Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single-cell RNA sequencing of olfactory bulb dopaminergic neurons

ABSTRACT: Here we performed single cell RNA sequencing of manually sorted olfactory bulb dopaminergic neurons with the goal of studying the transcriptomic basis of neuronal plasticity. Acute olfactory bulb 300 µm slices were obtained from Dat-Cre/Flox-tdTomato (B6.SJL-Slc6a3tm1.1(cre) Bkmn/J, Jax stock 006660 / B6.Cg– Gt(ROSA)26Sortm9(CAG-tdTomato)Hze, Jax stock 007909) juvenile mice. Single cell suspensions were generated using the Neural Tissue Dissociation Kit – Postnatal Neurons (Miltenyi Biotec. Cat no. 130-094-802). Dopaminergic neurons were identified by red fluorescence and manually sorted into individual wells. Analysis of the effects of the transcriptomic changes relating to neuronal plasticity triggered by sensory deprivation is ongoing.

ORGANISM(S): Mus musculus

PROVIDER: GSE151709 | GEO | 2020/06/15

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Single-cell RNA sequencing of olfactory bulb dopaminergic neurons

Project description:Single-cell RNA sequencing of olfactory bulb dopaminergic neurons

| PRJNA637033 | ENA

Genome-wide expression analysis of E18.5 and P30 olfactory bulbs of control and Tshz1 mutant mice

Project description:Analysis of genes regulated by Tshz1 in olfactory bulb neurons. Total RNA from olfactory bulbs of embryonic day E18.5 and postnatal day 30 control mice was compared to Tshz1 mutant mice

2023-10-12 | E-GEOD-51761 | biostudies-arrayexpress

The Birth, Distribution and Evolution of Primate Cerebral Inhibitory Neurons

Project description:Neuroanatomists have long speculated that expanded primate brains contain an increased morphological diversity of inhibitory neurons (doi:10.1038/nrn3444, DeFelipe et al.) and recent studies have identified primate-specific neuronal populations at the molecular level(doi:10.1038/s41586-020-2781-z, Krienen et al.). However, we know little about the developmental mechanisms that specify evolutionarily novel cell types in the brain. Here, we reconstructed gene expression trajectories specifying inhibitory neurons spanning the neurogenic period in macaque and mouse by analyzing the transcriptomes of 250,181 cells. We find that the initial classes of inhibitory neurons generated prenatally are largely conserved among mammals. Nonetheless, we identify two contrasting developmental mechanisms for specifying evolutionarily novel cell types during prenatal development. First, we show that recently-identified primate-specific TAC3 striatal interneurons are specified by a unique transcriptional program in progenitors followed by induction of a distinct suite of neuropeptides and neurotransmitter receptors in newborn neurons. Second, we find that multiple classes of transcriptionally-conserved olfactory-bulb bound precursors are redirected to expanded primate white matter and striatum, including a novel peristriatal class, striatum laureatum neurons, that resemble dopaminergic periglomerular cells of the olfactory bulb. We propose an evolutionary model in which conserved initial classes of neurons supplying the smaller primate olfactory bulb are reused in the enlarged striatum and cortex. Together, our results provide a unified developmental taxonomy of initial classes of mammalian inhibitory neurons and reveal multiple developmental mechanisms for neural cell type evolution.

2021-11-23 | GSE169122 | GEO

The pioneer/terminal nerve neurons of rodents control GnRH-1 neuronal migration and olfactory bulb formation.

Project description:During embryonic development, the olfactory placode (OP) gives rise to various populations of neurons; these include putative olfactory pioneer neurons, different neurons of unknown identity and function, cells of the terminal nerve, and the Gonadotropin-releasing hormone-1 (GnRH-1) neurons. In mice, the GnRH-1 neurons are first detectable in the developing olfactory system around mid-gestation. From here, the GnRH-1 neurons migrate, along the axons of the terminal nerve (TN), to various regions of the developing brain. Once in the brain, the GnRH-1 neurons play a central role in controlling the hypothalamic-pituitary-gonadal (HPG) axis. Early migratory neurons forming from the olfactory placode have been proposed to play a vital role in inducing olfactory bulb morphogenesis. Kallmann syndrome is a condition characterized by defective development of the olfactory system and infertility. Murine studies have demonstrated the critical role of the Prokineticin 2-Prokinteicin Receptor 2 pathway in olfactory bulb morphogenesis and GnRH-1 neuronal migration. Loss-of-function Prokr2 mutations cause both Kallmann syndrome associated with bulb agenesis and normosmic idiopathic hypogonadotropic hypogonadism (nIHH). Following Prokr2 expression and lineage tracing, we found that Prokr2 is not expressed by the cells of the developing olfactory bulb but by migratory putative pioneer/terminal nerve neurons. Performing single-cell-RNA-sequencing, we identified genes enriched in the migratory cells of the putative terminal nerve. By integrating genetic lineage tracing and single-cell transcriptomics, we identified previously undescribed populations of migratory neurons that appear to be enriched in the expression of several genes related to olfactory defects, GnRH migratory deficiencies and infertility.

