Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1173338 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR31054644_1.fastq.gz | Fastqsanger.gz | |||
| SRR31054644_2.fastq.gz | Fastqsanger.gz | |||
| SRR31054645_1.fastq.gz | Fastqsanger.gz | |||
| SRR31054645_2.fastq.gz | Fastqsanger.gz | |||
| SRR31054646_1.fastq.gz | Fastqsanger.gz |
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Project description:The aim of this study was to explore whether, and if so, how Bacillus subtilis KC1 can enhance the growth performance of broilers that have been adversely affected by Mycoplasma gallisepticum (MG) infection. A total of 96 1-day-old male broilers were randomly divided into 4 groups: the control group (basal diet), the MG group (basal diet + MG challenge), the Bacillus subtilis KC1 group (basal diet + Bacillus subtilis KC1 supplementation), the Bacillus subtilis KC1 + MG group (basal diet + Bacillus subtilis KC1 supplementation + MG challenge). The trial lasted 42 days, and the results showed that the MG group had significantly reduced body weight and average daily gain, as well as increased feed conversion ratio of broilers, compared to the control group. Dietary supplementation with Bacillus subtilis KC1 significantly improved the growth performance of MG-infected broilers. In addition, dietary supplementation with Bacillus subtilis KC1 significantly improved oxidative stress and inflammatory response markers, characterized by increased superoxide dismutase levels and reduced levels of malondialdehyde, interleukin-1β, and tumor necrosis factor-α. Furthermore, both metabolomics and transcriptomics analyses indicated that MG infection markedly disrupted amino acid metabolism in broilers, whereas Bacillus subtilis KC1 supplementation alleviated the abnormal amino acid metabolism caused by MG infection. These results suggested that Bacillus subtilis KC1 may alleviate the poor growth performance caused by MG infection in broilers by improving amino acid metabolism.
2024-10-23 | GSE273913 | GEO
Project description:An experiment was conducted to investigate the effects of dietary inclusion of rye, a model ingredient to increase gut viscosity, between 14 and 28 days of age on immune competence related parameters and performance of broiler. A total number of 960 one-day-old male Ross 308 chicks were weighed and randomly allocated to 24 pens (40 birds per pen), and the birds in every 8 replicate pens were assigned to one of three experimental diets including graded levels, 0%, 5%, and 10% of rye. Tested immune competence related parameters were composition of the intestinal microbiota, genes expression in gut tissue, and gut morphology. The inclusion of 5% or 10% rye in the diet (d14-28) resulted in decreased performance and litter quality, but in increased villus height and crypt depth in the small intestine (jejunum) of the broilers. Relative bursa and spleen weights were not affected by dietary inclusion of rye. In the jejunum, no effects on number and size of goblet cells, and only trends on microbiota composition in the digesta were observed. Dietary inclusion of rye affected expression of genes involved in cell cycle processes of the jejunal enterocyte cells, thereby influencing cell growth, cell differentiation and cell survival, which in turn were consistent with the observed differences in the morphology of the gut wall. In addition, providing rye-rich diets to broilers affected the complement and coagulation pathways, which are parts of the innate immune system. These pathways are involved in eradicating invasive pathogens. Overall, it can be concluded that inclusion of 5% or 10% rye to the grower diet of broilers had limited effects on performance. Ileal gut morphology, microbiota composition of jejunal digesta, and gene expression profiles of jejunal tissue, however, were affected by dietary rye inclusion level, indicating that rye supplementation to broiler diets might affect immune competence of the birds.
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Project description:The objectives of this study were to determine the protective effects of organic acids (OA) in broilers exposed to Salmonella Pullorum challenge at early stage and to explore the potential benefits of OA by metabolomics analysis. The treatment groups included non-challenged, S. Pullorum-challenged, challenged group supplemented with virginiamycin, challenged group supplemented with OA in drinking water, challenged group supplemented with OA in feed, and challenged group supplemented with OA in combination in drinking water and feed. Results showed that early Salmonella challenge induced an acute systemic infection of broilers in the starter phase, followed by the grower phase without triggering clinical signs. OA supplementation promoted growth during the grower phase, and while OA in water contributed more, the positive effects of OA in combination were comparable to those of virginiamycin supplementation in challenged birds. Furthermore, OA could modulate the systemic metabolic perturbation caused by challenge as it alleviated stress responses mediated by steroid hormone, potentially attenuated antioxidant or immune defense, and modified intestinal microbiota metabolism. These results show a metabolic mechanism that may partly explain the potential benefits of OA in Salmonella challenged birds, and may contribute to the use of OA to control or reduce S. Pullorum infection in farm animals.
