Gene Expression Profiling of Three Tissues in Chicken with Heat Stress by Affymetrix Microarray
Ontology highlight
ABSTRACT:
ORGANISM(S): Gallus gallus
SUBMITTER: song yan
PROVIDER: E-GEOD-23592 | biostudies-arrayexpress |
REPOSITORIES: biostudies-arrayexpress
Similar Datasets
Project description:To elucidate how does the gene expression profiles of whole transcriptome of P.fucata response to acute and gradual seawater acidification and warming, and which genes or functional gene clusters are involved in the stress response to enviromental stressors, we have employed microarray as a tool to identify genes in these stress. For acute temperature and acidity stress treatment, oysters were added into the tanks immediately with the maintaining conditions of temperature 25M-BM-11 M-BM-0C and 31M-BM-11 M-BM-0C, acidity pH7.8M-BM-10.05 and pH7.5M-BM-10.05, salinity 33M-BM-11M-bM-^@M-0 in recirculating seawater. The temperatures and pH values in the studies were near future levels and predicted for 2100 and 2300. The pallial zone of mantle were collected and preserved on the hours of 72 after treatment for subsequent studies. All the collected mantles above were snap-frozen in liquid nitrogen, and stored at -80M-BM-0C. The conditions of salinity 33M-BM-11M-bM-^@M-0, 19M-BM-11 M-BM-0C and pH8.1M-BM-10.05 (~380 ppm CO2) in pre-culture tanks was as a control. In total, 15 mantle tissue samples from 15 individuals were used for the microarray analysis and 3 samples were used as control .Three biological replicates were employed in each treatment.
2014-05-02 | E-GEOD-57171 | biostudies-arrayexpress
Project description:To realize the gene expression in response to acute heat stress in chicken testis, we have employed whole genome microarray expression profiling as we have employed whole genome microarray expression profiling as a tool to identify genes response to acute heat stress. Male B strain Taiwan country chickens were subjected to acute heat stress (38M-bM-^DM-^C) for 4 h, and then exposed to 25M-bM-^DM-^C, with testes collected 0, 2, and 6 h after the cessation of heat stress, using non heat-stressed roosters as a control group (n = 3 roosters per group). Based on a chicken 44K oligo microarray, 163 genes significantly differed in the testes of the heat-stressed chickens from those of the control chickens. The mRNA expressions of upregulated genes, including HSP25, HSP90AA1, HSPA2, and LPAR2, and downregulated genes, including CDH5, CTNNA3, EHF, CIRBP, SLA, and NTF3, were confirmed through quantitative real-time polymerase chain reaction (qRT-PCR). Acute heat stress induced testicular gene experssion in B strain Taiwan country chicken was measured at 0, 2, and 6 h of recovery after 4 h of 38 degree acute heat stress.
2015-01-27 | E-GEOD-65279 | biostudies-arrayexpress
Project description:By using a 44k chicken Agilent microarray, we systematically analyzed the chicken hypothalamus transcriptome response to thermal stress. Twelve hypothalamus samples were chosen from three groups (four samples per group) to be used in chicken genome microarray to examine differential gene expression.We compared the expression profiles between each pairs of the three groups using the microarray data. Totally, 2474 genes were found to be differentially expressed in the three comparisons with pM-oM-<M-^\0.05 and fold change (FC) higher than 1.5 and the genes were mainly involved in self-regulation and compensation required to maintain homeostasis, including heat shock protein family, enzyme and the hormone, neurotransmitter, cell-cell signaling, metabolism and cytokines. The transcripts of heat shock protein including Hsp 40 and Hsp 90 were significantly changed respond to thermal stress and genes involved in regulation of cell morphogenesis were significantly upregulated in heat stressed group with comparison to control and temperature recovery group. Additionally, the down-regulated genes in both heat stress and temperature recovery groups compared to control group were enriched in muscle organ development, striated muscle tissue development, cardiac muscle tissue development and muscle tissue development, which indicates that muscle development was inhibited during and in short-term after heat treatment. Most of genes dysregulated in heat stress group were found to be recovered in temperature recovery group, which confirmed their roles they could play in coping with heat stress. The present study provides a broader understanding of molecular mechanisms underlying the stress response in chicken and discovery of novel genes that are regulated in a thermal stress specific manner. Hypothalamus samples were collected from non-heat treated group (reared at 25C, used as control), 24h 34C treated group (heat stress treated group) and temperature recovery group (25C for 24h followed heat stress).
2012-10-01 | E-GEOD-37400 | biostudies-arrayexpress
Project description:To understand how microRNAs are involved in stress response, we examined their expression changes in C. elegans animals that were exposed to stress conditions, including heat shock, oxidation, hypoxia and starvation. Total RNAs were purified from young adult animals that were exposed to each stress, and used for cDNA library preparation for small RNAs. In this experiment, spe-9(hc88), a temperature sensitive sterile mutant, that were cultured at 23dC, was used in order to avoid the effect from developing embryos. Stress conditions we examined include: Heat shock (32M-BM-0C, 6 hrs), Recovery from heat shock (6 hrs recovery at 23M-BM-0C after heat shock treatment at 32M-BM-0C for 6 hrs), Hypoxia (0.01%, 6 hrs), Oxidation (Juglone 750 M-NM-<M, 6 hrs), Starvation (complete food deprivation, 12 hrs). In addition to these stress conditions, RNAs were prepared from normally cultured, untreated animals at three time points, 0 hr (baseline), 6 hrs (as controls for heat shock, hypoxia and oxidation) and 12 hrs (as controls for heat shock recovery and starvation) after starting stress exposure. These cDNA libraries established were sequenced with Illumina Genome Analyzer II.
