Seasonal Heat Stress Effects on Transcriptomic Profiles and DNA Methylation of Bovine Oocytes
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA700850 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR13665036_1.fastq.gz | Fastqsanger.gz | |||
| SRR13665036_2.fastq.gz | Fastqsanger.gz | |||
| SRR13665037_1.fastq.gz | Fastqsanger.gz | |||
| SRR13665037_2.fastq.gz | Fastqsanger.gz | |||
| SRR13665038_1.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:Heat stress affects oocyte developmental competence and is a major cause of reduced fertility in heat stressed cattle. Negative effects of heat stress on the oocyte have been observed at morphological, biochemical and developmental levels. However, the mechanisms by which heat stress affects the oocyte at the transcriptional and epigenetic levels remain to be further elucidated. Here we aimed to investigate the effect of heat stress on oocyte quality, transcriptomic profiles and DNA methylation of oocytes collected through the transition from spring to summer under Louisiana conditions. Summer heat resulted in a lower number of high quality oocytes obtained compared to the spring season. There was no difference in maturation rates of oocytes collected during spring as compared to summer. RNA sequencing analysis showed that a total of 212 and 93 genes were differentially expressed as a result of heat stress at the GV and MII oocytes, respectively. Five common genes (E2F8, GATAD2B, BHLHE41, FBXO44, and RAB39B) were significantly affected by heat in both GV and MII oocytes. A number of pathways were also influenced by heat stress including glucocorticoid biosynthesis, apoptosis signaling, and HIPPO signaling in GV oocytes, and Oct4 pluripotency, Wnt/beta-catenin signaling, and melatonin degradation I in MII oocytes, respectively. In addition, fluorescent immunocytochemistry analysis showed no difference in global levels of DNA methylation and DNA hydroxymethylation at either the GV or MII stage between spring and summer oocytes. The results of this study contribute to a better understanding of the effect of heat stress on the molecular mechanisms altered in bovine oocytes.
2021-04-27 | GSE166413 | GEO
Project description:Introduction: Reduced reproductive performance due to seasonal heat stress is a major problem in the beef and dairy industries. Examining the effects of heat stress on the molecular mechanism of bovine oocytes can help to better understand their alterations on a transcriptional level and to plan and mitigate those effects. We aimed to study the response of oocytes to seasonal thermal stress. Materials and Methods: Multiparous angus dry beef cows (n = 11) were kept together during the study and subjected to synchronisation and stimulation of follicular growth using a 5-day CIDR and follicle-stimulating hormone (FSH) protocol. Ovum pick-up (OPU) was conducted on all animals in the winter (January) and summer (August). Cumulus-oocyte-complexes (COCs) were isolated from the follicular fluid aspirated during the OPU procedure. Denuded oocytes were further isolated from the COCs, snap frozen, and stored at −80 °C until further use for library sequencing, RNA sequencing, bioinformatics and gene enrichment analysis. Additionally, rectal temperatures were recorded on the day of each OPU. Environmental data were collected daily three weeks before the day of each OPU using the Florida Automated Weather Network. Statistical analysis for average rectal temperature included overall mean (average rectal temperature), treatment effects (season), and the residual. Treatment effect was considered significant at P ≤ 0.05. Data are presented as mean ± standard error of the mean. RNA was extracted from five biological replicates/pools of oocytes (each containing n = 2) followed by library preparation and sequencing (NovaSeq; Illumina). Results: As expected, environmental conditions were contrasting [average air temperature (11.5 °C vs 27.5 °C), average max air temperature (16.9 °C vs 33.7 °C), relative humidity (83.5% vs 82.3%), and temperature-humidity index (53.39 vs 79.16) for winter and summer, respectively]. Average rectal temperature was greater (P = 0.03) in summer (39.2 ± 0.2 °C) than in the winter (38.8 ± 0.2 °C). Data analysis revealed an up-regulation of 446 transcripts and a down-regulation of 940 transcripts in oocytes collected during summer compared to winter (Fold Change ≥ 2; FDR P-value ≤ 0.05). Upregulated transcripts are involved in protein digestion and absorption, ATP-binding cassette transporter, oocyte meiosis, and progesterone-mediated oocyte maturation pathways. Conversely, down-regulated transcripts are involved in pathways related to extracellular matrix-receptor interaction, focal adhesion, and PI3K-Akt signaling. Conclusions: In conclusion, exposure of cows to thermal stress can significantly alter the transcriptome of oocytes, which may negatively impact subsequent developmental competence.
2024-10-23 | GSE235170 | GEO
Project description:Transcriptome response of oocytes to seasonal heat stress in beef cows
| PRJNA984703 | ENA
Project description:In cattle, almost all fully grown vesicle stage oocytes (GV) have the ability to resume meisos, develop to Metaphase II stage (MII), support fertilization and progress through the early embryonic cycles in vitro. Yet without intensive selection, the majority fail to develop to the blastocyst stage. Using the Affymetrix Bovine Genome Array, global mRNA expression analysis of immature (GV) and in vitro matured (IVM) bovine oocytes was carried out to characterize the transcriptome of the bovine oocyte and to identify the key pathways associated with oocyte meiotic maturation and developmental potential. Immature and in vitro matured bovine oocytes were collected for RNA extraction and hybridization on Affymetrix GeneChip Bovine Genome array. Careful removal of cumulus and selection of oocytes was carried out under the stereo microscope in order to examine the actual cumulus-free temporal oocyte gene expression profiles. Immature oocytes at time 0 h and in vitro matured oocytes at 24 h were collected for analysis.
