Synaptic connectivity

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Instrument Platform

Single-Cell Extraction: For enzymatic digestion, pronase (Septomyces argeus, 1 mg/mL) was applied for 25 minutes at room temperature for P0 to P8 datasets. Cells were dissociated and triturated into a single-cell suspension in ACSF supplemented with 1% fetal calf serum (FCS) and DNase (1 µL/10 mL). Trituration was performed using three glass Pasteur pipettes of decreasing diameters. For P30 datasets, enzymatic digestion and cell dissociation were carried out using the Worthington Papain Dissociation System, following the manufacturer’s instructions. Single-Nuclei Extraction: For nuclei isolation, the Hibernate™-E Medium was removed, and 500 µL of chilled 0.1X NP40 Lysis Buffer was added. Tissue was homogenized using a Pellet Pestle (15 strokes) and incubated on ice for 5 minutes. The suspension was pipette-mixed 10 times using a wide-bore pipette tip and incubated for an additional 10 minutes on ice. Following lysis, 500 µL of chilled wash buffer was added, and the mixture was pipette-mixed 5 times using a regular-bore pipette tip. The suspension was filtered through a 30 µm cell strainer into a 50 mL tube to remove debris. The filtered suspension was transferred to a 1.5 mL tube and centrifuged at 950 × g for 10 minutes at 4°C. The supernatant was carefully removed, and the nuclei pellet was retained for downstream analysis. (2)
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CHEBI ID

CHEBI:17716 (2)
CHEBI:64561 (2)
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CHEBI:16811 (2)
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CHEBI:167279 (1)
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CHEBI:89415 (1)

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Lab affiliation

Research Unit Protein Science, Helmholtz Zentrum München (2)
VIB Center for Brain & Disease Research, Herestraat 49, 3000 Leuven, Belgium. (2)
Biomedical Neuroscience Institute, Faculty of Medicine, University of Chile, Santiago, Chile Center for Geroscience, Brain Health and Metabolism, Santiago, Chile Program of Cellular and Molecular Biology, Institute of Biomedical Sciences, University of Chile, Santiago, Chile Buck Institute for Research on Aging, Novato, CA, USA (1)
Biomedical Neuroscience Institute, Faculty of Medicine, University of Chile, Santiago, Chile. Center for Geroscience, Brain Health and Metabolism, Santiago, Chile. Program of Cellular and Molecular Biology, Center for Molecular Studies of the Cell, Institute of Biomedical Sciences, University of Chile, Santiago, Chile. (1)
Center for Neurogenomics and Cognitive Research, VU Amsterdam De Boelelaan 1085 1081 HV Amsterdam (1)
Department of Biochemistry and Biomedical Sciences McMaster University (1)
Department of Environmental, Biological and Pharmaceutical Sciences and Technologies, University of Campania "Luigi Vanvitelli", Caserta, Italy (1)
Department of Molecular and Cellular Neurobiology, Center for Neurogenomics & Cognitive Research, Neuroscience Campus Amsterdam, VU University, Amsterdam, The Netherlands (1)
Department of Molecular and Cellular Neurobiology, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, Vrije Universiteit Amsterdam, The Netherlands (1)
Department of Neuromedicine and Movement Science, Faculty of Medicine and Health Sciences, Norwegian University of Science and Technology (NTNU), Norway (1)
Dept. of Molecular and Cellular Neurobiology, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, Vrije Universiteit Amsterdam, The Netherlands (1)
Donnelly CCBR, University of Toronto, Toronto ON M5S 3E1, Canada (1)
ETH Zurich, D-HEST, Lab of Systems Neuroscience (1)
Group Leader, Quattrocolo Lab, Kavli Institute for Systems Neuroscience and Centre for Neural Computation, Norwegian University of Science and Technology (NTNU), Trondheim 7491, Norway (1)
Institut de recherches cliniques de Montréal (IRCM), Montréal, QC, H2W 1R7, Canada Integrated Program in Neuroscience, McGill University, Montréal, QC, H3A 2B4, Canada Division of Experimental Medicine, McGill University, Montréal, QC, H3A 2B2, Canada Department of Anatomy and Cell Biology, McGill University, Montréal, QC, H3A 0C7, Canada (1)
Laboratory of Cell Biophysics Nencki Institute of Experimental Biology PAS Warsaw, Poland (1)
Laboratory of Cell Biophysics, Nencki Institute of Experimental Biology,Polish Academy of Sciences, Warsaw, Poland (1)
Member, St. Jude Faculty Jewelers For Children Endowed Chair in Genetics and Gene Therapy (1)
Nencki Institute of Experimental Biology, Polish Academy of Sciences (1)
Professor, Emory University School of Medicine Departments of Biochemistry and Neurology (1)
Proteomics facility, Central Science Laboratory, University of Tasmania (1)
School of life science and technology, Southeast University, China (1)
University of Maryland Baltimore County Department of Biological Sciences Baltimore, MD (1)
University of Vienna Department of Analytical Chemistry (1)
Yantai Yuhuangding Hospital, Qingdao University. (1)

