Analysis of the Ubiquitination and Phosphorylation of Vangl Proteins

Materials and Reagents

1. Materials

   1. Cell culture dish, 100 mm diameter (Corning, catalog number: 9380H79)

   2. Cell culture dish, 60 mm diameter (Corning, catalog number: 9380H77)

   3. 12-well plate (Fisher Scientific, catalog number: 08-100-241)

   4. 15 mL centrifuge tube (Sigma-Aldrich, catalog number: CLS430791)

   5. 10 mL pipet (Corning, catalog number: 4488)

   6. 1.5 mL Eppendorf tube (Axygen, catalog number: MCT-150-C)

   7. 1,000 µL blue tip (Axygen, catalog number: T-1000-B)

   8. 200 µL yellow tip (Axygen, catalog number: T-200-Y)

   9. 10 µL clear tip (Axygen, catalog number: T-300)

   10. Eppendorf pipettes (Eppendorf, catalog number: 2231300002)

   11. Electronic pipette (Thermo Scientific, catalog number: 9501)

   12. 0.22 µm filter (Fisher Scientific, catalog number: SLGP033RS)

   13. Cell scraper (Fisher Scientific, catalog number: 08-100-241)

       
       

2. Cell lines and plasmids

   1. HEK293T (Human Embryonic Kidney 293T) cells (ATCC, catalog number: CRL-3216)

   2. CHO (Chinese Hamster Ovary) cells (ATCC, catalog number: CCL-61)

   3. HA-Vangl2 plasmid (described previously in Gao et al., 2011)

   4. His-Ubiquitin plasmid (described previously in Feng et al., 2021)

   5. FLAG-Wnt5a plasmid (described previously in Gao et al., 2011)

   6. FLAG-Ror2 plasmid (described previously in Gao et al., 2011)

   7. Myc-CK1δ plasmid (described previously in Gao et al., 2011)

      
      

3. Antibodies

   1. Anti-HA antibody (Roche, catalog number: 11867431001, 1:5,000 dilution)

   2. Anti-His antibody (Abcam, catalog number: ab18184, 1:5,000 dilution)

   3. Anti-FLAG antibody (Sigma-Aldrich, catalog number: F1804, 1:5,000 dilution)

   4. Anti-Myc antibody (Santa Cruz Biotechnology, catalog number: sc-40, 1:2,000 dilution)

   5. Anti-Ubiquitin antibody (FK2) (Enzo Life Sciences, catalog number: ENZ-ABS840-0100, 1:1,000 dilution)

   6. Anti-Vangl2-Phospho-T78/S79/S82 antibody (ABclonal, catalog number: AP1206, 1:1,000 dilution)

   7. Anti-Vangl2-Phospho-S79/S82/S84 antibody (ABclonal, catalog number: AP1207, 1:1,000 dilution)

   8. Anti-Actin antibody (Sigma-Aldrich, catalog number: A2228, 1:5,000 dilution)

   9. Anti-GAPDH antibody (Santa Cruz Biotechnology, catalog number: sc-47724, 1:5,000 dilution)

   10. Goat anti-Mouse IgG (H+L) Secondary Antibody, HRP (Invitrogen, catalog number: 31430)

   11. Goat anti-Rabbit IgG (H+L) Secondary Antibody, HRP (Invitrogen, catalog number: 31460)

   12. Goat anti-Rat IgG (H+L) Secondary Antibody, HRP (Invitrogen, catalog number: 31470)

       
       

4. Reagents

   1. Dulbecco’s Modified Eagle Medium (DMEM) (Gibco, catalog number: 12-800-017)

   2. Fetal Bovine Serum (FBS) (Gibco, catalog number: 10-099-141)

   3. Penicillin-Streptomycin (PS) (Gibco, catalog number: 15140122)

   4. 0.25% Trypsin-EDTA (Gibco, catalog number: 25-200-056)

   5. Proteasome inhibitor MG132 (Abcam, catalog number: ab141003)

   6. Lysosome inhibitor chloroquine (CQ) (Sigma-Aldrich, catalog number: C6628)

   7. CK1 inhibitor D4476 (Abcam, catalog number: ab120220)

   8. Deubiquitinase inhibitor N-Ethylmaleimide (NEM) (Thermo Fisher Scientific, catalog number: 23030)

   9. cOmplete, EDTA-free Protease Inhibitor Cocktail (Roche, catalog number: 11836153001)

