The largest database of trusted experimental protocols

15 protocols using psd 95

1

Comprehensive Molecular Profiling of Neurodegeneration

Check if the same lab product or an alternative is used in the 5 most similar protocols
The following primary antibodies were used: TH and NeuN (Merck-Millipore, MA, USA); Bcl-2, Bax, Cytochrome c, Caspase-3, PARP-1, phospho-JNK, JNK, Nurr1, DAT, GFAP, Iba-1, PSD-95, SNAP-25, Synaptophysin (SYP), phospho-mTOR (296. Ser2481) and β-actin (Santa Cruz, CA, USA); AMPKα, phospho-AMPKα, phospho-p44/42 MAPK (ERK1/2, Thr202/Tyr204), p44/42 MAPK (ERK1/2), phospho-p38 MAP kinase (Thr180/Tyr182), p38 MAPK, α-synuclein, phospho-CREB (Ser133), CREB, and mTOR (Cell Signaling, MA, USA); VMAT2 and phospho-α-synuclein (Ser129) (Abcam, Cambridge, UK); and phospho-α-synuclein (Ser129, BioLegend, CA, USA). Detailed antibody information is provided in Additional file 1: Table S1.
+ Open protocol
+ Expand
2

Quantifying Synaptic Protein Expression

Check if the same lab product or an alternative is used in the 5 most similar protocols
For PSD95 (Cat #SC6926, Santa Cruz), vGluT1 (Cat #75-066, Antibodies Inc.) and GluR1 (Cat #SC7608, Santa Cruz) immunostaining, fixed D14 primary hippocampal neurons were permeabilized with 0.2% Triton and blocked with 20% NHS for 1 h at room temperature. The cells were then immune-labelled in PSB containing 2% NHS overnight at 4 °C. Biotin-conjugated antibodies were used to enhance the staining. Anti-Tuj1 antibody (Neuron-specific class III beta-tubulin; Cat #845502, BioLegend) was used to identify the cells. Three to five dendritic segments per cell were used to quantify the number of puncta using the plugin ITCN of ImageJ. Data are presented as an average of 3 independent experiments.
+ Open protocol
+ Expand
3

Protein Expression Analysis in Neuroinflammation

Check if the same lab product or an alternative is used in the 5 most similar protocols
BCL-2-like protein 11 (Bim) (#2933) at 1:3000, Syk (#13198) at 1:3000, Caspase 3 (#9662) at 1:100 (Cell Signaling Technology, Danvers, MA, USA), iba-1 (016-20001) at 1:1000 (WAKO, Tokyo, Japan), β-actin (sc-47778) at 1:10,000, Cytochrome C (sc-13156) at 1:3000, Glial fibrillary acidic protein (GFAP) (sc-33673) at 1:3000, Synaptosomal-associated protein, 25 kDa (SNAP25) (sc-20038) at 1:3000, synaptophysin (SYP) (sc-17750) at 1:3000, postsynaptic density protein-95 (PSD-95) (sc-71933) at 1:3000, p-NF-kB (sc-136548) at 1:1000, TLR4 (sc-293072) at 1:1000, TNFα (sc-52746) at 1:1000 (Santa Cruz, Dallas, TX, USA), iNOS (610432) at 1:3000 (BD Lifescience, Franklin Lakes, NJ, USA), COX-2 (160126) at 1:3000 (Cayman, Ann Arbor, MI, USA).
+ Open protocol
+ Expand
4