2021-05-17 | MTBLS1274 | MetaboLights
Project description:This study investigated the transcriptomic changes in the jejunum and pancreas of broiler chickens fed a diet supplemented with sugarcane bagasse (SB) to elucidate the physiological response of broilers to insoluble dietary fiber. Differentially expressed genes (DEGs) were identified (significant threshold at absolute log2 (fold change) ≥ 1 and P < 0.05) and functionally annotated using gene ontology (GO; gene counts ≥ 2 and P < 0.05 as significant) analysis. Compared with the control broilers, SB-fed broilers presented significantly (P < 0.05) greater weight gain and improved feed conversion ratio at the end of the grower phase. A total of 41 (18 upregulated and 23 downregulated) jejunal and 125 (36 upregulated and 89 downregulated) pancreatic DEGs were identified from the differential expression analysis. The SB-fed broilers showed coordinated upregulation of DEGs involved in nutrient transport (TRPM3, SLC16A4, FFAR4, and RBP4A), epithelial integrity (WNT9A, GAL3ST2, TFF3, and AGR2), immune activation (DUOX2 and MHCY6), and growth regulation (POU1F1). Gene ontology enrichment further revealed significant activation of biological processes, including maintenance of the gastrointestinal epithelium, gastric acid secretion, sodium ion transport, and response to oxidative stress, in the pancreatic tissue. These findings reveal that SB supplementation triggers beneficial, tissue-specific transcriptomic adaptations that support nutrient uptake, epithelial repair, immune response, and oxidative balance, thereby enhancing growth. This study offers new insights into how broilers respond to dietary fiber supplementation at the transcriptomic level, supporting the strategic use of SB in sustainable poultry production.
2026-05-13 | GSE330384 | GEO
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.
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Project description:Background: This study investigated the effects of dietary soy isoflavone supplementation on reproductive performance, antioxidant capacity, and colostrum-derived exosomal microRNA profiles in sows, with the aim of exploring the molecular basis of maternal–offspring integrated regulation. A total of 120 Landrace × Yorkshire sows were assigned to either a control diet or a diet supplemented with 200 mg/kg soy isoflavone from gestation day 106 to lactation day 28. Reproductive performance and serum antioxidant indices were evaluated, and colostrum-derived exosomes were isolated for small RNA sequencing and bioinformatic analysis. Results: Dietary soy isoflavone supplementation significantly increased the total number of piglets born, the number of live-born piglets, litter weight at birth, and litter weight at weaning, while shortening farrowing duration (P < 0.05). In addition, soy isoflavone significantly elevated serum total antioxidant capacity and catalase activity on lactation day 21 (P < 0.05). Transmission electron microscopy, nanoparticle tracking analysis, and flow cytometry confirmed the successful isolation of colostrum-derived exosomes. Small RNA sequencing showed that most microRNAs ranged from 18 to 26 nucleotides, with a predominant peak at 22–23 nucleotides. Principal component analysis and differential expression analysis revealed that soy isoflavone markedly reshaped the microRNA cargo of colostrum-derived exosomes. Functional enrichment analysis indicated that the predicted target genes of differentially expressed microRNAs were mainly involved in transcriptional regulation, kinase-mediated signaling, inflammatory responses, and metabolic pathways, including mitogen-activated protein kinase, Ras, Rap1, endocytosis, autophagy, and adherens junction pathways. Integrated network analyses further suggested coordinated regulation of inflammatory signaling and metabolic homeostasis. Conclusions: Dietary soy isoflavone supplementation improved sow reproductive performance and antioxidant capacity, while reshaping colostrum-derived exosomal microRNA profiles and their associated regulatory networks. These findings provide a potential molecular basis for maternal–offspring integrated regulation.
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Project description:Effects of dietary paraformic acid supplementation on intestinal microbiota of broilers
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Project description:Iron is an essential metal for both animals and microbiota, and neonates and infants of humans and animals, in general, are at the risk of iron insufficient. However, excess dietary iron usually causes negative impacts on the host and microbiota. This study aimed to investigate over-loaded dietary iron supplementation on growth performance, the distribution pattern of iron in the gut lumen and the host, intestinal microbiota, and intestine gene expression profile of piglets. Sixty healthy weaning piglets were randomly assigned to six groups: fed with diets supplemented with ferrous sulfate monohydrate at the dose of 50ppm (Fe50 group), 100ppm (Fe100 group), 200ppm (Fe200 group), 500ppm (Fe500 group), and 800ppm (Fe800) for three weeks. The results indicated that increasing iron had no effects on growth performance but increased diarrheal risk and iron deposition in intestinal digesta, tissues of intestine and liver, and serum. High iron also reduced serum iron-binding capacity, apolipoprotein, and immunoglobin A. The RNA-sequencing analysis revealed that iron changed colonic gene expression profile, such as interferon gamma-signal transducer and activator of transcription 2 based anti-virus and bacteria gene network. Increasing iron also shifted cecal and colonic microbiota, such as reducing alpha diversity, Clostridiales and Lactobacillus reuteri, and increasing Lactobacillus and Lactobacillus amylovorus. Collectively, this study demonstrated that high dietary iron increased diarrheal incidence, changed intestinal immune response-associated gene expression, and shifts gut microbiota. The results would enhance our knowledge of iron effects on the gut and microbiome in piglets, and further contribute to understanding these aspects in humans.
2020-09-20 | GSE158245 | GEO