Ontology highlight
ABSTRACT:
PROVIDER: PRJNA728387 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR14474103_1.fastq.gz | Fastqsanger.gz | |||
| SRR14474103_2.fastq.gz | Fastqsanger.gz | |||
| SRR14474104_1.fastq.gz | Fastqsanger.gz | |||
| SRR14474104_2.fastq.gz | Fastqsanger.gz | |||
| SRR14474105_1.fastq.gz | Fastqsanger.gz |
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Project description:Subclinical necrotic enteritis (SNE) is one of the serious threats to the poultry industry. Probiotics have been proven to exert the beneficial effects in controlling SNE. However, the exact mechanisms of probiotics have not been fully elucidated, and few researchs have focused on their impact on miRNAs. Therefore, the purpose of this study was to explore the miRNA expression profles in the ileum of broiler chickens during probiotic supplement treatment for SNE. 180 newly hatched male chicks were randomly allocated in three groups, including negative control group(NC), SNE infection group(PC) and Bacillus licheniformis H2 pre-treatment group (BL). Illumina high-throughput sequencing was conducted to identify the miRNA expression of three groups. The results showed that 628 miRNAs, including 582 known miRNAs and 46 novel miRNAs, were detected in libraries. The target genes of 57 significantly differentially expressed miRNAs were predicted and annotated, which were found to partly enrich in pathways related to immunity and inflammation such as tumor necrosis factor receptor binding, immune response-regulating signaling pathway, activation of NF-kappaB-inducing kinase activity, interleukin-15 production, Toll-like receptor 2 signaling pathway and MAP kinase tyrosine/serine/threonine phosphatase activity. Our results provided comprehensive miRNA expression profles of these three different treatment groups. And these findings suggested that H2 could exert beneficial effects in controlling SNE may through immune and inflammatory response associated to altered miRNA expression.
2020-06-03 | GSE151627 | GEO
Project description:Purpose: Analyze gene expression of necrotic enteritis C. perfringens in intestinal chicken loops comparing with in vitro conditions
2016-10-07 | GSE79456 | GEO
Project description:Gut microbiota is an unignored target in maintaining intestinal homeostasis due to its regulatory effects on intestinal health through multiple mechanisms, including enhancing intestinal barriers, modulating microbial diversity, secreting various metabolites, etc. Bacteriocins produced by probiotics have been gradually proved vital for intestinal diseases intervention, however, the corresponding mechanisms have received less attention and the whole story of their regulative activities are hard to be fully uncovered. The two-peptide Plantaricin NC8 (PLNC8), coded by gene plnc8, is a bacteriocin ubiquitously produced by Lactobacillus plantarum, has been regarded as the potential vital bacteriocin for the anti-inflammatory effects of Lactobacillus plantarum. This study exploited CRISPR-cas9 and prokaryotic gene overexpression techniques to construct the plnc8 strains for the anti-inflammatory mechanism investigation. Based on the metagenomics, transcriptomics and metabolomics analysis, the anti-enteritis mechanism of PLNC8 systematically in DSS-induced enteritis models were comprehensively revealed. PLNC8 induced alterations in the composition of gut microbiota composition, promoting the alterations of multiple probiotics such as Eubacterium plexicaudatum, Doreasp.5-2, Enterococcus cecorum and Prevotella oulorum. Besides, various metabolites produced by the gut microbiota were influenced, and the key metabolites of xanthine, hypoxanthine, and L-histidine were regulated via purine and histidine metabolic pathways. These metabolites further inhibited p38 MAPK phosphorylation of enterocytes induced by DSS. Ultimately, the intestinal barrier repairment and anti- enteritis were achieved, proving the anti-enteritis effects of PLNC8 via microbe-metabolites-enterocyte axis.
2024-08-20 | GSE274981 | GEO
Project description:Necrotic enteritis (NE) in broiler chickens, caused by the overgrowth of toxin-producing strains of Clostridium (C.) perfringens, results in the development of necrotic lesions, compromised intestinal health, and significant economic losses in poultry production. This study aims to analyze the blood proteome of broiler chickens affected by NE, providing insights into the host's response to the infection. Using MS/MS-based proteomics, blood plasma samples from broilers with necrotic lesions of different severity were analyzed and compared to healthy controls. A total of 412 proteins were identified, with 63 showing significant differences and (for some of those) correlating with disease severity. Gene Set Enrichment Analysis (GSEA) revealed that proteins affected by NE were predominantly associated with the immune and signaling processes and extracellular matrix (ECM) structures. Notably, regulated proteins were significantly involved in bioprocesses related to complement activation, acute phase reaction, proteolysis and humoral immune response. The findings suggest that the changes in plasma proteins in response to NE are driven by the host's intensified efforts to counteract the infection, demonstrating a.o. a notable reduction in peptides from ECM-related proteins in the blood of NE-affected birds. Overall, proteomics results underscored the attempts of the host to manage tissue damage and inflammation, indicating a coordinated effort to mitigate the pathogenic impact of C. perfringens. This study provides a deeper understanding of the host-pathogen interactions and potential targets for therapeutic intervention.
