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ABSTRACT: Molecular profiling of activated neurons by phosphorylated ribosome capture

PROVIDER: PRJNA175508 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR573671.fastq.gz	Fastqsanger.gz
	SRR573672.fastq.gz	Fastqsanger.gz
	SRR573673.fastq.gz	Fastqsanger.gz
	SRR573674.fastq.gz	Fastqsanger.gz

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Molecular profiling of activated neurons by phosphorylated ribosome capture

Project description:This SuperSeries is composed of the following subset Series: GSE40969: Molecular profiling of activated neurons by phosphorylated ribosome capture [RNA-Seq] GSE40994: Molecular profiling of activated neurons by phosphorylated ribosome capture [Illumina BeadArray] Refer to individual Series

2012-09-20 | E-GEOD-40995 | biostudies-arrayexpress

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Stress-induced translation of KCNB1 contributes to the enhanced synaptic transmission of the lateral habenula

Project description:The lateral habenula (LHb) is a well-established brain region involved in depressive disorders. Synaptic transmission of the LHb neurons is known to be enhanced by stress exposure; however, little is known about genetic modulators within the LHb that respond to stress. Using recently developed molecular profiling methods by phosphorylated ribosome capture, we obtained transcriptome profiles of stress responsive LHb neurons during acute physical stress. Among such genes, we found that KCNB1 (Kv2.1 channel), a delayed rectifier and voltage-gated potassium channel, exhibited increased expression following acute stress exposure. To determine the roles of KCNB1 on LHb neurons during stress, we injected short hairpin RNA (shRNA) against the kcnb1 gene to block its expression prior to stress exposure. We observed that the knockdown of KCNB1 altered the basal firing pattern of LHb neurons. Although KCNB1 blockade did not rescue despair-like behaviors in acute learned helplessness (aLH) animals, we found that KCNB1 knockdown prevented the enhancement of synaptic strength in LHb neuron after stress exposure. This study suggests that KCNB1 may contribute to shape stress responses by regulating basal firing patterns and neurotransmission intensity of LHb neurons.

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pS6 immunoprecipitation RNA-seq of mouse olfactory epithelium in response to single odorants, binary mixtures, and complex fragrances

Project description:Phosphorylation of ribosomal protein S6 (pS6) serves as a molecular marker of neuronal activation by external stimuli. In this study, olfactory epithelium tissues were collected from mice exposed to single odorants (acetophenone, decanal, octanal, and cis-3-hexenol), binary mixtures (acetophenone–decanal and octanal–cis-3-hexenol), or complex fragrances (floral, mint, and floral–mint combination). To selectively capture transcripts undergoing active translation in odor-activated cells, pS6-associated ribosome complexes were isolated from tissue lysates through immunoprecipitation. The enriched mRNAs were subsequently purified and subjected to RNA sequencing, enabling transcriptomic profiling specifically within odor-activated neuronal populations, particularly olfactory sensory neurons. This approach provides a targeted view of gene expression programs induced by diverse odor stimulation paradigms in the heterogeneous olfactory epithelium.

2025-10-09 | GSE296360 | GEO

Molecular profiling of activated neurons by phosphorylated ribosome capture [RNA-Seq]

Project description:We report that phosphorylated ribosomes can be immunoprecipitated from mouse brain homogenates, resulting in enrichment of transcripts expressed in activated neurons. Mice were either injected with a concentrated salt solution or vehicle, hypothalami dissected, and phosphorylated ribosomes immunoprecipitated. RNA was sequenced from the input and IP for each condition (4 samples total).

2012-09-20 | E-GEOD-40969 | biostudies-arrayexpress

Molecular profiling of activated neurons by phosphorylated ribosome capture [RNA-Seq]

Project description:We report that phosphorylated ribosomes can be immunoprecipitated from mouse brain homogenates, resulting in enrichment of transcripts expressed in activated neurons.

2012-09-20 | GSE40969 | GEO

Molecular profiling of activated neurons by phosphorylated ribosome capture [Illumina BeadArray]

Project description:We report that phosphorylated ribosomes can be immunoprecipitated from mouse brain homogenates, enriching for mRNAs that were selectively expressed in activated neurons

2012-09-20 | GSE40994 | GEO

Molecular profiling of activated neurons by phosphorylated ribosome capture [Illumina BeadArray]

Project description:We report that phosphorylated ribosomes can be immunoprecipitated from mouse brain homogenates, enriching for mRNAs that were selectively expressed in activated neurons Mice were given an injection of concentrated salt solution (2M NaCl, 325 uL) or PBS, and then sacrificed 2h later and hypothalami dissected. Tissue homogenates were prepared from hypothalamus and phosphorylated ribosomes immunoprecipitated using pS6 244/247 antibodies. The immunoprecipitated RNA and total RNA from both control and salt treated animals were then purified and analyzed by Illumina Microarray.

2012-09-20 | E-GEOD-40994 | biostudies-arrayexpress

Mapping the epigenomic and transcriptomic interplay during memory formation and recall in the hippocampal engram ensemble

Project description:Purpose: we utilized a mouse model that permanently labels neurons activated throughout a specific experience to decipher the interplay between chromatin accessibility, 3D-chromatin architecture and transcriptional changes across different memory phases. Non activated (basal) and activated neurons during memory encoding (early), consolidation (late) and recall (reactivated) were sorted and subjected to nuclear RNA sequencing (nRNA-seq) to determine gene expression, ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing) to assess chromatin accessibility, chromosome conformation capture (Hi-C) to identify global 3D -genome architecture and promoter capture Hi-C to identify the long range promoter-enhancer interactions. Results: our data demonstrates that the initial phase of memory formation alters the chromatin accessibility landscape of activated neurons, with long lasting stable changes occurring predominantly within enhancer regions. Moreover, many of these enhancers did not return to their baseline state after stimulation ceased, but remain accessible and stable throughout all memory phases.

2020-06-23 | GSE152954 | GEO

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