The largest database of trusted experimental protocols

37 protocols using anti alix

1

Protein Extraction and Western Blot Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
Protein extracts from cells were obtained as previously described [61 (link)]. Briefly, proteins samples were extracted by homogenization using a TissueLyser II (QIAGEN, Tokio, Japan) in cold RIPA buffer (200 mM Tris/HCl (pH 7.4), 130 mM NaCl, 10% (v/v) glycerol, 0.1% (v/v) SDS, 1% (v/v) Triton X-100, 10 mM MgCl2) with anti-proteases and anti-phosphatases (Sigma-Aldrich; St Louis, MO, USA). Twenty-five μg cell lysates and the VEs obtained from the same amount of cells per plate from at least three independent experiments were separated in 10% SDS-PAGE gels and electroblotted onto nitrocellulose membranes as previously described [13 (link)]. Primary anti-PAkt, and anti-Akt were purchased from Cell Signaling Technology (MA, USA); anti- Alix, anti-Ceruloplasmin, anti-TSG101, anti-CD81, anti-Syntenin, and anti-Mimecan from Sta. Cruz Biotechnology (CA, USA); anti-TGFBeta Ig-h3 (NMP2-67186; dilution 1:500) from Novus Biologicals (NovusBio, CO, USA) and anti-Perilipin-1 from Abcam. Data were expressed as percentages corrected towards GADPH (arbitrary units) in Western blots with mean ± SEM. Data analyses were conducted using GraphPad Prism 6 software.
+ Open protocol
+ Expand
2

Protein Expression Analysis of Extracellular Vesicles

Check if the same lab product or an alternative is used in the 5 most similar protocols
The protein extracts of cells (or EVs, see the “Production of EVs derived from H-DPSCs and P-DPSCs (H-EVs and P-EVs)” section) were subjected to sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and transferred to PVDF membranes (Millipore, Billerica, MA, USA). Then, the membranes were blocked in 5% nonfat milk in Tris-buffered saline Tween-20 (TBST, Heart). After incubating with primary antibodies including anti-β-actin (1:1000; Proteintech, Rosemont, USA; #60008-1-lg), anti-ALIX (1:1000; Cell Signaling Technology, Danvers, MA, USA; #2171), anti-HSP-70 (1:1000; Cell Signaling Technology; #4876), anti-CD9 (1:1000; Cell Signaling Technology; #13174), anti-CD81 (1:1000; Abcam, Cambridge, Britain; ab109201), anti-VEGF(1:1000; Abcam; ab46154), and anti-AngII (1:100; Santa Cruz, CA, USA; sc-74,403) at 4 °C overnight, the membranes were washed three times with TBST. Then, the cells were incubated with horseradish peroxidase-conjugated secondary antibodies (1:5000, Proteintech; SA00001-1 or SA00001-2) for 2 h at room temperature. Subsequently, blots were detected using chemiluminescent detection reagent (Zeta Life, CA, USA), and the protein bands were analyzed with ImageJ software. β-actin was employed as the housekeeping gene for internal normalization.
+ Open protocol
+ Expand
3

Cell Culture and Reagent Preparation

Check if the same lab product or an alternative is used in the 5 most similar protocols
Cells were obtained from the American Type Culture Collection (Manassas, VA, USA). All cells were cultured in appropriate medium containing 10% fetal bovine serum (FBS; Welgene, Gyeongsan, Korea), 1% penicillin-streptomycin, and 100 μg/mL gentamycin (Thermo Fisher Scientific, Waltham, MA, USA). All cell lines tested negative for mycoplasma contamination. The lines were authenticated by standard morphologic examination using microscopy. FTY720 was purchased from Echelon Biosciences (Salt Lake City, UT, USA). N-acetyl-l-cysteine was obtained from Calbiochem (San Diego, CA, USA). E64D and NBD-FTY720 were purchased from Cayman Chemical (Ann Arbor, MI, USA). TNF-α and z-VAD-fmk were purchased from R&D Systems (Minneapolis, MN, USA). PD98059, SB203580, SP600125, NecroX-5, and pepstatin A were obtained from Enzo Life Science (Farmington, NY, USA). Anti-PARP, anti-Cathepsin D, anti-LAMP1, and anti-Beclin 1 antibodies were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Anti-phospho-ERK, phosho-p38, anti-phospho-JNK, and anti-Alix were purchased from Cell Signaling Technology (Beverly, MA, USA). The anti-ATG7 antibody was obtained from ProSci Inc. (Poway, CA, USA). The cycloheximide, H2O2, 3-methyladenine, actinomycin D, glutathione ethyl ester, and anti-actin antibody were obtained from Sigma (St. Louis, MO, USA).
+ Open protocol
+ Expand
4

