Source: Hanna-Addams, S., et al. Use of Two Dimensional Semi-denaturing Detergent Agarose Gel Electrophoresis to Confirm Size Heterogeneity of Amyloid or Amyloid-like Fibers. J. Vis. Exp. (2018).
This video demonstrates the two-dimensional semi-denaturing detergent agarose gel electrophoresis-based separation of amyloid fibers. The technique separates the polymorphic amyloid aggregates based on their heterogeneous size.
1. Prepare Samples
2. Prepare and Run Gels
Figure 1. Experimental protocol. (A) Schematic of the two-dimensional semi-denaturing detergent agarose gel electrophoresis (2D SDD-AGE). Begin by loading the sample in the right most lane, labeled in red. After termination of the first dimension run, rotate the gel 90° counter-clockwise. Run the second dimension electrophoresis. Solid arrow indicates the direction of the first dimension run, dotted arrow indicates the direction of the second dimension run. (B) Schema of transfer by capillary action
The authors have nothing to disclose.
gel electrophoresis unit | Fisher | HE99XPRO | appratus for gel running. |
agrose | VWR | 97062-250 | For agarose gel. |
DMEM | Sigma | D6429 | for cell culture |
fetal bovine serum | Sigma | F4135 | for cell culture |
penicilin-streptomycin | Sigma | P4333 | for cell culture |
Trypsin solution | Sigma | T4049 | for cell culture |
PBS for tissue culture | Sigma | D8662 | for cell culture |
recombinant TNF | made in our lab | for inducing necroptosis. See reference 11. | |
smac-mimetic | gift from Dr. Xiaodong Wang | for inducing necroptosis. See reference 11. | |
ZVAD-FMK | ApexBio | A1902 | for inducing necroptosis. See reference 11. |
Cell Counter | Bio-Rad | 1450102 | Model TC20; for counting cells |
Pierce™ BCA Protein Assay Kit | Thermo Scientific | 23225 | for measuring protein concentration in cell lysates |
Cell lifter | Fisher | 07-200-364 | to remove cells from dish |
Lysis Buffer (1 L) | 20 mL 1 M Tris pH 7.4 10 mL glycerol 30 mL 5 M NaCl 840 mL ddH2O 10 mL Triton-X100 (protease and phosphates inhibitors as desired) |
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10X TAE (1 L) | 48.4 g Tris base 11.42 mL glacial acetic acid 20 mL 0.5M EDTA pH 8 ddH20 to 1 L |
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4X SDD-AGE loading buffer (50 mL) | 5 mL 10X TAE 10 mL glycerol 4 mL 20% SDS 0.5 mL 10% bromophenol blue 31 mL ddH2O |
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PBST Wash Buffer (1 L) | 100 mL 10xPBS 800 mL ddH2O 1 mL Tween20 |
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10X PBS (10 L) | 800 g NaCl 20 g KCl 144 g Na2HPO4·2H2O 24 g KH2PO4 add ddH2O to 10 L |