   10. Phosphatase Inhibitor Cocktail (Thermo Fisher Scientific, catalog number: 78420)

   11. Polyethylenimine (PEI) (Sigma-Aldrich, catalog number: 765090)

   12. Opti-MEM^TM I Reduced Serum Medium (Gibco, catalog number: 31985070)

   13. Ni-NTA Agarose (Qiagen, catalog number: 30210)

   14. Protein A/G Plus-agarose (Santa Cruz Biotechnology, catalog number: sc-2003)

   15. Tris (Thermo Scientific, catalog number: J75825)

   16. Sodium chloride (NaCl) (Sigma-Aldrich, catalog number: S9888)

   17. Sodium phosphate dibasic (Na₂HPO₄) (Sigma-Aldrich, catalog number: S9763)

   18. Sodium phosphate monobasic (NaH₂PO₄) (Sigma-Aldrich, catalog number: S0751)

   19. Sodium bicarbonate (NaHCO₃) (Sigma-Aldrich, catalog number: S6014)

   20. Potassium chloride (KCl) (Sigma-Aldrich, catalog number: P3911)

   21. Sodium phosphate monobasic (KH₂PO₄) (Sigma-Aldrich, catalog number: P5379)

   22. Glycine (Affymetrix, catalog number: 16407)

   23. Sodium dodecyl sulfate (SDS) (Sigma-Aldrich, catalog number: 436143)

   24. Imidazole (Sigma-Aldrich, catalog number: 12399)

   25. Guanidine hydrochloride (Sigma-Aldrich, catalog number: 50950)

   26. 4x Laemmli Sample Buffer (Bio-Rad, catalog number: 1610747)

   27. β-Mercaptoethanol (Bio-Rad, catalog number: 1610710)

   28. 30% Acrylamide/Bis Solution, 29:1 (Bio-Rad, catalog number: 1610156)

   29. Ammonium persulfate (APS) (Sigma-Aldrich, catalog number: A3678)

   30. Tetramethylethylenediamine (TEMED) (Sigma-Aldrich, catalog number: T9281)

   31. PageRuler Prestained Protein Ladder (Thermo Scientific, catalog number: 26616)

   32. Immobilon-P membrane (PVDF) (Merck, catalog number: IPVH00010)

   33. Methanol (VWR International, catalog number: BDH1135-1LP)

   34. 2-Propanol (VWR International, catalog number: BDH1131-1LP)

   35. Bovine Serum Albumin (BSA) (Sigma-Aldrich, catalog number: A3912)

   36. IGEPAL CA-630 (Sigma-Aldrich, catalog number: 18896)

   37. Triton X-100 (Sigma-Aldrich, catalog number: 11332481001)

   38. Tween-20 (Sigma-Aldrich, catalog number: P1379)

   39. Deoxycholic acid (DCA) (Selleck Chemicals, catalog number: S4689)

   40. SuperSignal West Femto Maximum Sensitivity Substrate (Thermo Scientific, catalog number: PI34096)

   41. PBS (see Recipes)

   42. RIPA lysis buffer (see Recipes)

   43. Buffer A (see Recipes)

   44. Buffer TI (see Recipes)

   45. Buffer B (see Recipes)

   46. 8% Resolving Gel (see Recipes)

   47. 5% Stacking Gel (see Recipes)

   48. WB Running Buffer (see Recipes)

   49. WB Transfer Buffer (see Recipes)

   50. WB Blocking Buffer (see Recipes)

   51. WB Washing Buffer (see Recipes)

Equipment

1. 37 °C, 5% CO₂ forced-air incubator (Thermo Scientific, catalog number: 4110)

2. Warm water bath

3. Ultrasonic cell disruptor (Costar, catalog number: 3513)

4. Dry bath (Heater) (VWR International, catalog number: SH-1001)

5. Microcentrifuge (Hitachi, catalog number: CT15RE)

6. Shaker (VWR, catalog number: 97109-890)

7. Rotator (VWR, catalog number: 10136-084)

8. SDS-PAGE gel casting apparatus (Bio-Rad, catalog number: 1658008)

9. Protein electrophoresis and blotting instruments (Bio-Rad, catalog number: 1656019)

10. ChemiDoc MP imaging system (Bio-Rad, catalog number: 17001402)

Software

1. Image Lab 6.1 Software (Bio-Rad)

2. ImageJ (NIH)

   
   

Part I: For Vangl2 ubiquitination assay

Procedure

1. Cell culture, transfection, and MG132 treatment

   HEK293T cells are maintained in DMEM complete medium (DMEM supplemented with 10% FBS and 1% PS) in a humid incubator at 37 °C and 5% CO₂.