2025-05-07 | PXD054172 | Pride
Project description:The intestinal microbiome forms dynamic ecosystem whose balanced composition and functioning are essential for maintaining overall gut health and well-being in living organisms. In broilers, dysbiosis disrupts the microbiota-host balance, often without obvious clinical symptoms but with intestinal inflammation, leading to impaired animal performance and significant economic losses. This study utilizes an in vivo model of dysbiosis to investigate the blood proteome response of broilers to intestinal imbalance. Microscopic histological changes in the gut (shorter villi, increased crypt depth, p<0.0001) were observed in the duodenal and jejunal tissue of challenged birds. Elevated levels of permeability markers faecal ovotransferrin (p < 0.0001) and serum iohexol (p= 0.0009) additionally indicated increased intestinal permeability in challenged group compared to control. The MS/MS-based proteomics analysis was performed on broilers’ blood plasma enabling identification of 388 proteins, 25 of which demonstrated significant difference between the groups. Functional analysis showed activation of immune response, signalling, and interspecies interaction, while proteins related to cellular physiology, cell-cell communication, and extracellular matrix (ECM) processes were suppressed. Protein-protein interaction (PPI) analysis revealed two clusters of downregulated proteins involved in ECM organization and cell adhesion. These results suggest that the dysbiosis challenge alters plasma protein expression as the host prioritizes immune defense over structural maintenance. The activation of immune processes and suppression of ECM pathways highlight potential biomarkers and therapeutic targets for addressing dysbiosis.
2025-07-14 | PXD056546 | Pride
Project description:Analysis of the blood proteome allows identification of proteins related to changes upon certain physiological conditions. The pathophysiology of necrotic enteritis (NE) has been extensively studied. While intestinal changes have been very well documented, data addressing NE-induced alterations in the blood proteome are scant, although these might have merit in diagnostics. Considering recent technological advancements in proteomics and pressing need for tools to access gut health, the current study employs mass-spectrometry (MS) proteomics to identify biomarkers for gastrointestinal health of broilers chickens. Untargeted proteomics investigation was conducted on chicken blood plasma in animals under NE challenge. Two MS-strategies were used for analysis: DDA (Data Dependent Acquisition) and DIA (Data Independent Acquisition). DIA showed superior completeness and quantification of the acquired data, despite high degree of agreement in identification and quantification between both approaches. Identified differentially expressed proteins shared by DDA and DIA represent responses of animals to infection and may serve as potential biomarkers. Experimental validation through ELISA immunoassays for selected regulated proteins confirmed medium-to-high levels of inter-protein correlation, along with positive correlation between the methods. Functional analysis showed enhanced defense, immune, and acute phase responses, alongside reduced signaling, regulatory, and cell adhesion activities in infected animals.
2025-05-13 | PXD050461 | Pride
Project description:Analysis of the blood proteome allows identification of proteins related to changes upon certain physiological conditions. The pathophysiology of necrotic enteritis (NE) has been extensively studied. While intestinal changes have been very well documented, data addressing NE-induced alterations in the blood proteome are scant, although these might have merit in diagnostics. Considering recent technological advancements in proteomics and pressing need for tools to access gut health, the current study employs mass-spectrometry (MS) proteomics to identify biomarkers for gastrointestinal health of broilers chickens. Untargeted proteomics investigation was conducted on chicken blood plasma in animals under NE challenge. Two MS-strategies were used for analysis: DDA (Data Dependent Acquisition) and DIA (Data Independent Acquisition). DIA showed superior completeness and quantification of the acquired data, despite high degree of agreement in identification and quantification between both approaches. Identified differentially expressed proteins shared by DDA and DIA represent responses of animals to infection and may serve as potential biomarkers. Experimental validation through ELISA immunoassays for selected regulated proteins confirmed medium-to-high levels of inter-protein correlation, along with positive correlation between the methods. Functional analysis showed enhanced defense, immune, and acute phase responses, alongside reduced signaling, regulatory, and cell adhesion activities in infected animals.
2025-05-07 | PXD061607 | Pride
Project description:Analysis of the blood proteome allows identification of proteins related to changes upon certain physiological conditions. The pathophysiology of necrotic enteritis (NE) has been extensively studied. While intestinal changes have been very well documented, data addressing NE-induced alterations in the blood proteome are scant, although these might have merit in diagnostics. Considering recent technological advancements in proteomics and pressing need for tools to access gut health, the current study employs mass-spectrometry (MS) proteomics to identify biomarkers for gastrointestinal health of broilers chickens. Untargeted proteomics investigation was conducted on chicken blood plasma in animals under NE challenge. Two MS-strategies were used for analysis: DDA (Data Dependent Acquisition) and DIA (Data Independent Acquisition). DIA showed superior completeness and quantification of the acquired data, despite high degree of agreement in identification and quantification between both approaches. Identified differentially expressed proteins shared by DDA and DIA represent responses of animals to infection and may serve as potential biomarkers. Experimental validation through ELISA immunoassays for selected regulated proteins confirmed medium-to-high levels of inter-protein correlation, along with positive correlation between the methods. Functional analysis showed enhanced defense, immune, and acute phase responses, alongside reduced signaling, regulatory, and cell adhesion activities in infected animals.
2025-05-13 | PXD050473 | Pride