2024-03-11 | GSE234871 | GEO

Genome-wide expression analysis of E18.5 and P30 olfactory bulbs of control and Tshz1 mutant mice

Project description:Analysis of genes regulated by Tshz1 in olfactory bulb neurons.

2014-04-01 | GSE51761 | GEO

RNA sequencing of olfactory bulb projection neurons in neurotensin-GFP (NTS-GFP) mice at different developing time points

Project description:Characterize the spatiotemporal dynamics of gene expression in neurons in developing olfactory bulb

2016-04-15 | GSE70896 | GEO

Grouped ensemble coding of behavioral states by combinations of molecularly defined cell types

Project description:We used a plate-based method (SMART-SCRB) to transcriptionally profile manually picked single neurons from the paraventricular nucleus of hypothalamus (PVH) from 10 male Agrp-IRES-Cre crossed with Ai9 reporter mice, all >7 weeks old. For each mouse, the PVH was dissected and cells expressing the tdTomato reporter were manually selected and placed into wells of a series of 96-well plates. We used a plate-based method with cell and transcript barcording and reverse transcription in each well, followed by pooling and amplification using a modified SMART-Seq technology that yields digital 3' end counts of transcripts.

2020-06-30 | GSE148568 | GEO

Differential Gene Expression Analysis with Altered Local CRH Signaling in the Mouse Olfactory Bulb

Project description:We report genome-wide gene expression changes in olfactory bulb cells, in the context of low, wild-type or high levels of local CRH signaling by local interneurons onto adult-born CRHR1+ granule neurons. To test the gene expression changes associated with altered local CRH signaling, we utilize the following animal models: CRHR1-/- mice whose bulbs were infected with a control AAV-flex-EGFP virus = low local CRH signaling, CRHR1-Cre mice whose bulbs were infected with AAV-flex-EGFP = pseudo-wild-type local CRH signaling, and CRHR1-Cre mice whose bulbs were infected with AAV-flex-(CA)CRHR1, which is a constitutively active variant of CRHR1 = high local CRH signaling. We find that, in response to changes in local CRH signaling in the bulb, the largest ontological category of transcription changes in the bulb that occurs reciprocally between low and high levels of CRH signaling are gene regulatory factors. To test the contributions of one of these factors, POU6f1, we perform loss- and gain-of-function analysis. We show that CRHR1 activation results in transcriptional activation of POU6f1 and that POU6f1 in turn influences synaptogenesis and dendritic patterning of adult-born neurons and olfactory circuit behavior.

2017-10-26 | GSE98799 | GEO

Effect of rabies virus infection on gene expression in GABAergic neurons in the Zebrafish olfactory bulb

Project description:To investigate the effects of rabies infection on neuronal gene expression, we compared gene profiles of rabies infected and non-infected GABAergic neurons in the Zebrafish olfactory bulb.

2022-07-07 | E-MTAB-11083 | biostudies-arrayexpress

Whole transcriptome analysis of FACS purified somatosensory neuron subtypes and whole dorsal root ganglia tissue

Project description:The goal of this study was to analyze global gene expression in specific populations of somatosensory neurons in the periphery, including major, non-overlapping populations that include nociceptors, pruriceptors, and prorioceptors. The mammalian somatosensory nervous system encodes the perception of specific environmental stimuli. The dorsal root ganglion (DRG) contains distinct somatosensory neuron subtypes that innervate diverse peripheral tissues, mediating the detection of thermal, mechanical, proprioceptive, pruriceptive, and nociceptive stimuli. We purified discrete subtypes of mouse DRG somatosensory neurons by flow cytometry using fluorescently labeled mouse lines (SNS-Cre/TdTomato, Parv-Cre/TdTomato) in combination with Isolectin B4-FITC surface staining (IB4). This allowed identification of transcriptional differences between these major populations, revealing enrichment of voltage-gated ion channels, TRP channels, G-protein coupled receptors, transcription factors, and other functionally important classes of genes within specific somatosensory neuron subsets. SNS-Cre mice were bred with Rosa26-TdTomato mice to generate SNS-Cre/TdTomato reporter mice. Parv-Cre mice were bred with Rosa26-TdTomato mice to generate Parv-Cre/TdTomato mice. Isolectin B4-FITC was used to stain the surface of SNS-Cre/TdTomato reporter mice. We used these strategies of fluorescent labeling to purify distinct murine sensory neuron subsets from the dorsal root ganglia (DRG) by fluorescence activated cell sorting (FACS). Neurons were sorted directly in Qiazol for total RNA extraction and microarray analysis. Whole DRG tissue was also included for transcriptome analysis to compare with purified neuronal populations.

2014-12-23 | E-GEOD-55114 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data