   1. Culture HEK293T cells in a 100 mm diameter culture dish until 90% confluency.

   2. Pass cells at the ratio of 1:6 into 60 mm diameter cell culture dishes.

   3. Incubate cells at 37 °C, 5% CO₂ for ~20 h until 50%–70% confluency.

   4. Replace with 4 mL of fresh medium 4 h before transfection.

   5. Transfect cells with plasmids expressing HA-Vangl2 and/or His-Ubiquitin, using 1 mg/mL polyethylenimine (PEI) at the ratio of 1:4 (µg DNA: µg PEI). For a 60 mm cell culture dish, transfect 4 µg plasmids in total (2 µg HA-Vangl2 + 2 µg empty vector, 2 µg His-Ubiquitin + 2 µg empty vector, or 2 µg HA-Vangl2 + 2 µg His-Ubiquitin).

   6. Incubate the cells for 12 h.

   7. Replace with 4 mL of fresh medium 12 h post transfection.

   8. Culture the transfected cells for 48 h in total.

   9. Add MG132 to a final concentration of 10 µM, and incubate for 4 h before harvesting the cells.

      
      

   To ensure the ubiquitination signal is exclusively from Vangl2 rather than its interacting proteins, the ubiquitination assay is performed under denaturing conditions, using either 2% SDS lysis buffer (Choo and Zhang, 2009) or 6 M guanidine lysis buffer (Wang et al., 2017). We provided two methods for analysis of the ubiquitination of a protein of interest because they are both commonly used, and we have verified them in the previous studies. Therefore, here we provide the two methods to detect the ubiquitination of Vangl2. We suggest that readers choose one of the two methods to start their experiments.

   
   

2. Ubiquitination assay under 2% SDS denaturing condition

   1. Gently aspirate media, and rinse cells with cold PBS three times immediately before cell harvest.

   2. Lyse cells in a 60 mm dish with 100 µL of RIPA lysis buffer containing 2% SDS, 10 mM deubiquitinase inhibitor NEM, protease and phosphatase inhibitors. Incubate at room temperature (RT) for 5 min before scraping and collecting the cell lysates into 1.5 mL Eppendorf tubes.

   3. Boil at 95 °C for 10 min.

   4. Sonicate with the ultrasonic cell disruptor at 3s ON/7s OFF with 30% amplitude, until the solution is clear.

   5. Dilute the supernatants with nine times (900 µL) of RIPA lysis buffer, to reduce the SDS concentration to 0.2%, and make the final volume of lysates 1 mL.

   6. Incubate on ice for 15 min.

   7. Centrifugate at 16,000 × g, 4 °C for 15 min, and collect the supernatants.

   8. Prepare the input sample by collecting 1/20 of the total supernatants (50 µL). Add 17 µL of 4× Laemmli Sample Buffer containing 10% 2-Mercaptoethanol to the supernatants. Boil at 95 °C for 10 min. Store at -20 °C until use as input sample.

   9. Incubate the remaining 19/20 of total supernatants (950 µL) with anti-HA antibody with rotation, at 4 °C overnight.

   10. Next day, pre-wash the Protein A/G PLUS-Agarose beads twice with cold PBS, and once with cold RIPA lysis buffer.

   11. Add 20 µL of pre-washed Protein A/G PLUS-Agarose beads to the supernatants for further incubation at 4 °C for 2 h.

   12. Wash protein-bound Protein A/G PLUS-Agarose beads four times in RIPA lysis buffer. For each wash, add 1 mL of RIPA lysis buffer to the beads, mix well, and incubate for 2 min. Centrifugate at 2,000 × g, 4 °C for 2 min, and discard the supernatants.

   13. Prepare the immunoprecipitation (IP) sample. After the final wash, leave 75 µL of buffer in the Eppendorf tube and add 25 µL of 4× Laemmli Sample Buffer containing 10% 2-Mercaptoethanol to the beads. Boil at 95 °C for 10 min. Store at -20 °C until use as IP sample.

       
       

3. Ubiquitination assay under 6 M guanidine denaturing condition

   1. Gently aspirate media, and rinse cells with cold PBS three times immediately before cell harvest.

   2. Collect the cells using 1 mL of cold PBS. Pipette the cells in PBS several times until they detach from the culture dish, and then pipette them into an Eppendorf tube.