2011-04-25 | E-GEOD-23449 | biostudies-arrayexpress
Project description:In cattle, almost all fully grown vesicle stage oocytes (GV) have the ability to resume meisos, develop to Metaphase II stage (MII), support fertilization and progress through the early embryonic cycles in vitro. Yet without intensive selection, the majority fail to develop to the blastocyst stage. Using the Affymetrix Bovine Genome Array, global mRNA expression analysis of immature (GV) and in vitro matured (IVM) bovine oocytes was carried out to characterize the transcriptome of the bovine oocyte and to identify the key pathways associated with oocyte meiotic maturation and developmental potential.
2011-04-25 | GSE23449 | GEO
Project description:Heat stress affects oocyte developmental competence and is a major cause of reduced fertility in heat stressed cattle. Negative effects of heat stress on the oocyte have been observed at morphological, biochemical and developmental levels. However, the mechanisms by which heat stress affects the oocyte at the transcriptional and epigenetic levels remain to be further elucidated. Here we aimed to investigate the effect of heat stress on oocyte quality, transcriptomic profiles and DNA methylation of oocytes collected through the transition from spring to summer under Louisiana conditions. Summer season resulted in a lower number of high quality oocytes obtained compared to the spring season. There was no difference in in vitro maturation rates of oocytes collected during spring as compared to summer. RNA sequencing analysis showed that a total of 211 and 92 genes were differentially expressed as a result of heat stress in GV and MII oocytes, respectively. Five common genes (E2F8, GATAD2B, BHLHE41, FBXO44, and RAB39B) were significantly affected by heat in both GV and MII oocytes. A number of pathways were also influenced by heat stress including glucocorticoid biosynthesis, apoptosis signaling, and HIPPO signaling in GV oocytes, and Oct4 pluripotency, Wnt/beta-catenin signaling, and melatonin degradation I in MII oocytes. In addition, fluorescent immunocytochemistry analysis showed no difference in global levels of DNA methylation and DNA hydroxymethylation at either the GV or MII stage between spring and summer oocytes. The results of this study contribute to a better understanding of the effect of heat stress on the molecular mechanisms altered in bovine oocytes.
| S-EPMC8585773 | biostudies-literature
Project description:Profiles of H3K4me3, H3K27ac, H3K27me3 and H3K9me3 in bovine GV oocytes and preimplantation embryos, and the characterization of chromatin accessibility in bovine blastocyst, inner cell mass and trophectoderm.
2023-02-16 | GSE193640 | GEO
Project description:ATAC sequencing of bovine oocytes and early embryos revealed a genome-wide map of accessible chromatin of bovine early embryo development, highlighting the critical features of chromatin landscape and epigenetic reprogramming during bovine preimplantation embryo development.
2020-11-21 | GSE145040 | GEO
Project description:Pyruvate, the end-product of glycolysis in aerobic conditions, is converted into acetyl-CoA inside the mitochondria of oocytes as a master fuel input for the tricarboxylic acid (TCA) cycle. The citrate generated in the TCA cycle can be directed to the cytoplasm and converted back to acetyl-CoA, being driven to lipid synthesis or, alternatively, being used as the substrate for histones acetylation. This work aimed to verify the impact of pyruvate metabolism on the dynamics of lysine 9 histone 3 acetylation (H3K9ac) and RNA transcription in bovine oocytes during in vitro maturation (IVM). Bovine cumulus-oocyte complexes were subjected to IVM for 24 h considering three experimental groups: Control [IVM medium], sodium dichloroacetate [DCA, a stimulator of pyruvate oxidation into acetyl-CoA] or sodium iodoacetate [IA, a glycolysis inhibitor]. Our results show that both treatments change the metabolic profile of oocytes, stimulating the use of lipids for energy metabolism in the gamete. This leads to changes during IVM in the dynamics of H3K9ac, consequently impacting the oocyte transcriptional profile. A total of 148 and 356 differentially expressed genes were identified in DCA and IA oocyte groups, respectively, when compared to the control group. In summary, our results indicate that changes in the pyruvate metabolism induce the activation of metabolic pathways, such as lipid metabolism, and these metabolic alterations alter acetyl-CoA availability and H3K9ac levels at 24 h of IVM, consequently impacting the mRNA content of bovine oocytes.
2024-07-03 | GSE246306 | GEO
Project description:Elevated ambient temperature results in heat stress which is a major concern for productivity and product quality due to its negative impact on animal health, productivity and product quality. As global warming becomes more and more serious, the impact of heat stress (HS) on animal husbandry cannot be ignored. However, the effect of NMN on the quality of porcine oocytes after heat stress and the prevention strategies are not yet fully understood. Here, we report that nicotinamide mononucleotide (NMN) treatment ameliorates the quality of porcine oocytes exposed to heat stress. Specifically, we found that HS caused oocyte meiosis failure by disrupting the dynamics and arrangement of meiotic organelles, showing obvious damage to cytoskeleton assembly. Furthermore, heat stress can cause damage to oocyte mitochondria, which is an indicator of oocyte cytoplasmic maturation. On the contrary, supplementation of NMN can improve this phenomenon, maintain the normal chromosome/spindle structure, and the dynamics of CGs and its core content ovastacin.
2022-06-22 | GSE185338 | GEO