Western Blot Analysis of Neuronal Proteins

Check if the same lab product or an alternative is used in the 5 most similar protocols
Protein extracts were adjusted to a final concentration of 2.5 μg/μL in sample buffer (125 mM Tris-HCl, 4% SDS, 20% glycerol, 200 mM DTT, 0.02% bromophenol blue, pH 6.8) and subjected to SDS-PAGE electrophoresis as described by Laemmli53 (link). Briefly, samples (25 μg) were separated using 10% polyacrylamide gels, transferred onto nitrocellulose membranes, blocked with 5% BSA, and incubated with primary antibodies against the following targets: PTEN (54 kDa, 1:1000, #9559 Cell Signaling Technology, Danvers, MA, USA), AKT (55 kDa, 1:2000, #sc-1619 Santa Cruz Biotechnology, Dallas, TX, USA), p-AKTT308 (60 kDa, 1:750, #4056 Cell Signaling), p-AKTS473 (60 kDa, 1:750, #550747 BD Biosciences, San Jose, CA, USA), S6 (32 kDa, 1:1000, #2217 Cell Signaling), p-S6 (32 kDa, 1:1000, #5364 Cell Signaling), AMPA (100 kDa, 1:500, #13185 Cell Signaling), NR1 (116 kDa, 1:500, #G8913 Sigma-Aldrich, Saint Louis, MO, USA), NR2a (180 kDa, 1:1000, #4205 Cell Signaling), NR2b (190 kDa, 1:1000, #4207 Cell Signaling), PSD-95 (95 kDa, 1:750, #sc-71933 Santa Cruz), synaptophysin (38 kDa, 1:2000, #4329 Cell Signaling), and β-Actin (42 kDa, 1:10000, #A5441 Sigma-Aldrich). Primary antibodies were diluted in 1% BSA, while secondary antibodies were diluted in 5% BSA (1:2000).
+ Open protocol
+ Expand
5

Immunohistochemical Analysis of Neuroinflammation

Check if the same lab product or an alternative is used in the 5 most similar protocols
The primary antibodies used in the current study were as follows: p-AKT (sc-514,032), NRF-2 (sc-722), AKT (sc-5298), HO-1 (sc-136,961), BDNF (sc-546), PARP-1 (sc-8007), PSD-95 (sc-71,933), synaptosomal-associated protein23 (SNAP-23) (sc-374,215), TNF-α (sc-52,746), interleukin- (IL-) 1β (sc-32,294), p-NF-κB (sc-136,548), syntaxin (sc-2,736), NF-κB (sc-8008), Iba-1 (sc-32,725), GFAP (sc-33,673), and β-actin (sc-47,778) (Santa Cruz, USA). The secondary antibodies were horseradish peroxidase- (HRP-) conjugated anti-mouse (Ref# W402) and HRP-conjugated anti-rabbit (Ref# W401). For immunofluorescence analysis, secondary goat anti-mouse and goat anti-rabbit (catalogue numbers: Ref# A11029 & Ref# 32732, respectively) were used in the optimized dilution.
+ Open protocol
+ Expand
6

Immunofluorescence Analysis of Hippocampal Proteins

Check if the same lab product or an alternative is used in the 5 most similar protocols
The process was similar to IHC. Brain samples were quickly obtained and fixed in a 4% PFA solution. Then, 10-μm-thick hippocampal coronal sections were attached to glass slides, dried for 1 h at RT and stored at − 20 °C until use. Sections were permeabilized with prechilled methanol at -20 °C for 10 min and then blocked with 5% normal goat serum solution (Sigma, USA) at room temperature for 1 h. Subsequently, the sections were incubated overnight with anti-BDNF (1:200, Abcam, UK), Nrf2 (1:100, Proteintech, USA), PSD95 (1:100, Santa Cruz, USA), FtL (1:100, Proteintech, USA), TfR (rabbit, 1:100, Abcam, UK), Tf (rabbit, 1:100, Abcam, UK), NeuN (1:100, Abcam, UK) and Iba1 (1:100, Abcam, UK) primary antibodies at 4 °C. The next day, the sections were incubated with Alexa Fluor 488- or 594-conjugated anti-rabbit or anti-mouse IgG secondary antibodies (1:400, Invitrogen). The cell nuclei were stained with 4ʹ,6-diamidino-2-phenylindole (DAPI, Solarbio Life Science, China) for 10 min and then cover-slipped with anti-fluorescence quencher (Dako Denmark). A fluorescence microscope (C2 +, Nikon, Japan) or laser scanning confocal microscope was used to visualize immunofluorescence (IF) images of the slices. ImageJ software (National Institutes of Health, USA) was used to analyse the images.
+ Open protocol
+ Expand
7

