Ontology highlight
ABSTRACT:
PROVIDER: PRJNA743427 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR15033885_1.fastq.gz | Fastqsanger.gz | |||
| SRR15033885_2.fastq.gz | Fastqsanger.gz | |||
| SRR15033886_1.fastq.gz | Fastqsanger.gz | |||
| SRR15033886_2.fastq.gz | Fastqsanger.gz | |||
| SRR15033887_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 12 |
Similar Datasets
Project description:In this study, we studied the fibrolytic potential of the rumen microbiota in the rumen of 6 lambs separated from their dams from 12h of age and artificially fed with milk replacer (MR) and starter feed from d8, in absence (3 lambs) or presence (3 lambs) of a combination of the live yeast Saccharomyces cerevisiae CNCM I-1077 and selected yeast metabolites. The fibrolytic potential of the rumen microbiota of the lambs at 56 days of age was analyzed with a DNA microarray (FibroChip) targeting genes coding for 8 glycoside hydrolase (GH) families.
2019-10-01 | GSE122256 | GEO
Project description:The time-resolved impact of monensin on the active rumen microbiome in a rumen-simulating technique (Rusitec) was studied with metaproteomic and metabolomic approaches. Upon monensin treatment, decreased catabolism linked to fiber degradation was observed by the reduced abundance of proteins assigned to fibrolytic bacteria and glycoside hydrolases, sugar transporters and carbohydrate metabolism. Reduced amounts of ammonium as well as branched-chain fatty acids pointed towards a decreased proteolytic activity. The family Prevotellaceae exhibited increased resilience in the presence of monensin, with a switch of metabolism from acetate to succinate production. Prevotella species harbor a membrane bound electron transfer complex, which drives the reduction of fumarate to succinate, the substrate for propionate production in the rumen habitat. Besides the increased succinate production, a concomitant depletion of methane concentration was observed upon monensin exposure. Our study demonstrates that Prevotella sp. shifts its metabolism successfully in response to monensin exposure and Prevotellaceae represents the key bacterial family stabilizing the rumen microbiota during exposure to monensin.
2022-12-11 | PXD034099 | Pride
Project description:Fibrolytic bacteria in the rumen of cow Targeted Locus (Loci)
| PRJNA303110 | ENA
Project description:Ruminants are the most efficient herbivorous animals to transform plant biomass into edible products, principally thanks to the rumen microbiota that produces a large array of enzymes responsible for the hydrolysis of plant cell wall polysaccharides. Several biotic and abiotic factors influence the efficiency of fiber degradation, which can ultimately impact the animal productivity and health. To provide more insight on mechanisms involved in the modulation of fibrolytic activity, a functional DNA microarray targeting genes coding for key enzymes involved in cellulose and hemicellulose degradation by rumen microbiota was designed. The DNA microarray, designated FibroChip, was validated using targets of increasing complexity. This new tool demonstrated sensitivity and specificity as well as explorative and semi-quantitative potential. The FibroChip was designed with the objective to propose a high throughput tool that enables to get a rapid picture of the capacity of rumen microorganisms to degrade cellulose and hemicellulose based on a targeted metatranscriptomics approach. We chose to focus on a few number of genes by targeting main ruminal fibrolytic microorganisms and selected CAZyme families that may have a pivotal role in cellulose and hemicellulose degradation. The microarray targets the coding sequence of catalytic domains from 8 CAZyme families involved in cellulose and hemicellulose degradation (i.e. glycoside hydrolases GH5, GH9, GH10, GH11, GH43 and GH48, and carbohydrate esterases CE1 and CE6). Taken together, these families present complementary activities needed for the complete degradation of cellulose and hemicellulose. In total, 392 nucleic sequences encoding 363 GH and 29 CE were kept for the microarray design. These sequences originated from 41 bacterial species, 4 protozoal species and 10 fungal species. The microarray is composed of 1631 25-mer probes. GoArrays strategy consisting by associating 2 25-mer probes targeting the same gene (Rimour et al., 2005) was also emplyed to determine 2618 composite probes of 54-mers. Triplicate of probes of 25 and 54-mers were synthetized in situ on an Agilent 8x15K DNA microarray. The microarray contained also 382 Agilent internal control probes including positive controls, negative controls and quality control probes. Probes were randomly placed on the array to avoid position bias.
2017-12-01 | GSE107550 | GEO
Project description:The rumen harbors a complex mixture of archaea, bacteria, protozoa and fungi that efficiently breakdown plant biomass and its complex dietary carbohydrates into soluble sugars that can be fermented and subsequently converted into metabolites and nutrients utilized by the host animal. While rumen bacteria populations have been well documented, only a fraction of the rumen eukarya are taxonomically and functionally characterized, despite the recognition that they contribute to the cellulolytic phenotype of the rumen fauna. To investigate how anaerobic fungi actively engage in digestion of recalcitrant fiber that is resistant to the initial stages of rumination, we resolved genome-centric metaproteome and metatranscriptome datasets generated from switchgrass samples incubated in nylon bags within the rumen of cannulated dairy cows for 48 hours.
2020-10-14 | PXD017007 | Pride
Project description:The purpose of this study was to determine the effects of normal diet feed (NF) and alternative diet feed (AF) on animal performance, gene expression in adipose, liver, and muscle, and changes in bacteria and fungi in the rumen of Bos-Taurus using high-throughput sequencing methods. In addition, Interactions between differentially expressed genes (DEGs) in major metabolic organs and rumen bacteria /fungi were studied. A total of 34,360 genes were found to be expressed across all tissues examined based on transcriptome analysis. According to our findings, 34, 36, 28 genes were differentially expressed in the adipose, liver, and muscle tissues, respectively. A majority of DEGs identified were related to osteoclast differentiation, phagosomes, and immune-functions etc. A study of rumen samples revealed that Firmicutes and Bacterioidetes were the most common phyla. An AF diet significantly increased Firmicutes abundance and reduced Bacterioidetes abundance (p< 0.05). Genus-level analysis revealed that the occurrence of Faecalicatena, Intestinimonas, Lachnoclostridium, Faecalicatena, and Intestinimonas was higher (p < 0.05) in animals fed with the AF diet than in animals fed with an NF diet. As for fungi, Neocallimastigomycota accounted for 98.2% of the NF diet and 86.88% of the AF diet. The AF increased the abundance of Orpinomyces (21.15% to 29.7%), Piromyces (0.1% to 1.8%), and other fungi, but reduced the abundance of Neocallimastix (72.0% to 25.2%). Analysis of the correlation between DEGs and microbes showed that rumen bacteria/fungi significantly influenced expression levels of genes in adipose, liver, and muscle tissues
2024-09-21 | GSE277211 | GEO
Project description:MuRF1 -/- w/ Fenofibrate treatment leads to the reduction of proteolytic and fibrolytic enzymes, increasing hypertrophy
2016-03-01 | GSE68480 | GEO