2012-02-04 | E-GEOD-35529 | biostudies-arrayexpress
Project description:To further development of our gene expression approach to biodosimetry, we have employed whole genome microarray expression profiling as a discovery platform to identify genes with the potential to distinguish radiation dose across an exposure range relevant for medical decision-making in a radiological emergency. Human peripheral blood from healthy donors was irradiated ex vivo, and a 74-gene consensus signature was identified that distinguished between four radiation doses (0.5, 2, 5 and 8 Gy) and control samples. The same set of genes separated samples by exposure level at both six and 24 hours after treatment, with overlap evident only at the highest two doses (5 and 8 Gy). Expression of five genes (CDKN1A, FDXR, SESN1, BBC3 and PHPT1) from this signature was quantified in the same RNA samples by real-time PCR, confirming low variability between donors as well as the predicted radiation response pattern. Heat and shake stress induced gene expression in rat jejunum was measured with or without 3 days stressed (Control and S3d groups) The conditions of the treatment for rats were as follows: 35M-BM-0C with a vibration of 0.1 M-CM-^W g for 3 daysM-oM-<M-^L 2 h/day in a temperature shake. each group had 3 sample replications, and each sample were mixed by 3 rats total RNA
2014-09-18 | E-GEOD-61498 | biostudies-arrayexpress
Project description:Transcriptomic analysis of C. difficile strain 630 subjected to a clinically relevant heat stress (41M-BM-0C ) and compared to unstressed cells (37M-BM-0C ). Heat stress was induced in biological triplicate broth cultures in the early exponential phase (D650nm=0.3) of growth and cells were harvested at late log phase (D650 = 1.1). Goal was to determine effects of mild heat stress on gene expression. Two condition experiment, heat stressed vs. control. Biological replicates: 3 control replicates, 3 heat stressed replicates, with dye flip
2012-04-19 | E-GEOD-37442 | biostudies-arrayexpress
Project description:This experiment investigates differences in miRNA expression between different populations of human mesenchymal stem cells (MSCs), which are a potential treatment for multiple sclerosis (MS). Previously it has been reported that MSCs derived from human olfactory mucosa (OM-MSCs) may be a better candidate for the treatment of MS than MSCs derived from bone marrow (BM-MSCs), due to a better ability to promote CNS myelination in vitro. In this study, miRNA profiling of OM-MSCs and BM-MSCs was undertaken to investigate the differences between these two cell types in relation to their prospective therapeutic use.
2016-06-01 | E-MTAB-4594 | biostudies-arrayexpress
Project description:For this study, thymic transcriptome responses to an acute heat stress and/or lipopolysaccharide (LPS) were investigated in a broiler line (heat and disease susceptible) and an inbred Fayoumi line (heat and disease resistant) of chickens. In a 2 x 2 design, 22 day-old birds were exposed to heat stress (35°C for 7 hours), lipopolysaccharide (100 µg/kg average body weight per line), or both stressors. Thermoneutral temperature (25°C) and phosphate buffered saline were used as the respective controls. Tissue samples were collected from the thymus and used to isolate high quality RNA. cDNA libraries (n = 31) were constructed and sequenced on the HiSeq 2500.
2018-11-01 | E-MTAB-6290 | biostudies-arrayexpress
Project description:Decreased salivary flow rates and/or changes in protein composition reported after autologous hematopoietic stem cell transplantation (ASCT) reduces the protective function of saliva. This might be associated with the development of oral mucositis (OM), an inflammation of the oral mucosa as a result of chemotherapy before ASCT which affects patients? quality of life and risk factor for systemic infections. In this study, a TMT-labelled proteomics experiment, a label-free quantification (LFQ) proteomics experiment and a DIA-MS proteomics experiment were used to identify differences in the salivary proteome between patients with ulcerative OM (uOM; WHO score ? 2) and those without (nOM). For the TMT-labelled experiment, saliva samples of 5 uOM and 5 nOM were pooled at different time points: baseline, 1, 2, and 3 weeks after ASCT and 3 months after ASCT. A different salivary proteome was suggested by a distinct clustering of the OM pools at baseline, week 2 and week 3 after ASCT.
2023-07-10 | PXD033603 | Pride
Project description:To identify tomato miRNAs involved in chilling response, two small RNA libraries and two degradome libraries from chilling-treated(4M-BM-0C/4M-BM-0C for 1hM-oM-<M-^L4h, 8h, 12h, 24h and 48h) and non-chilling-treated (25M-BM-0C/20M-BM-0C for 1hM-oM-<M-^L4h, 8h, 12h, 24h and 48h)leaves of LA1777M-bM-^@M-^Y (S. habrochaites) seedlings were constructed. A total of 4342604 and 7231609 clean reads were obtained by high-throughput sequencing of the two libraries, respectively. 161 conserved miRNAs and 236 novel miRNAs were identified in the two librayies. Of these miRNAs, 192 were upregulated, whereas 205 were downregulated in response to chilling stress. Among these, 23 miRNAs and 26 miRNAs were significantly upregulated and downregulated in response to chilling stress, respectively.Through degradome sequencing,62 target genes were cleaved by 42 conserved miRNAs, while nine target genes were cleaved by nine novel miRNAs. Target gene functional analysis revealed that most target genes played positive role in the chilling response, primarily by regulating the expression of anti-stress proteins, antioxidant enzymes and genes involved in cell wall formation. tomato miRNA-seq and Degradome-seq after chilling
2015-03-03 | E-GEOD-57335 | biostudies-arrayexpress