Time series genome-wide transcriptome analysis of mouse eyes kept under different seasonal conditions
Ontology highlight
ABSTRACT:
ORGANISM(S): Mus musculus
PROVIDER: GSE156141 | GEO | 2021/01/18
REPOSITORIES: GEO
Shared Molecules
Only show the datasets with similarity scores above: 0.5
Threshold
0.5
Similar Datasets
Project description:To examine the seasonal transcriptional landscape of medaka brain, we compared the gene expression of whole brain under SC (short-day and cool temperature conditions: 10 h light/14 h dark and 10 °C) and LW (long-day and warm temperature conditions: 14 h light/10 h dark and 26 °C) conditions.
2020-04-23 | GSE124985 | GEO
Project description:To examine the seasonal transcriptional landscape of medaka brain, we compared the gene expression of whole brain under SC (short-day and cool temperature conditions: 10 h light/14 h dark and 10 °C) and LW (long-day and warm temperature conditions: 14 h light/10 h dark and 26 °C) conditions.
2020-04-23 | GSE124973 | GEO
Project description:To examine the seasonal adaptation, we compared the gene expression of eyes between SL (short-day and low-temperature conditions: 10 h light/14 h dark and 8 °C) and LD (long-day and warm-temperature conditions: 14 h light/10 h dark and 26 °C) conditions in Medaka fish (Oryzias latipes).
2017-09-01 | GSE94258 | 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:Many ectotherms hibernate in face of the harsh winter conditions to improve their survival rate. However, the molecular mechanism underlying this process remains unclear. Here, we collected the serum from Chinese alligtor in hinerntion season (winter) and active season (summer) and using TMT to identify seasonal differently expressed proteins in Chinese alligator.
2021-09-09 | PXD019278 | Pride
Project description:Many ectotherms hibernate in face of the harsh winter conditions to improve their survival rate. However, the molecular mechanism underlying this process remains unclear. Here, we collected the serum from Chinese alligtor in hinerntion season (winter) and active season (summer) and using iTRAQ to identify seasonal differently expressed proteins in Chinese alligator.
2021-09-09 | PXD019277 | Pride
Project description:We determined the RNA sequence of V. vinifera cv. Victoria and V. vinifera cv. Muscat Hamburg grapes to reveal the transcriptomics variations between summer and winter berries under a double cropping system. Transcriptomics analysis showed that the upregulated VviDXSs, VviPSYs, and VviCCDs expressions might contribute to accumulations of terpenes or norisoprenoids in winter berries.
2021-03-13 | GSE168785 | GEO
Project description:Investigation of cellular responses to thermal heat stress can lead to identifying novel targets of intervention to tackle the increasing fertility decline due to climate change-associated seasonal heat stress. We aimed to study the response of granulosa cells to seasonal thermal stress. Dry beef cows (n=11) were kept together during the study and subjected to synchronization and stimulation for follicular dynamics. Ovum pick-up (OPU) was conducted on all animals in the winter and summer. Once OPU-fluid settled, cumulus-oocyte-complexes (COCs) and granulosa cells were isolated from the OPU fluid and stored in a -80 freezer after snap freezing. In addition, blood samples and rectal temperature data were collected on each OPU. Environmental data were collected daily for three weeks before each OPU using the Florida Automated Weather Network. Data were analyzed using SAS. Data are presented as mean ± standard error of the mean. RNA was extracted from five pools of granulosa cells followed by library preparation and sequencing (NovaSeq; Illumina). 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. The average rectal temperature was higher (P = 0.03) in summer (39.2 ± 0.2°C) than in winter (38.8 ± 0.2°C). Of the total differentially expressed genes, granulosa cells during summer showed up and downregulation of 1083 and 1126 transcripts, respectively compared to the winter season (Fold Change ≤ -2 or ≥ 2 and FDR p-value ≤ 0.05). Many of the downregulated transcripts were found to be involved in the inhibition of immunological pathways such as activation of lymphatic system cells and activation of lymphocytes. In conclusion, exposure of cows to thermal stress can induce significant alteration in the transcriptome of granulosa cells which may have a negative impact on follicular physiology.
2024-10-23 | GSE235171 | GEO
Project description:With the exception of latitudes close to the equator, seasonal variation in light hours can change dramatically between summer and winter. Yet, investigations into the interplay between energy metabolism and circadian rhythms typically use a 12 h light:12 h dark photoperiod corresponding to light duration at the equator. Here, we hypothesised that altering seasonal photoperiod affects both rhythmicity of peripheral tissue clocks as well as processes involved in energy storage and utilisation. Male mice were housed at one of three photoperiods representing light hours in summer, winter and the equinox. Mice housed at a winter photoperiod exhibited an increase in the amplitude of rhythmic lipid metabolism and a modest reduction in fat mass and liver triglyceride content. Comparing melatonin proficient and deficient mice, we provide evidence that the effect of seasonal light on energy metabolism is largely driven by differences in the rhythmicity of food intake, but not melatonin. Our results show that seasonal light impacts energy metabolism in mice and suggest that these effects are partly driven by modulating the timing of eating. Our work sets a course to integrate seasonal light duration in future circadian biology studies.
2023-09-09 | GSE222550 | GEO
Project description:Time series genome-wide transcriptome analysis of mouse eyes kept under different seasonal conditions
| PRJNA656834 | ENA