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In-depth protein profiling of mouse hippocampal postsynaptic density using data-independent acquisition proteomics

ABSTRACT: In the present study, we catalogued the proteome of postsynaptic density (PSD) derived from the hippocampus of three-week old (P19) mice. samples in 100 min gradient time.

INSTRUMENT(S): Synapt MS

ORGANISM(S): Mus Musculus (ncbitaxon:10090)

SUBMITTER: Ute Distler

PROVIDER: MSV000084240 | MassIVE | Tue Aug 27 15:05:00 BST 2019

SECONDARY ACCESSION(S): PXD000590

REPOSITORIES: MassIVE

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Publications

In-depth protein profiling of the postsynaptic density from mouse hippocampus using data-independent acquisition proteomics.

Distler Ute U Schmeisser Michael J MJ Pelosi Assunta A Reim Dominik D Kuharev Jörg J Weiczner Roland R Baumgart Jan J Boeckers Tobias M TM Nitsch Robert R Vogt Johannes J Tenzer Stefan S

Proteomics 20141018 21-22

Located at neuronal terminals, the postsynaptic density (PSD) is a highly complex network of cytoskeletal scaffolding and signaling proteins responsible for the transduction and modulation of glutamatergic signaling between neurons. Using ion-mobility enhanced data-independent label-free LC-MS/MS, we established a reference proteome of crude synaptosomes, synaptic junctions, and PSD derived from mouse hippocampus including TOP3-based absolute quantification values for identified proteins. The fi ...[more]

PMID: 25211037

Similar Datasets

In-depth protein profiling of mouse hippocampal postsynaptic density using data-independent acquisition proteomics

Project description:In the present study, we catalogued the proteome of postsynaptic density (PSD) derived from the hippocampus of three-week old (P19) mice. samples in 100 min gradient time.

2014-09-25 | PXD000590 | Pride

Developmental dynamics of the postsynaptic proteome to understand synaptic maturation and dysmaturation

Project description:The postsynaptic density (PSD) is a protein condensate composed of ~1,000 proteins beneath the postsynaptic membrane of excitatory synapses. The number, shape, and plasticity of synapses are altered during development. However, the dynamics of synaptic protein composition across development have not been fully understood. Here we show alterations of PSD protein composition in mouse and primate brains during development. Proteins involved in synapse regulation are enriched in the differentially expressed (288 decreased and 267 increased) proteins on mouse PSD after a 2-week-old, which may be involved in changes of synaptic signal transduction. We find that the changes in PSD protein abundance in mouse brains correlate with gene expression levels in postnatal mice and perinatal primates. Proteome analysis of PSD from developing common marmosets (Callithrix jacchus) shows that the changes of PSD composition in mouse brain after 2-week-old occur in the marmoset brain mainly during the neonatal period and continue until adulthood. We also describe the changes of PSD proteome at the late developmental stage of marmoset, which may be involved in synaptic pruning observed in primate brains. The maturation of PSD composition is likely defective in autism spectrum disorder (ASD). Our results provide a comprehensive architecture of the remodeling of PSD composition across development, which may explain the molecular basics of synapse maturation and the pathology of psychiatric disorders, such as ASD.

2024-01-17 | PXD048549 | Pride

Unbiased proteomic analysis of postsynaptic density fractions from Shank3 mutant mice reveals brain region specific changes highly relevant to autism spectrum disorder

Project description:Disruption of the human SHANK3 gene can cause several neuropsychiatric disease entities including Phelan-McDermid syndrome (PMS), autism spectrum disorders (ASDs) and intellectual disability (ID). Although a wide array of neurobiological studies strongly supports a major role for SHANK3 in organizing the postsynaptic protein scaffold, the molecular processes at synapses of individuals harboring SHANK3 mutations are still far from being understood. In this study, we biochemically isolated the postsynaptic density (PSD) fraction from striatum and hippocampus of Shank3Δ11-/- mutant mice and performed ion-mobility enhanced data-independent label-free LC-MS/MS to obtain the corresponding PSD proteomes. This unbiased approach to identify molecular disturbances at PSDs devoid of major Shank3 isoforms revealed largely distinct molecular alterations in striatum and hippocampus. Being the first comprehensive analysis of brain region specific PSD proteomes from a Shank3 mutant line, our study provides crucial information on molecular alterations that could foster translational treatment studies for SHANK3 mutation-associated synaptopathies and possibly also ASD in general.

