or following a caloric restriction diet

2018-10-08 | PXD007252 | Pride

Mouse caecum vs faeces - Metaproteogenomics Reveals Taxonomic and Functional Changes between Cecal and Fecal Microbiota in Mouse

Project description:We compared the microbiota of paired mouse caecal contents and faeces by applying a multi-omic approach, including 16S rDNA sequencing, shotgun metagenomics, and shotgun metaproteomics. The aim of the study was to verify whether faecal samples are a reliable proxy for the mouse colonic luminal microbiota, as well as to identify changes in taxonomy and functional activity between caecal and faecal microbial communities, which have to be carefully considered when using stool as sample for mouse gut microbiota investigations.

2017-03-31 | PXD004911 | Pride

Mouse_T1D_microbiota - Clostridial Butyrate Biosynthesis Enzymes Are Significantly Depleted in the Gut Microbiota of Nonobese Diabetic Mice

Project description:A metaproteomic approach was exploited to investigate microbiota protein expression in feces from Eα16 and NOD mice at 10 weeks of age (n=6 vs 6 mice)

2018-10-15 | PXD003616 | Pride

Sheep fecal microbiota - Diversity and functions of the sheep faecal microbiota: a multi-omic characterization

Project description:Characterization of the fecal metaproteome of dairy sheep

2017-02-22 | PXD004524 | Pride

Enrichment or depletion? The impact of stool pretreatment on metaproteomic characterization of the human gut microbiota

Project description:Up to date, most metaproteomic studies of the gut microbiota describe the use of stool sample pretreatment methods to enrich for microbial components. However, a specific investigation aimed at assessing if, how and to what extent this may impact on the final taxonomic and functional results is still lacking. Here, stool replicates were either pretreated by differential centrifugation (DC) or not centrifuged (NC). Protein extracts were then processed by filter-aided sample preparation, single-run LC and high-resolution MS, and the metaproteomic data were compared by spectral counting. DC led to a higher number of identifications, a significantly richer microbial diversity, as well as to reduced information on the non-microbial components (host and food) when compared to NC. Nevertheless, dramatic differences in the relative abundance of many gut microbial taxa were also observed, including a significant change in the Firmicutes/Bacteroidetes ratio. Furthermore, several microbial functional categories, including cell surface enzymes, membrane-associate proteins, and flagella, were significant reduced after DC. In conclusion, this work underlines that a critical evaluation is needed when selecting the appropriate stool sample processing protocol in the context of a metaproteomic study, depending on the specific target to which the research is aimed.

2015-02-25 | PXD001573 | Pride

Identifying fecal host biomarkers for the presence and severity of Clostridioides difficile infection using top-down proteomics

Project description:Clostridioides difficile is a major cause of healthcare-associated diarrhea in adult patients. Laboratory diagnosis of C. difficile infection (CDI) is challenging as there is no single test combining high sensitivity and specificity, rapid turnaround time and cost efficiency. They also offer no or little correlation with the clinical outcome. Recently, host-based methods have shown satisfactory performance for the diagnosis of infectious diseases. The aim of this study was to discover CDI-specific host biomarkers that correlate with disease stage and severity.

2021-09-09 | PXD020117 | Pride

Metaproteomics reveals functional changes in the fecal microbiota of rats under time-restricted feeding

Project description:Diet is a key factor influencing gut microbiota (GM) composition and functions, which in turn affect host health. Among dietary regimens, time-restricted (TR) feeding has been associated to numerous health benefits. To date, little is known about the modulation of GM protein functions by TR feeding. Here, we analyzed the effects of TR feeding on GM protein expression in a rat model through a metaproteomic approach. We observed that TR feeding has a relevant impact on GM functions, especially on several biological activities exerted by members of the genus Lactobacillus, including proteolysis and metabolism of galactose-containing glycans.

2021-10-15 | PXD024509 | Pride

Host response in murine fecal peritonitis differs upon the specific fecal microbiota

Project description:We systematically assessed the transcriptomic changes of circulating leukocytes from whole blood of mice that had undergone polymicrobial sepsis. We systematically assessed the transcriptomic changes of liver tissue of mice that had undergone polymicrobial sepsis. Data indicate strong dissimilarities in early gene expression during murine sepsis affecting several pathways such as Toll-like receptor signalling, MAPK signalling, cytokine-cytokine receptor interaction, chemokine-signalling, and apoptosis during murine sepsis.

2016-12-01 | GSE70714 | GEO

Host distributions of uncultivated fecal Bacteroidales bacteria reveal genetic markers for fecal source identification.

Project description:The purpose of this study was to examine host distribution patterns among fecal bacteria in the order Bacteroidales, with the goal of using endemic sequences as markers for fecal source identification in aquatic environments. We analyzed Bacteroidales 16S rRNA gene sequences from the feces of eight hosts: human, bovine, pig, horse, dog, cat, gull, and elk. Recovered sequences did not match database sequences, indicating high levels of uncultivated diversity. The analysis revealed both endemic and cosmopolitan distributions among the eight hosts. Ruminant, pig, and horse sequences tended to form host- or host group-specific clusters in a phylogenetic tree, while human, dog, cat, and gull sequences clustered together almost exclusively. Many of the human, dog, cat, and gull sequences fell within a large branch containing cultivated species from the genus Bacteroides. Most of the cultivated Bacteroides species had very close matches with multiple hosts and thus may not be useful targets for fecal source identification. A large branch containing cultivated members of the genus Prevotella included cloned sequences that were not closely related to cultivated Prevotella species. Most ruminant sequences formed clusters separate from the branches containing Bacteroides and Prevotella species. Host-specific sequences were identified for pigs and horses and were used to design PCR primers to identify pig and horse sources of fecal pollution in water. The primers successfully amplified fecal DNAs from their target hosts and did not amplify fecal DNAs from other species. Fecal bacteria endemic to the host species may result from evolution in different types of digestive systems.

| S-EPMC1151806 | biostudies-literature

Study of human gut microbiota from healthy adults

Project description:The link between the gut microbiota of a human being (a complex group of microorganism including not only bacteria but also fungi, viruses, etc.,) that form an ecosystem in his gastrointestinal tract and his physiological state is nowadays unquestionable. Metaproteomics has emerged as a useful technique to characterize this microbial community, not just taxonomically, but also focusing on specific biological processes carried out by gut microbiota that may have an effect in the host health or pathological state. In order to characterize this host-microbiota inter-relation, we carried out the metaproteomic study of 6 stool samples from 6 healthy adults. A total of 37 080 peptide sequences and 10 686 protein groups were identified in this study. Regarding taxonomic information, we found a total of 247 taxa among 105 were species. Interesting contributions of microbiota metabolism to human host physiology has also been described.

2021-07-06 | PXD020786 | Pride