   3. Separate the cells into two Eppendorf tubes, with 1/20 of total cells in one tube and the remaining 19/20 in the other tube.

   4. Centrifugate at 1,500 × g, 4 °C for 3 min to collect the two individual parts of cells. Discard the supernatants.

   5. Prepare the input sample. Lyse 1/20 of the cells in 50 µL of RIPA lysis buffer containing protease and phosphatase inhibitors. Incubate on ice for 20 min. Centrifugate at 16,000 × g, 4 °C for 15 min, and collect the supernatants. Add 17 µL of 4× Laemmli Sample Buffer containing 10% 2-Mercaptoethanol to the supernatants. Boil at 95 °C for 10 min. Store at -20 °C until use as input sample.

   6. Lyse the remaining 19/20 of total cells using 1 mL of Buffer A containing 6 M guanidine, 10 mM NEM, protease and phosphatase inhibitors (see Recipes).

   7. Sonicate with the ultrasonic cell disruptor at 3s ON/7s OFF with 30% amplitude, until the solution is clear.

   8. Centrifugate at 16,000 × g for 15 min, and collect the supernatants.

   9. During centrifugation, pre-wash the nickel-nitrilotriacetic acid (Ni-NTA) beads with Buffer A three times.

   10. Add 20 µL of pre-washed Ni-NTA beads to the supernatants and incubate with gentle rotation at RT for 3 h.

   11. Wash protein-bound Ni-NTA beads using Buffer A, Buffer B, and Buffer TI shown below. For each wash, add 1 mL of buffer to the beads, mix well, and incubate for 2 min, centrifugate at 2,000 × g for 2 min, and discard the supernatants.

   12. Wash the beads once in Buffer A (see Recipes).

   13. Wash the beads twice in Buffer B (see Recipes).

   14. Wash the beads twice in Buffer TI (see Recipes).

   15. Prepare the pulldown (PD) sample. After the final wash, leave 75 µL of Buffer TI in the Eppendorf tube, and add 25 µL of 4× Laemmli Sample Buffer containing 10% 2-Mercaptoethanol to the beads. Boil at 95 °C for 10 min. Store at -20 °C until use as PD sample.

       
       

   After sample preparation from either B or C, perform the following detection and analysis procedures.

   
   

4. Ubiquitination analysis by western blotting (WB)

   1. Set an 8% SDS-PAGE gel.

   2. Assemble the SDS-PAGE gel into an SDS-PAGE electrophoresis chamber.

   3. Fill the chamber with WB Running Buffer (see Recipes).

   4. Load 1 µg protein ladder and 30 µg input or IP/PD samples in the wells of the stacking gel.

   5. Run for ~20 min using constant 80 V when the samples are in the stacking gel, and for ~120 min in the resolving gel at 120 V for a better separation of proteins.

   6. Rinse PVDF membrane in methanol for 15s for activation. Transfer the gel onto the activated membrane in WB Transfer Buffer (see Recipes) using constant 300 mA at 4 °C for 120 min.

   7. Block the transferred membrane in WB Blocking Buffer (see Recipes) with gentle shaking at RT for 1 h.

   8. Dilute primary antibodies in WB Blocking Buffer (see Recipes) at the indicated dilution. Incubate the membrane with primary antibodies with gentle shaking at 4 °C overnight.

   9. Next day, wash the membrane in WB Washing Buffer (see Recipes, TBST Buffer) at RT 5 × 10 min.

   10. Dilute HRP-conjugated secondary antibodies in WB Blocking Buffer at 1:5,000 dilution. Incubate the membrane with secondary antibodies with gentle shaking at RT for 1 h.

   11. Wash the membrane in WB Washing Buffer (TBST Buffer) at RT 5 × 10 min.

   12. Mix Solutions A and B at 1:1 from SuperSignal West Femto Maximum Sensitivity Substrate kit, and use the mixed solution to cover the membrane. Incubate for an appropriate time for chemiluminescent signal development.