Molecular Mechanisms Regulating Synaptic Plasticity

Check if the same lab product or an alternative is used in the 5 most similar protocols
All chemicals, reagents, and materials were purchased from Sigma-Aldrich (St. Louis, MO, USA). The antibodies used in this study were GluR-1 (sc-13152 Santa Cruz, Texas, TX, USA), c-Fos (sc-52 Santa Cruz), Bcl-2 (610539), CREB-1 (sc-186 Santa Cruz), TrkB (ab134155, Cambridge, UK), p-mTOR-Ser2448 (#2971, Cell Signaling Beverly, Category, MA, USA), B-actin (sc-47778 Santa Cruz), BDNF (ab108319, Cambridge, UK), PI3K p85α (sc-423 Santa Cruz), P-AKT (#9275 Cell Signaling Beverly), PSD-95 (sc-32290 Santa Cruz), and CaM K II (05-532, Merck, Darmstadt, Germany). Secondary antibodies (Mouse, Rabbit, and Goat) were obtained from Invitrogen (Carlsbad, CA, USA).
+ Open protocol
+ Expand
8

Synaptic Protein Expression Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
Groups were trained as described above and sacrificed at 30- or 90-min post-conditioning. Following synaptosomal preparation, protein levels were normalized and loaded onto an SDS/PAGE gel and then to a membrane using a transfer apparatus (Bio-Rad). Membranes were incubated in blocking buffer for 1 h before being incubated in GluR1 (Cell Signaling, 1:1000), GluR2 (Santa Cruz, 1:500), SHANK (StressMarq, 1:1000), PSD95 (1:1000, Santa Cruz), synaptophysin (1:1000, Santa Cruz), or actin (Cell Signaling, 1:1000) primary solutions overnight at 4°C. Membranes were then incubated in the appropriate secondary antibody for 1 h and prepped in a chemiluminescence solution for 3 min. Images were captured and densitometry performed using NIH Genesys.
+ Open protocol
+ Expand
9

Immunofluorescence Analysis of Synaptic Markers

Check if the same lab product or an alternative is used in the 5 most similar protocols
After de-paraffinization of sections, the slides were autoclaved in 0.1M sodium citrate pH 6 for antigen retrieval step. The slides were allowed to cool and washed with PBS twice times. Slides were incubated with 5% normal serum depending upon the source of secondary antibody used. The slides were incubated with primary antibodies at 4°C overnight (PSD95, NR2a, synaptophysin, γ-enolase, p-PI3K) from Santa Cruz Biotechnology, and rabbit monoclonal CRMP2, from cell signaling overnight at 1:100 dilution. Next morning, after washing with PBS, fluorescent labeled secondary antibodies (Santa Cruz Biotechnology) were used for signal amplification in dark chamber, followed by mounted with UltraCruz mounting medium (Santa Cruz Biotechnology). The slides were pictured with Confocal scanning microscopes (Flouview FV 1000, Olympus, Japan) using 40× magnification scale, and analyzed by ImageJ, computer based program. ImageJ software was used to quantitatively determine fluorescence intensity of the same region (frontal cortex and striatum) for all groups by optimizing background of image according to the threshold intensity and analyzes the immunofluorescence intensity at the same threshold intensity for all groups and was expressed as the relative integrated density of the samples relative to the control.
+ Open protocol
+ Expand
10

Immunoblotting Protocol for Synaptic Protein Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
IB was performed as described previously35 (link). Proteins were separated on a 10% gel and transferred onto a polyvinylidene difluoride membrane (Thermo Fisher Scientific Inc., MA) using a wet transfer apparatus (Bio-Rad Laboratories Inc., CA). Each membrane was blocked for 1 h at room temperature and then incubated with primary antibodies against PSD-95 (1:200; Santa Cruz Biotechnology Inc., CA), NR2B (1:2000; Proteintech, Chicago, IL), p-NR2B (Ser1303, 1:1000; Abcam, UK), PSD-95 (1:2000; Abcam), p-PSD-95 (Ser295, 1:5000; Abcam), CREB (1:500; Cell Signaling Technology, MA), p-CREB (Ser133, 1:2000; Millipore, CA), tubulin (1:2000; Beyotime Institute of Biotechnology), or GAPDH (1:10000; Aksomics Inc., China) overnight at 4 °C. The blots were then washed and incubated with a peroxide-conjugated secondary antibody (1:2000; Beyotime Institute of Biotechnology) for 2 h at room temperature. Protein bands were visualized by chemiluminescence using an enhanced chemiluminescence reagent (Thermo Fisher Scientific Inc.) and captured using a ChemiDoc MP System (Bio-Rad Laboratories Inc., CA). tubulin was used as a loading control. Commercial markers (Thermo Fisher Scientific Inc.) were used as molecular weight standards.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!