Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1264498 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR33623528_1.fastq.gz | Fastqsanger.gz | |||
| SRR33623528_2.fastq.gz | Fastqsanger.gz | |||
| SRR33623529_1.fastq.gz | Fastqsanger.gz | |||
| SRR33623529_2.fastq.gz | Fastqsanger.gz | |||
| SRR33623530_1.fastq.gz | Fastqsanger.gz |
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Project description:A healthy rumen is crucial for normal growth and improved production performance of ruminant animals. Rumen microbes participate in and regulate rumen epithelial function, and the diverse metabolites produced by rumen microbes are important participants in rumen microbe-host interactions. SCFAs, as metabolites of rumen microbes, have been widely studied, and propionate and butyrate have been proven to promote rumen epithelial cell proliferation. Succinate, as an intermediate metabolite in the citric acid cycle, is a final product in the metabolism of certain rumen microbes, and is also an intermediate product in the microbial synthesis pathway of propionate. However, its effect on rumen microbes and rumen epithelial function has not been studied. It is unclear whether succinate can stimulate rumen epithelial development. Therefore, in this experiment, Chinese Tan sheep were used as experimental animals to conduct a comprehensive analysis of the rumen microbiota community structure and rumen epithelial transcriptome, to explore the role of adding succinate to the diet in the interaction between the rumen microbiota and host.
2023-06-12 | GSE233696 | GEO
Project description:Neotyphodium coenophialum is an endophytic fungus that infects most tall fescue (Festuca arundinacea) pastures that are commonly used in animal grazing systems in the United States. Beef cattle grazing such pastures are impaired in health and production performance, resulting in a large economic loss in US food-animal production systems. Based on clinical and biochemical blood analyte profiles, hepatic targeted gene and protein analyses, and hepatic transcriptomic profiling, microarray analysis using the BovGene-1_0-v1 array (Affymetrix) was conducted to determine if grazing endophyte-infected tall fescue pastures affects pituitary gene expression profiles of growing beef steers. The specific overall hypothesis tested was that grazing high endophyte-infected pasture would alter the pituitary genomic expression profiles of the same growing steers, especially genes involved in production and secretion of prolactin, growth hormone, thyroid stimulating hormone, and adrenocorticotropic hormone.
2014-10-23 | GSE62570 | GEO
Project description:Neotyphodium coenophialum is an endophytic fungus that infects most tall fescue (Festuca arundinacea) pastures that are commonly used in animal grazing systems in the United States. Beef cattle grazing such pastures are impaired in health and production performance, resulting in a large economic loss in US food-animal production systems. Based on the clinical symptoms and laboratory analyses of blood, it was hypothesized that such affected cattle display liver-specific changes in the expression of gene transcripts that are associated with the metabolic enzymes and transporters critical for beef health and performance. Microarray analysis using the GeneChip Bovine Genome Array (Affymetrix, Inc., Santa Clara, CA) was conducted to determine if grazing endophyte-infected tall fescue pastures affects the liver gene expression profiles of growing beef steers.
2010-11-30 | GSE23894 | GEO
Project description:Ruminant livestock are one of the major contributors to carbon emission contributing the global warming issue. Methane (CH4) produced from enteric microbial fermentation of feed in the reticulo-rumen are known to differ between sheep with different digestive function and fermentation products such as metabolites. However, the molecular mechanism underpinning differences in methane emission remains to be fully elucidated. We extracted a membrane and cytosolic protein fraction of rumen epithelium proteins from both high (H) and low (L) CH4 emitting sheep. Protein abundance differences between the phenotypes were quantified using SWATH-mass spectrometry. We identified 92 proteins annotated as cell surface transporters, of which only solute carrier family (SLC) 40A1 had a greater fold change of protein expression in the high methane emission phenotype. The main difference in protein abundance we found were related to the metabolism of glucose, lactate and processes of cell defence against microbes in the epithelium of sheep in each group. To best of our knowledge, this represents one of the most comprehensive proteomes of ovine rumen epithelium to date.
