Broiler
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA979953 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR24833944_1.fastq.gz | Fastqsanger.gz | |||
| SRR24833944_2.fastq.gz | Fastqsanger.gz | |||
| SRR24833945_1.fastq.gz | Fastqsanger.gz | |||
| SRR24833945_2.fastq.gz | Fastqsanger.gz | |||
| SRR24833946_1.fastq.gz | Fastqsanger.gz |
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Project description:The embryo to neonate transition is a critical period of development that has significant impact on broiler production. During this time important genetic programs governing metabolism and growth are established. The goal of this work was to study the effects of early post-hatch (PH) development and time of initiation of feeding on activation of the genetic programs regulating tissue growth and metabolism in liver, brain, duodenum and breast muscle in broiler chickens. We used chicken genome GeneChip microarrays in a replicated experiment to detail the global program of gene expression in liver, whole brain, duodenum and breast muscle during the post-hatch transition in response to the initiation of feeding. Experiment Overall Design: Tissue samples were collected at hatch and 7 days post-hatch for RNA extraction and hybridization on Affymetrix chicken genome GeneChip microarrays. We analyzed three replicate samples of total RNA on separate microarrays for each tissue at hatch and at day 7 post-hatch in order to increase the resolution of expression profiles. To that end, for each tissue we pooled samples from 4-5 individual chicks at both time points to increase representation of the replicate total RNA samples analyzed on the microarrays.
2009-04-04 | E-GEOD-15413 | biostudies-arrayexpress
Project description:The embryo to neonate transition is a critical period of development that has significant impact on broiler production. During this time important genetic programs governing metabolism and growth are established. The goal of this work was to study the effects of early post-hatch (PH) development and time of initiation of feeding on activation of the genetic programs regulating tissue growth and metabolism in liver, brain, duodenum and breast muscle in broiler chickens. We used chicken genome GeneChip microarrays in a replicated experiment to detail the global program of gene expression in liver, whole brain, duodenum and breast muscle during the post-hatch transition in response to the initiation of feeding.
2009-03-27 | GSE15413 | GEO
Project description:Optimization of broiler chicken breast muscle protein accretion is key for the efficient production of poultry meat, whose demand is steadily increasing. In a context where antimicrobial growth promoters use is being restricted, it is important to find alternatives as well as to characterize the effect of immunological stress on broiler chicken growth. Despite of its importance, research on broiler chicken muscle protein dynamics has been mostly limited to the study of mixed protein turnover. The present study aims to characterize the effect of a bacterial challenge and the feed supplementation of a citrus and a cucumber extract on broiler chicken individual breast muscle proteins fractional synthesis rates (FSR) using a recently developed dynamic proteomics pipeline. 21 day-old broiler chickens were administered a single 2H2O dose before being culled at different timepoints. A total of 60 breast muscle protein extracts from five experimental groups (Unchallenged, Challenged, Control Diet, Diet 1 and Diet 2) were analyzed using a DDA proteomics approach. Proteomics data was filtered in order to reliably calculate multiple proteins FSR making use of a newly developed bioinformatics pipeline. Broiler breast muscle proteins FSR uniformly decreased following a bacterial challenge, this change was judged significant for 15 individual proteins, the two major functional clusters identified as well as for mixed breast muscle protein. Citrus or cucumber extract feed supplementation did not show any effect on the breast muscle protein FSR of immunologically challenged broilers. The present study has identified potential predictive markers of breast muscle growth and provided new information on broiler chicken breast muscle protein turnover which could be essential for improving the efficiency of broiler chicken meat production.
2024-04-04 | PXD044325 | Pride
Project description:Proteomic analysis was performed on the proximal tibia head from healhty and BCO-affected broiler (meat-type) chickens using Bruker Daltonics amaZon series Mass Spectrometer. This analysis was undertaken to identify key protein signature involved in BCO, a common cause of lameness.
2023-05-10 | PXD029085 | Pride
Project description:As an essential micronutrient for animals, vitamin E plays crucial physiological roles in reproduction, antioxidant and immune functions, and lipid metabolism. The objective of this study was to reveal molecular mechanism of vitamin E on intramuscular fat (IMF) deposition through transcriptome sequencing of pectoral muscle in broiler chickens. A total of 240 one-day-old health female chicks were randomly allocated into five dietary treatments with each treatment six replicates. The birds were fed basal diet supplemented with 0 and 100 IU/kg vitamin E in the form of DL-α-tocopheryl acetate, respectively. The body weight, carcass performance and IMF content were measured. Transcriptome profile of pectoral muscle in 35-day-old chickens were sequencing from the control and 100 IU/kg vitamin E treatment. Functional enrichment analyzes of differentially expressed genes (DEGs) based on Gene ontology (GO), KEGG pathway and bio function, and network were performed. Results shown that IMF content of broiler chickens were significantly increased at 12.89% (P < 0.05) between 100 IU/kg vitamin E treatment and control. Transcriptome sequencing results for pectoralis major muscle of 100 IU vitamin E-supplemented and the control groups identified 57 up-regulated and 102 down-regulated DEGs. These DEGs were significantly enriched (FDR corrected P-value < 0.05) in 13 of 236 GO terms involved in muscle development- and lipid metabolism. Pathway functional enrichment analysis revealed that the DEGs were significantly enriched in three signalling pathways (FDR corrected P-value < 0.05). Two of them, MAPK signaling pathway and FoxO signaling pathway, play key roles in muscular and lipid metabolism. It is worth mentioning that 46 DEGs were significantly enriched in 28 skeletal and muscular system development and function categories and 31 DEGs were significantly enriched in 17 lipid metabolism function categories. Moreover, three lipid metabolism and muscular development-related networks of DEGs were also identified. These DEGEs, pathways, function categories and networks identified in this study provide us new insights for the vitamin E regulation of the IMF deposition in broiler chickens.
