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Comprehensive and cell-type-based analysis of microRNA profiles and functions in mouse suprachiasmatic nucleus

ABSTRACT: Comprehensive and cell-type-based analysis of microRNA profiles and functions in mouse suprachiasmatic nucleus

PROVIDER: PRJNA549847 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9331130.fastq.gz	Fastqsanger.gz
	SRR9331140.fastq.gz	Fastqsanger.gz
	SRR9331150.fastq.gz	Fastqsanger.gz
	SRR9331131.fastq.gz	Fastqsanger.gz
	SRR9331141.fastq.gz	Fastqsanger.gz

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Comprehensive and cell-type-based analysis of microRNA profiles and functions in mouse suprachiasmatic nucleus

Project description:Circadian rhythm governs a variety of biological processes in essentially all living organisms and microRNAs have been found to play important roles in the post-transcriptional regulation of circadian clocks. However, the microRNA expression profile in mouse central circadian clock – suprachiasmatic nucleus (SCN) is lacking. In this study, we systematically profiled microRNAs in mouse SCN and SCN subtype neurons by high sensitive small RNA sequencing and examined their potential circadian functions. We found that a large fraction of known microRNAs are SCN-specific and 20 of them are also oscillated significantly. Predicted targets of these 20 microRNAs were enriched in circadian rhythm pathway as well. Integrated analysis of microRNA and mRNA revealed 3 clock-related functional modules, demonstrating the regulation roles of miR-24, miR-30, miR-7a, miR-7b, miR125a and miR125b in SCN. Furthermore, we observed distinct microRNA profiles in SCN subtype neurons with divergent regulatory functions, which correlated with their differential spatial distribution. In addition, we also identified a proportion of light-response microRNAs in SCN, one of which was miR-7a. Further experiments showed that miR-7a directly target fos and regulated its translation in SCN. All these observations indicate important circadian regulation roles of microRNA in central circadian clock.

2021-08-18 | GSE133051 | GEO

Reshaping Circadian Metabolism in the Suprachiasmatic Nucleus and Prefrontal Cortex by Nutritional Challenge

Project description:We compared the transcriptome of Suprachiasmatic Nucleus in C57BL/6J mice fed a high-fat diet or normal chow through an entire circadian cycle: 6 time points (TP) every four hours.

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Transcriptome expressed in the mouse suprachiasmatic nucleus

Project description:This array set was used to identify the genes that are highly expressed in the mouse suprachiasmatic nucleus (SCN). Because pharmacological inhibition of Gai/o activity with pertussis toxin hampers intercellular synchronization and causes dampened rhythms of the entire SCN, we hypothesized that member(s) of the Regulator of G protein Signaling (RGS) family might contribute to synchronized cellular oscillations in the SCN. To test this hypothesis, we surveyed all known mouse Rgs genes for their expression by using GeneChip and selected the genes that are highly expressed in the SCN for further analysis. 12h light:12h dark cycle entrained animals were released into constant darkess. SCN punches were taken from 10 animals at CT2 and 10 animals at CT14, pooled together, and subjected to DNA microarray analysis. CT2 and CT14 correspond, respectively, to 2 and 14 hours after presumptive onset of daytime under constant darkness.

2011-04-22 | E-GEOD-28574 | biostudies-arrayexpress

Transcriptome expressed in the mouse suprachiasmatic nucleus

2011-04-22 | GSE28574 | GEO

Spatiotemporal single-cell analysis of gene expression in the mouse suprachiasmatic nucleus

Project description:We apply geographical position sequencing (Geo-seq), a method that combines laser capture microdissection (LCM) and single-cell RNA-seq technology, to investigate the heterogeneous nature of suprachiasmatic nucleus (SCN) in adult mouse. The 3D quantitative data enables spatial gene expression pattern visualization . The dataset identified genes that are coexpressed in a specific region, mark domains of similar global pattern of expression, and can be used for mapping the position of single cells dissociated from adult SCN.

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Light-induced Changes in the Suprachiasmatic Nucleus Transcriptome Regulated by the ERK/MAPK Pathway

Project description:The mammalian master circadian pacemaker within the suprachiasmatic nucleus (SCN) maintains tight entrainment to the 24 hr light/dark cycle via a sophisticated clock-gated rhythm in the responsiveness of the oscillator to light. Intriguingly, entrainment is not merely a passive response, instead the internal oscillator responds and adjust its own timing to entrainment signals discriminating the time of day. For example, exposure to brief light pulses in the first and final hours of the subjective generate circadian phase delays and advances respectively; whereas similar photic pulses during the subjective day does not modify the phase. A central event in this light entrainment process appears to be the rapid induction of gene expression via the ERK/MAPK pathway. We used microarray-based expression profiling of the suprachiasmatic nucleus to examine the role of MAPK signaling in the light-evoked transcriptional response. We focused on three circadian timepoints that define the unique, clock-time delimited response properties of the SCN to light: the subjective day, early subjective night, and late subjective night.

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SCN Proteomic Study:electroacupuncture induced circadian control in Suprachiasmatic Nucleus

Project description:Recent reports highlight phosphorylation as a major role in the regulation of sleep-wake cycles, to a lesser extent, the phosphoproteome in Suprachiasmatic Nucleus (SCN) is not well understood. We use multiplex tandem mass tag (TMT) - labelling coupled with liquid chromatography-mass spectrometry (LC-MS) to study the rhythmic regulatory effects of electroacupuncture(EA) at different times in constant darkness and the mechanism of EA mediated SCN protein phosphorylation. We applied the mass spectrometry-based phosphoproteome to explore the molecular characteristics of EA-induced phosphorylation modification in the SCN.

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Spatiotemporal single-cell analysis of gene expression in the mouse suprachiasmatic nucleus

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Spatiotemporal single-cell analysis of gene expression in the mouse suprachiasmatic nucleus

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