Ontology highlight
ABSTRACT:
PROVIDER: PRJEB24839 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR1731835.fasta.gz | Fasta.gz |
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Project description:Impact of LAB supplementation in drinking water on chicken crop and ceca
| PRJEB17637 | ENA
Project description:The chicken gastrointestinal tract (GIT) harbours a complex microbial community, involved in several physiological processes such as host immunomodulation and feed digestion. Other studies were already performed to define the chicken gut metagenome and its fecal metaproteome. For the first time, the present study analysed dietary effects on the protein inventory of the microbiota in crop and ceca of broilers. We performed quantitative label-free metaproteomics by using 1D-gel electrophoresis coupled with LC-MS/MS to identify the structural and functional changes triggered by diets supplied with varying amount of mineral phosphorus (P) and microbial phytase (MP). Phylogenetic assessment based on label-free quantification (LFQ) values of the proteins identified Lactobacillaceae as the major family in the crop section regardless of the diet, whereas proteins belonging to the family Veillonellaceae increased with the P supplementation. Within the ceca section, proteins of Bacteroidaceae were more abundant in the P-supplied diets, whereas proteins of Eubacteriaceae decreased with the P-addition. Proteins of the Ruminococcaceae increasedraised with the amount of MP while proteins of Lactobacillaceae werewas more abundant in the MP-lacking diets. Classification of the identified proteins into COGs and KEGG pathways underlined a diverse microbiota activity depending on the dietary regimen, indicating a thriving microbial community in the case of P and MP supplementation, and stressed microbial community when no P and MP were supplied. Insights oninto the identified KEGG pathways, as well as comparison between the GIT sections, dietary treatments, and the bacterial families encoding for the pathways of interest are provided. T) harbours a complex microbial community, involved in several physiological processes such as host immunomodulation and feed digestion. Other studies were already performed to define the chicken gut metagenome and its fecal metaproteome. For the first time, the present study analysed dietary effects on the protein inventory of the microbiota in crop and ceca of broilers. We performed quantitative label-free metaproteomics by using 1D-gel electrophoresis coupled with LC-MS/MS to identify the structural and functional changes triggered by diets supplied with varying amount of mineral phosphorus (P) and microbial phytase (MP). Phylogenetic assessment based on label-free quantification (LFQ) values of the proteins identified Lactobacillaceae as the major family in the crop section regardless of the diet, whereas proteins belonging to the family Veillonellaceae increased with the P supplementation. Within the ceca section, proteins of Bacteroidaceae were more abundant in the P-supplied diets, whereas proteins of Eubacteriaceae decreased with the P-addition. Proteins of the Ruminococcaceae increasedraised with the amount of MP while proteins of Lactobacillaceae werewas more abundant in the MP-lacking diets. Classification of the identified proteins into COGs and KEGG pathways underlined a diverse microbiota activity depending on the dietary regimen, indicating a thriving microbial community in the case of P and MP supplementation, and stressed microbial community when no P and MP were supplied. Insights oninto the identified KEGG pathways, as well as comparison between the GIT sections, dietary treatments, and the bacterial families encoding for the pathways of interest are provided.
2016-10-06 | PXD003805 | Pride
Project description:Eight-week-old C57BL/6 mice underwent either 70% partial hepatectomy (PHx) or sham surgery in the absence of hepatic resection via midline laparotomy. L-glutamic acid 5-amide (Gln) was obtained from MilliporeSigma, MA, US, and mice were fed 0.6% Gln versus PBS in the drinking water starting at 7 days prior to PHx and another 6 days after Phx. Mice were randomized into four groups: 1) sham with Gln supplementation (sham + Gln), 2) sham without Gln supplementation (sham – Gln), 3) PHx with Gln supplementation (PHx + Gln), and 4) PHx without Gln supplementation (PHx – Gln).