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Multiomics of synaptic junctions reveals altered lipid metabolism and signaling following environmental enrichment

Membrane lipids and their metabolism have key functions in neurotransmission. Here we provide a quantitative lipid inventory of mouse and rat synaptic junctions. To this end, we developed a multiomics extraction and analysis workflow to probe the interplay of proteins and lipids in synaptic signal t...

2021-09-27 | MTBLS1531 | MetaboLights

Promoter Decommissioning by the NuRD Chromatin Remodeling Complex Triggers Synaptic Connectivity in the Mammalian Brain

Precise control of gene expression plays fundamental roles in brain development, but the roles of chromatin regulators in neuronal connectivity have remained poorly understood. Here, we find that depletion of the nucleosome remodeling and deacetylation (NuRD) complex in the cerebellar cortex by in v...

ORGANISM(S): Mus musculus

2014-08-18 | E-GEOD-57758 | biostudies-arrayexpress

Cortical layer 5 neuron-specific synaptic protein profiling suggests differential vulnerability to neurodevelopmental disorders

Pyramidal neurons in the cortex are embedded in distinct information processing pathways. Cortical layer 5 (L5) intratelencephalic (IT) and pyramidal tract (PT) neurons receive different input and project to distinct brain regions. The synaptic molecular signatures that define synaptic connectivity ...

ORGANISM(S): Mus musculus (Mouse)

2024-11-04 | PXD046812 | Pride

Excessive local host-graft connectivity in aged and amyloid-loaded brain

Transplantation is a clinically relevant approach for brain repair, but much remains to be understood about influences of the disease environment in the host on transplant connectivity. To explore the influence of ageing and amyloid pathology in Alzheimer's disease (AD) we examined graft connectivit...

ORGANISM(S): Mus musculus (Mouse)

2022-08-12 | PXD023407 | Pride

Synaptic connectivity Mouse brain Alzheimer's disease model Aging

Transcriptional dysregulation of synaptic genes in a human iPSC model of major mental disorders

Schizophrenia and other psychiatric disorders are postulated to be developmental disorders resulting from synapse dysfunction. How susceptibility genes for major mental disorders could lead to synaptic deficits in humans is not well-understood. Here we generated induced pluripotent stem cells (iPSCs...

ORGANISM(S): Homo sapiens

2014-08-01 | E-GEOD-57821 | biostudies-arrayexpress

Regulation of synaptic connectivity in schizophrenia by mutual neuron-microglia interaction

PRJNA880013 | ENA

Altered GM1 catabolism affects NMDAR-mediated Ca2+ signaling at ER-PM junctions and increases synaptic spine formation

GM1-ganglioside, an abundant GSL in neuronal membranes, is integral to ER-PM junctions where it interacts with synaptic proteins/receptors and regulates Ca2+ signaling.

ORGANISM(S): Mus musculus (Mouse)

2024-03-19 | PXD042994 | Pride

Membrane contact sites (mcs) Glycosphingolipids (gsls) Proteomics

Synaptic Signatures and Disease Vulnerabilities of Layer 5 Pyramidal Neurons - second data set

Cortical layer 5 (L5) intratelencephalic (IT) and pyramidal tract (PT) neurons are embedded in distinct information processing pathways. The morphology, connectivity, electrophysiological properties, and role in behavior of these neurons have been extensively analyzed. However, the molecular composi...

ORGANISM(S): Mus musculus (Mouse)

2024-11-04 | PXD052081 | Pride

Neurons Synapses

Synaptic Transfer between Rod and Cone Pathways Mediated by AII Amacrine Cells in the Mouse Retina.

Not available

S-EPMC6133723 | biostudies-literature

Dynamics of the mouse brain cortical synaptic proteome during postnatal brain development

Development of the brain involves the formation and maturation of numerous synapses. This process requires prominent changes of the synaptic proteome and potentially involves thousands of different proteins at every synapse. To date the proteome analysis of synapse development has been studied spars...

ORGANISM(S): Mus musculus (Mouse)

2018-10-26 | PXD004129 | Pride

Mouse Development Postnatal Cortex

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