2023-03-11 | PXD026538 | Pride
Project description:Neotyphodium coenophialum is an endophytic fungus that infects most tall fescue (Festuca arundinacea) pastures that are commonly used in animal grazing systems in the United States. Beef cattle grazing such pastures are impaired in health and production performance, resulting in a large economic loss in US food-animal production systems. Based on clinical and biochemical blood analyte profiles, hepatic targeted gene and protein analyses, and hepatic transcriptomic profiling, microarray analysis using the WT Btau 4.0 Array (version 1.0, Affymetrix, Inc., Santa Clara, CA) was conducted to determine if grazing endophyte-infected tall fescue pastures affects pituitary gene expression profiles of growing beef steers. The specific overall hypothesis tested was that grazing high endophyte-infected pasture would alter the pituitary genomic expression profiles of the same growing steers, especially genes involved in production and secretion of prolactin, growth hormone, thyroid stimulating hormone, and adrenocorticotropic hormone. Sixteen steers were assigned to graze either a low toxic endophyte tall fescue-mixed grass (LE treatment, 5.7 ha, n = 8) or a high toxic endophyte infected tall fescue (HE treatment, 5.7 ha, n = 8) pasture located in the University of Kentucky Agricultural Research Center. All steers had ad libitum access to fresh water, an industry standard mineral-vitamin supplement, and grazed respective pastures for 89 to 105 days. Whole pituitaries were collected for RNA extraction and microarray analysis.
2014-10-23 | E-GEOD-62570 | biostudies-arrayexpress
Project description:Neotyphodium coenophialum is an endophytic fungus that infects most tall fescue (Festuca arundinacea) pastures that are commonly used in animal grazing systems in the United States. Beef cattle grazing such pastures are impaired in health and production performance, resulting in a large economic loss in US food-animal production systems. Based on the clinical symptoms and laboratory analyses of blood, it was hypothesized that such affected cattle display liver-specific changes in the expression of gene transcripts that are associated with the metabolic enzymes and transporters critical for beef health and performance. Microarray analysis using the GeneChip Bovine Genome Array (Affymetrix, Inc., Santa Clara, CA) was conducted to determine if grazing endophyte-infected tall fescue pastures affects the liver gene expression profiles of growing beef steers. Nineteen steers were assigned to graze either a low toxic endophyte tall fescue-mixed grass (LE treatment, 5.7 ha, n = 9) or a high toxic endophyte infected tall fescue (HE treatment, 5.7 ha, n = 10) pasture located in the University of Kentucky Agricultural Research Center. All steers had ad libitum access to fresh water and an industry standard mineral-vitamin supplement. 88 days grazing on pasture. Approximately 2 g of tissue from the right lobe of the liver of each steer were collected for RNA extraction and microarray analysis.
2010-11-30 | E-GEOD-23894 | biostudies-arrayexpress
Project description:<p>This dataset comprises untargeted LC-MS metabolomics profiles of rumen samples from 8 sheep under moderate grazing with supplementary feeding and 8 sheep under intensive grazing with supplementary feeding. Samples were analyzed using Thermo Fisher Scientific mass spectrometers in positive/negative ionization modes. Data were processed with Progenesis QI and are intended for identifying differential metabolites in the rumen between the two grazing intensities with supplementation.</p>
2025-07-20 | MTBLS12752 | MetaboLights
Project description:<p>Introduction: This study aimed to investigate the effects of natural forage from different regions (saline-alkali and non-saline-alkali areas) on the rumen microbiota, muscle metabolites, and meat quality of Tibetan sheep. </p><p>Methods: Targeted and non-targeted metabolomics were used to comprehensively analyze both pasture and meat quality, metabolites. Additionally, 16S rDNA sequencing was employed to analyze the rumen microbial community structure of Tibetan sheep.</p><p>Results: The results showed that the natural saline-alkali forage (HG group) had higher protein content, lower fiber content, higher relative feed value, and better quality. Metabolomic analysis revealed significant accumulation of flavonoids and upregulation of amino acid metabolism in the HG group. Additionally, the natural saline-alkali forage significantly increased amino acid deposition in Tibetan sheep muscle, markedly enhanced the redness value (a*), and significantly reduced the yellowness value (b*). Furthermore, the natural saline-alkali forage altered the rumen fermentation patterns in Tibetan sheep, leading to a significant increase in the abundance of F082 and WCHB1-41, while significantly reducing the abundance of Prevotellaceae_UCG-003. Correlation analysis revealed that these microbial taxa were significantly influenced by the natural saline-alkali forage,while also showing significant associations with muscle quality parameters (a*, b*) and metabolites (cysteine, C18:1n9, etc.).</p><p>Discussion: Overall, the natural saline-alkali forage demonstrated superior quality and metabolite content compared to natural non-saline-alkali forage. Furthermore, this saline-alkali forage significantly influenced the abundance of specific rumen microbiota in Tibetan sheep, consequently regulating</p>
2025-07-19 | MTBLS12748 | MetaboLights