Exosome Protein Characterization by Western Blot

Check if the same lab product or an alternative is used in the 5 most similar protocols
Cells and exosomes were lysed in RIPA buffer (Cell Signaling). Sample loading was normalized according to BCA protein assay kit (Pierce) and proteins were separated following an electrophoretic gradient across polyacrylamide gels. Wet electrophoretic transfer was used to transfer the proteins in the gel onto 0.45 µm pore-size PVDF membranes (Novex). The protein blot was blocked for 1 h at room temperature with starting block (Thermo) and incubated overnight at 4 °C with the following primary antibodies: anti-Calnexin (Abcam, ab22595), Anti-Alix (Cell Signaling, 3A9), anti-TSG-101 (Abcam, ab83), anti-CD9 (SBI, ExoAb-kit-1). All antibodies were diluted 1:1000. Afterwards, horseradish peroxidase (HRP)-conjugated secondary antibodies (EMD Millipore, 12-348 and 12-349, 1:5000) were incubated for 40 min at room temperature. Washes after antibody incubations were done on an orbital shaker, three times at 10-min intervals, with TBS-Tween20. Blots were developed with the Dura and Pico supersignal chemiluminescent reagents (Thermo). Uncropped versions of all western blot images are presented at the end of the Supplementary Information accompanying this article.
+ Open protocol
+ Expand
5

Detecting Caveolae Protein Interactions

Check if the same lab product or an alternative is used in the 5 most similar protocols
Monoclonal anti-Cav1 (#3267) and anti-Alix (#2171) antibodies were from Cell Signaling Technology. Anti-LBPA was from Echelon (Z-SLBPA). Anti-CD63 (ab1318), antiflotillin (ab13349), antiperiostin (ab14041), anticalreticulin (ab2907), anti-PTRF (ab48824), and anti-Tsg101 (ab83) were from Abcam. Anti-GM130 (610823), anti–py14-Cav1 (611339), anticadherin (610181), and antivimentin (550513) were from BD Transduction. Antitubulin (T-9026), anti-FN (F3648), Anti-Tenascin (Clone Mtn-12, T3413), and anti–smooth muscle actin (A5228) were from Sigma. Anti-Tenascin was also from Millipore (AB19011). Anti-nSMase1 (sc-377135) and anti-nSMase2 (sc-166637) were from Santa Cruz. Alexa Fluor 488-, 546-, and 647-conjugated phalloidin were from Life Technologies. GW4869 (567715) was from Calbiochem, and dmA (A4562) and U18666A (U3633) were from Sigma. Matrigel (354230) was from Becton Dickinson, and Collagen I from rat tail (354249) was from Corning. Filipin was from Sigma (F4767).
+ Open protocol
+ Expand
6

Western Blot Analysis of Exosomal Proteins

Check if the same lab product or an alternative is used in the 5 most similar protocols
Exosome pellets were suspended with 1× PBS and lysed with RIPA buffer containing protease and phosphatase inhibitors. Proteins were diluted with 5× sample buffer, separated by SDS-PAGE, and transferred to a nitrocellulose membrane. The membranes were blocked with PBS containing 0.1% Tween-20 and 5% skim milk and then incubated with primary antibodies at 4 °C overnight. The blots were incubated with horseradish peroxidase-conjugated secondary antibodies and detected using an EZ-western detection kit (Dogen-Bio, Seoul, Korea). Anti-Alix, -CD9, and -GAPDH antibodies were purchased from Cell Signaling (Danvers, MA, USA).
+ Open protocol
+ Expand
7

