LSA_Chicken GOS
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB24092 | ENA |
REPOSITORIES: ENA
Similar Datasets
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Project description:Objective: The purpose of this study is to describe colonic cells differential transcriptomes and cellular pathways directly modulated by exposure to prebiotics. Prebiotic oligosaccharides are widely used as animal and human in-feed additives for their beneficial effects on the probiotic gut microbiota. A number of studies have revealed a protective effect of several oligosaccharides on dysfunctional or challenged intestinal cells models through microarray and quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods. However, thus far there was limited data assessing the direct effect of such functional foods on on whole-transcriptome of unchallenged intestinal epithelial cells. Methods: Colonic mRNA profiles of confluent Caco-2 cells exposed for 24h to GOS or FOS and their respective mono- and di-saccharides mock treatments were generated for 3 biological replicates. Library pool was sequenced on the Illlumina NextSeq500 over two NextSeq500 High Output 150 cycle kits (Illumina; FC-404-2002). Sequence reads were quality checked with FastQC (version 0.11.3). Using CLC Genomics Workbench 12.03, sequences were trimmed from adaptor, paired and good quality sequence read pairs were mapped to the Homo sapiens GRCh38 reference genome (Hg38). Transcripts counts were normalised and differential gene expression analysed using the RNAseq Analysis Module of CLC Genomics Workbench 12.03. Gene ontology (GO) and Kyoto Encyclopaedia of Genes and Genomes (KEGG) analysis were developed to investigate the statistically significant gene sets (|FC value ≥ 1.5, FDR p-adj. < 0.05) by implementing the NIPA Enrichment R script (v0.6.7.R, https://github.com/ADAC-UoN/NIPA). RNAseq results were validated by qRT–PCR assays. Results: Sequencing generated between 45 to 134 million of 75-bp paired-end sequence reads per sample. An average of 58 million sequence reads per sample were paired and mapped to human genes (genome Homo sapiens GRCh38). For GOS exposure, 89 genes were differentially expressed (fold-change ≥ 1.5 and q-value < 0.05) between GOS and mock-treated groups. Gene ontology functional analysis revealed that genes up-regulated in the presence of GOS were involved in digestion, absorption, transmembrane transport whereas genes involved in drug and xenobiotic metabolic processes were reduced. With FOS treatment, 12 genes were differentially expressed (fold-change ≥ 1.5 and q-value < 0.05) relative to the control group and functional analysis of enriched GO terms revealed up-regulated DEGs were associated with steroid metabolic process. Conclusions: Our study details the first whole-transcriptome analysis of colonic epithelial cells exposed to the direct effect of prebiotics GOS and FOS. Our RNA-seq based characterization of distinctive or shared differentially expressed genes and enriched pathways generated for GOS and FOS would support further network analyses and enable the examination of intricate biological functions within more complex environments.
2020-02-15 | GSE145303 | GEO
Project description:Our study in mice investigated the potential effects of the prebiotics GOS and inulin administrated during gestation on the development of DSS-induced chronic colitis in the offspring. Mothers were given or not during gestation a diet enriched in the prebiotics GOS and inulin. Eight to ten weeks old male offspring were treated or not with 3 cycles of DSS in drinking water, one cycle consisting of 2 days with DSS and 5 days without DSS.
2022-12-15 | E-MTAB-12176 | biostudies-arrayexpress
Project description:Transcriptome analysis of Bifidobacterium pseudocatenulatum CECT 7765 growing with Galacto-oligosaccharides (GOS) as carbon source.
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Project description: Not available
| S-EPMC8974727 | biostudies-literature
Project description:The great obstetrical syndromes (GOS) encompass a spectrum of pregnancy-related complications associated with defective deep placentation, including hypertensive pregnancies, preterm birth, and fetal growth restriction. We performed pre-symptomatic phase proteomic profiling of serum samples from 384 nulliparas and 65 multiparas to characterize the molecular changes prior to the onset of different GOS conditions.
2025-08-22 | PXD066032 | Pride
Project description:Understanding the interfacial structure between nanomaterials and lipoproteins is crucial for gaining profound insights into how nanomaterials impact lipoprotein structure and interfere with lipid metabolism. In this study, we employed graphene oxide (GO) nanosheets (NSs) with precisely controlled surface hydrophilicity as model nanomaterials to investigate the influence of surface properties on lipoprotein corona formation. Our findings reveal that hydrophobic GOs exhibit a greater affinity for binding with low-density lipoprotein (LDL). To explore the interaction between GOs and LDL at the interface, we employed advanced techniques such as X-ray reflectivity, circular dichroism, and molecular simulation. Specifically, hydrophobic GOs showed a preference for associating with the lipid components of LDL, while hydrophilic ones tended to bind with apolipoproteins. Furthermore, our research demonstrated that these GOs distinctly modulate various lipid metabolism pathways, including LDL recognition, uptake, hydrolysis, efflux, and lipid droplet formation. This comprehensive investigation underscores the significance of structural analysis at the nano-biomolecule interface and emphasizes the critical role of nanomaterial’s surface properties in mediating cellular lipid metabolism. Our findings carry profound implications and can serve as a source of inspiration for the future design of biocompatible nanomaterials and nanomedicines.
2025-05-06 | PXD044475 | Pride