2021-07-08 | GSE179569 | GEO
Project description:Molecular mechanisms of intestinal mucosal injury induced by lipopolysaccharide challenge in broiler chickens
2024-03-04 | PXD050298 |
Project description:We investigated the effects of heat stress on the liver transcriptome of 3wk-old chicks of a broiler line, the Fayoumi and an advanced intercross line (AIL). Transcriptome sequencing of 48 male chickens using Illumina HiSeq 2500 technology yielded an average of 3.4 million, 100-base -pair single-end, reads per sample.
2017-10-04 | E-MTAB-4569 | biostudies-arrayexpress
Project description:Aflatoxin is a toxic secondary metabolite produced by the fungi Aspergillus flavus and A. parasiticus. Ingredients of livestock and poultry feed are often contaminated with aflatoxin. Aflatoxin affects many species including humans, dogs, cats, pigs, cattle, and poultry, with liver being the major organ affected. A chicken model was used to evaluate the effect of aflatoxin on hepatic gene expression. Seventy five day-old male broiler chicks were assigned to three dietary treatments (5 replicates of 5 chicks each) from hatch to day 21. The diets contained 0, 1 and 2 mg/kg aflatoxin/kg of feed. Feed intake, body weight gain, liver weights and serum chemistry were evaluated at the end of the study and liver samples were collected in RNase free tubes and stored at -80 ºC. Aflatoxin reduced (P ≤ 0.05) feed intake, body weight, serum total proteins, serum calcium and phosphorus but increased (P < 0.01) liver weights in a dose dependent manner. Microarray experiments were conducted using chicken long oligo arrays, to identify the changes in hepatic gene expression in chicks fed 0 (control) and 2mg/kg aflatoxin/kg of feed. A loop design was followed for microarray experiments with three technical and four biological replicates per treatment group. RNA was extracted from liver tissue and its quality was determined using gel electrophoresis. High quality RNA was purified from DNA contamination, reverse transcribed to cDNA and was used for microarray hybridizations. Microarray data was analyzed using a 2-step ANOVA model using GenePix and MAANOVA softwares, and the differentially expressed genes were identified using SAM, TIGR, and Cluster softwares. The microarray data was validated using real time PCR. It is hypothesized that genes associated with antioxidant, detoxification and immune systems were downregulated and the genes involved in cell proliferation were up-regulated in birds fed aflatoxin compared to controls Keywords: aflatoxin, chicken liver, microarrays, gene expression
2007-07-31 | GSE8603 | GEO
Project description:Selenium (Se) is an essential cofactor of the antioxidant enzyme glutathione peroxidase beside other functions. The evaluation of optimal selenium supplementation in chicken feed and the subsequent effects on animal health and performance requires comprehensive knowledge of the overall metabolic effects of selenium. Therefore the gene expression was measured in the control group with a standard diet and in the group with a Se supplemented diet (0.5mg Se/kg diet) to determine significantly altered gene expression. The selenium was supplemented in the form of selenized yeast (Se-yeast), which mainly consists of organic Se in the form of L-selenomethionine and L-selenocysteine. The control group received a diet, which contained 70μg of Se / kg diet and the Se-yeast group 620μg of Se / kg diet (analyzed). The one-day old broiler chicks were separated into two groups and received the control or the Se-supplemented diet ad libitum for 35 days. After slaughter the gene expression was determined in the liver of four control and five samples from the Se-yeast group. One sample from the control group did not correspond to the quality requirements and was excluded from the analysis.
2011-11-04 | E-GEOD-25151 | biostudies-arrayexpress
Project description:We report the results of comparative transcriptional profiling in the pectoralis major muscle of a modern production broiler line (Ross 708) and a legacy broiler line inbred since the late 1940s (Illinois) focusing on metabolic differences and differences in myogenic growth regulators Differential gene expression analysis between Ross 708 and Illinois pectoralis major at two post-hatch time points (D6 and D21) that bracket critical inflection point in the allometric growth characteristics of the muscle
2015-03-31 | E-GEOD-65217 | biostudies-arrayexpress