2025-02-28 | GSE290260 | GEO
Project description:Genetic analysis of women from the Andes Mountains that are exposed to arsenic in drinking water.
| EGAS00001001168 | EGA
Project description:Carnosine is a bioactive food component with several potential health benefits for humans due to its physiological functions. Dietary supplementation with β-alanine or L-histidine can increase the carnosine content of skeletal muscles in chickens. Dietary supplementation with β-alanine or L-histidine has produced a slow-growing chicken variety with high carnosine content in the breast meat; however, the supplementation with L-histidine alone softens the meat toughness, which may affect consumers’ willingness to buy the meat. Gene expression is a key factor that influences meat quality. Understanding the molecular mechanisms that affect carnosine content and meat toughness would allow the production of more value-added slow-growing chickens. We compared global gene expression in chicken breast muscles with differing carnosine contents and meat toughness produced through dietary supplementation with β-alanine or L-histidine. We identified differentially expressed genes involved in regulating myosin, collagen, intramuscular fat, and calpain—factors that may affect meat tenderness. Pathway enrichment analysis indicated that the insulin-related and adipocytokine signaling pathways were altered by dietary supplementation with β-alanine or L-histidine. These data will be useful for future studies on carnosine content and meat toughness in slow-growing chickens.
2021-09-04 | GSE179643 | GEO
Project description:Perfluoroalkyl acid carboxylates and sulfonates (PFAAs) have many consumer and industrial applications. The persistence and widespread distribution of these compounds in humans have brought them under intense scrutiny. Limited pharmacokinetic data is available in humans; however, human data exists for two communities with drinking water contaminated by PFAAs. Also, there is toxicological and pharmacokinetic data for monkeys, which can be quite useful for cross-species extrapolation to humans. The goal of this research was to develop a physiologically-based pharmacokinetic (PBPK) model for PFOA and PFOS for monkeys and then scale this model to humans in order to describe available human drinking water data. The monkey model simulations were consistent with available PK data for monkeys. The monkey model was then extrapolated to the human and then used to successfully simulate the data collected from residents of two communities exposed to PFOA in drinking water. Human PFOS data is minimal; however, using the half-life estimated from occupational exposure, our model exhibits reasonable agreement with the available human serum PFOS data. It is envisioned that our PBPK model will be useful in supporting human health risk assessments for PFOA and PFOS by aiding in understanding of human pharmacokinetics.
Model is encoded by Ruby and submitted to BioModels by Ahmad Zyoud
2020-03-20 | MODEL2003190002 | BioModels
Project description:Liver RNA samples from C57BL6 mice drinking Hydrogen water for 4 weeks We used microarrays to detail the gene expression after drinking hydrogen water.
2017-09-19 | GSE103941 | GEO
Project description:Ceca broiler chicken Raw sequence reads
| PRJNA792023 | ENA
Project description:Rational: Amino acid metabolism is crucial for inflammatory processes during atherogenesis. The endogenous amino acid homoarginine (HA) is a robust biomarker for cardiovascular outcome and mortality with high levels being protective. However, the underlying molecular mechanism remains elusive. Objective: We investigated the effect of HA supplementation on atherosclerotic plaque development with a particular focus on athero-inflammation. Methods and Results: Female apolipoprotein (Apo) E-deficient mice were supplemented with HA (14 mg/L) in drinking water starting two weeks before and continuing throughout a six week-course of Western-type diet (HA-treated). Control mice (Ctrl) received normal drinking water. HA supplementation led to a 2-fold increase in circulating HA concentrations. Plaque- and immunological phenotyping revealed that HA-treated mice exhibited a reduction in atherosclerosis in the aortic root as well as in the brachiocephalic trunk. A substantial decrease in lesion CD3+ T cells suggested a T cell-related effect of HA supplementation. Using mass spectrometry-based proteomics and subsequent pathway analysis together with conventional in vitro techniques such as flow cytometry, various migration and chemotaxis assays as well as super-resolution microscopy, we demonstrate that HA profoundly modulated the spatial organization of the T-cell actin cytoskeleton. Further mechanistic studies revealed an inhibition of T-cell activation and proliferation as well as a striking impairment of the migratory capacities of T cells in response to relevant chemokines by HA, all of which likely contribute to its atheroprotective effects. Conclusion: This study unravels a novel mechanism, by which the amino acid HA reduces atherosclerosis, namely the regulation of T-cell functions crucial for adaptive immunity. We identified that HA modulates the T-cell cytoskeleton and thereby mitigated important T-cell functions during atherogenesis. These findings provide a molecular explanation for the beneficial effects of HA in atherosclerotic cardiovascular disease.
2023-01-30 | PXD023960 | Pride