2017-03-08 | PXD005192 | Pride

Experience-induced remodeling of the hippocampal post-synaptic proteome and phosphoproteome

Project description:The postsynaptic density (PSD) of excitatory synapses contains a highly organized protein network with thousands of proteins and is key node in the regulation of synaptic plasticity. To gain new mechanistic insight into experience-induced changes in the PSD, we examined the global dynamics of the hippocampal PSD proteome and phosphoproteome in mice following 4 different types of experience. Mice were trained using an inhibitory avoidance (IA) task and hippocampal PSD fractions were isolated from individual mice to investigate molecular mechanisms underlying experience-dependent remodeling of synapses. We developed a new strategy to identify and quantify the relatively low level of site-specific phosphorylation of PSD proteome from the hippocampus, by using a modified iTRAQ-based TiSH protocol. In the PSD, we identified 3,938 proteins and 2,761 phosphoproteins in the sequential strategy covering a total of 4,968 unique protein groups (at least 2 peptides including an unique peptide). On the phosphoproteins, we identified a total of 6,188 unambiguous phosphosites (75% site localization probability)

2024-01-26 | PXD045496 | Pride

Neuronal activity regulates hippocampal miRNA expression

Project description:Small RNA fractions from 6-8 week old C57BL/6 mouse hippocampus following electroconvulsive shock (ECS)

2011-10-06 | GSE32055 | GEO

Expression data from rat adult and pups heart and hippocampal tissue.

Project description:To assess in order to assess potential disparities in gene expression due to developmental differences we performed a comparison between hippocampus and heart tissues from rat and mouse pup (one week old) and adult (10 week old) animals.

2014-10-14 | GSE61087 | GEO

Expression data from mouse adult and pups heart and hippocampal tissue.

2014-10-14 | GSE61086 | GEO

Striatum transcriptome analysis of Shank3 knock-out/heterozygous mice

Project description:Shank3 is a core excitatory postsynaptic protein expressed in multiple brain regions including the medial prefrontal cortex, striatum, and hippocampus. Shank3 knock-out mice display autism-like behaviors and synaptic dysfunction. To understand molecular mechanisms underlying the behavioral and synaptic changes, we performed transcriptome (RNA-sequencing) analysis of the striatum tissues from 10 to 12-week-old wild-type and Shank3 knock-out/heterozygous mice.

2019-09-11 | GSE124946 | GEO

Medial prefrontal cortex (mPFC) transcriptome analysis of Shank3-overexpressing mice

Project description:Shank3 is a core excitatory postsynaptic protein expressed in multiple brain regions including the medial prefrontal cortex, striatum, and hippocampus. We have previously generated and characterized Shank3-overexpressing transgenic mice, and found that these mice exhibited manic-like behavioral phenotypes. To understand molecular mechanisms underlying the behavioral changes, we performed transcriptome (RNA-sequencing) analysis of the mPFC tissues from 10 to 12-week-old wild-type and Shank3 transgenic mice.

2018-12-25 | GSE113368 | GEO

Neuronal activity regulates hippocampal miRNA expression

Project description:Small RNA fractions from 6-8 week old C57BL/6 mouse hippocampus following electroconvulsive shock (ECS) Size selected RNA clones using Illumina v1.0 DGE small RNA kit, sequenced using Illumina

2011-10-06 | E-GEOD-32055 | biostudies-arrayexpress

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