Quantifying Protein-Antibody Interactions via ELISA

Check if the same lab product or an alternative is used in the 5 most similar protocols
ELISA plates were coated with the recombinant protein (5 μg/mL) in coating buffer (carbonate-bicarbonate buffer, pH 9.6; Medicago) overnight at 4°C and blocked with 5% skim milk in PBST for 30 min at 37°C. After rinsing with PBS, the analyte of recombinant protein was diluted in PBST (10, 100, or 1,000 nM) for 1 h at 37°C followed by three washes with PBST. Then, plates were treated with the primary antibodies (anti-TSG101 [catalog no. 28283-1-AP; Proteintech], anti-Alix [catalog no. 92880; Cell Signaling], and anti-GFP [catalog no. 600-101-215; Rockland]) for 1h at 37°C and washed 3 times with PBST, followed by the 1-h, 37°C incubation with the HRP-conjugated secondary antibody (HRP-anti-rabbit IgG [catalog no. 7074; Cell Signaling] and HRP-anti-goat IgG [catalog no. sc-2020; Santa Cruz]) and washed 3 times with PBST. The 1-Step Ultra TMB-ELISA substrate (Thermo) was added, and the reaction was stopped by 2 M H2SO4. The optical density at 450 nm (OD450) was measured by an iMark microplate reader (Bio-Rad).
+ Open protocol
+ Expand
8

Comprehensive Immunofluorescence and Western Blot Antibody Panel

Check if the same lab product or an alternative is used in the 5 most similar protocols
Primary antibodies: Anti-TGN46 (PA5-23068,
Invitrogen, MA), Anti-hCD9 (Clone MM2-57, Millipore, MA), Anti-hCD63
(556019, BD Biosciences, New Jersey), Anti-HA (for IF, 66006-2-Ig,
Proteintech, IL; for WB, C29F4, Cell Signaling, MA), Anti-Cherry (5993-100,
BioVision, CA), Anti-calnexin (ab133615, Abcam, Cambridge, U.K.),
Anti-ALIX (Clone 3A9, 2171S, Cell Signaling, MA), Anti-HSP70/HSP72
(Clone C92F3A-5, ADI-SPA-810F, Enzo Life Sciences, NY), Anti-Actin
(Clone C4, MAB1501, Millipore, MA), Anti-VSV-G (Clone P5D4, CurieCoreTech
of Curie Institute, Paris, France), and Anti-Syncytin-1 (recognizes
amino acids 27–76; ab179693, Abcam, Cambridge, U.K.). Secondary
antibodies for Western blotting: goat anti-rabbit IgG (H + L)-HRP
conjugate (1706515, Bio-Rad, CA) and goat antimouse IgG (H + L)-HRP
conjugate (1706516, Bio-Rad, CA). Secondary antibody for immunofluorescence:
goat antimouse IgG (H + L) highly cross-absorbed secondary antibody,
Alexa Fluor 488 (A11029, Thermo Fisher Scientific, IL).
+ Open protocol
+ Expand
9

Antibody Detection for Protein Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
The following primary antibodies were used in the study: polyclonal anti-C-terminal APN antibody (Novus Biologicals, Littleton, CO), anti-anti-N-terminal APN antibody (Abcam, Cambridge, UK), anti-AdipoR1 (C-14) antibody (Santa Cruz Biotechnology, Santa Cruz, CA), anti-alix (Cell Signaling, Beverly, MA), anti-αS (Cell Signaling) and monoclonal anti-αS (syn-1, BD Biosciences, Franklin Lakes, NJ), anti-pαS (Wako Pure Chemical Industries, Osaka, Japan), anti-flottilin-1 (BD Biosciences), and anti-ß-actin (Sigma) antibodies. The secondary antibodies were Alexa Fluor 488-conjugated anti-rabbit antibody and Alexa Fluor 594-conjugated anti-mouse antibody (Invitrogen, Carlsbad, CA).
+ Open protocol
+ Expand
10

Total Protein and Exosome Marker Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
For total protein preparation, cells were lysed in 65.8 mM Tris-HCl (pH 6.8), 26.3% glycerol, 2% SDS, 50 mM 2-mercaptoethanol, and Complete protease inhibitor cocktail (Roche). For exosome marker analysis, proteins in total cell lysates, microvesicle fraction (10,000 x g pellet during the exosome isolation described above), or exosome fractions were separated by 4–12% SDS-PAGE and subsequently transferred electrophoretically to nitrocellulose membrane. The blots were probed with anti-syntenin (Bio-Rad), anti-Alix (Cell Signaling Technology), or anti-Rictor (Cell Signaling Technology) as primary antibodies followed by appropriate HRP-conjugated secondary antibodies for chemiluminescence detection. Unsaturated signals on the blots were captured with Odyssey Fc Imaging System (Li-Cor).
+ 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!