   13. Perform image acquisition using the ChemiDoc MP imaging system, following the manufacturer’s instructions.

   14. Edit gel images using ImageJ, and present the results.

Data analysis

1. Here is a representative result showing the ubiquitination of Vangl2 under 2% SDS denaturing condition (Figure 1).

   
   

   
   Figure 1. Detection of Vangl2 ubiquitination under 2% SDS denaturing condition. HEK293T cells were transfected with HA-Vangl2 plasmid for 48 h, and treated with proteasome inhibitor MG132 (10 µM) or lysosome inhibitor chloroquine (CQ, 25 μM) for 4 h before cell harvest. HA antibody conjugated Protein A/G agarose beads were used for immunoprecipitation (IP) of HA-Vangl2 and its covalently bound endogenous ubiquitin, under 2% SDS denaturing condition. HA-Vangl2 and endogenous ubiquitin from input and IP samples were subjected to immunoblotting with the indicated antibodies. Endogenous ubiquitin was examined by total ubiquitin FK2 antibody. GAPDH serves as a loading control. The 55kDa bands in the HA IP portion indicate the IgG heavy chains. This result is from Feng et al. (2021).

   
   

2. Here is a representative result showing the ubiquitination of Vangl2 under 6 M guanidine denaturing condition (Figure 2).

   
   

   
   Figure 2. Detection of Vangl2 ubiquitination under 6 M guanidine denaturing condition. HEK293T cells were transfected with HA-Vangl2 and/or His-Ubiquitin (His-Ub) plasmids for 48 h and treated with proteasome inhibitor MG132 (10 µM) for 4 h before cell harvest. Ni-NTA beads were used to pull down His-Ubiquitin and its covalently bound proteins under 6 M guanidine denaturing condition. HA-Vangl2 and His-Ubiquitin from Input and Pulldown samples were subjected to immunoblotting by the indicated antibodies. GAPDH serves as a loading control. The band in the leftmost pulldown sample should be the background. This result is from Feng et al. (2021).

   
   

Part II: For Vangl2 phosphorylation assay

Procedure

HEK293T cells are commonly used cell line for protein ubiquitination studies, and Vangl2 ubiquitination is easily detected under our investigation. Based on our experimental experience, Wnt5a/CK1 could induce more robust phosphorylation of Vangl proteins in CHO cells than in HEK293T cells (the band shift is more remarkable in CHO cells), so we switch from HEK293T cells to CHO cells for better demonstration of Vangl phosphorylation assay. To analyze the phosphorylation of Vangl2, we transfect CHO cells with plasmids expressing Wnt5a/Ror2 or CK1δ, to induce Vangl2 phosphorylation (Feng et al., 2021; Gao et al., 2011; Yang et al., 2017). The phosphorylation is detected by western blotting analysis with HA and Vangl2 phospho-specific antibodies. Procedures of cell culture, transfection, harvest, sample preparation, and western blotting analysis are similar to those in the ubiquitination assay.

CHO cells are maintained in DMEM complete medium (DMEM supplemented with 10% FBS and 1% PS) in a humid incubator at 37 °C and 5% CO₂.

1. Culture CHO cells in a 100 mm diameter culture dish until 90% confluency.

2. Pass cells at the ratio of 1:30 into a 12-well cell culture plate.

3. Incubate the cells at 37 °C, 5% CO₂ for ~20 h until 50%–70% confluency.

4. Replace with 1 mL of fresh medium 4 h before transfection.

5. Transfect cells with plasmids expressing HA-Vangl2, and/or FLAG-Wnt5a/Ror2 and Myc-CK1δ, using 1 mg/mL PEI at the ratio of 1:4 (µg DNA: µg PEI). For each well of a 12-well culture plate, transfect 1 µg plasmids in total (0.5 µg HA-Vangl2 + 0.5 µg empty vector, 0.5 µg HA-Vangl2 + 0.5 µg FLAG-Wnt5a/Ror2, or 0.5 µg HA-Vangl2 + 0.5 µg Myc-CK1δ).

6. Incubate the cells for 12 h.

7. Replace with 1 mL of fresh medium 12 h post transfection.

8. Culture the transfected cells for 48 h in total.

9. Gently aspirate media, and rinse cells with cold PBS three times immediately before cell harvest.

10. Collect cells as follows: detach cells using trypsin, and inactivate trypsin using DMEM complete medium. Pipette cells into an Eppendorf tube for centrifugation, and resuspend the cell pellet using 200 µL of cold PBS.

11. Centrifugate at 1,500 × g, 4 °C for 3 min, to collect the cells. Discard the supernatants.

12. Prepare the sample for western blotting. Lyse the cells in 75 µL of RIPA lysis buffer containing protease and phosphatase inhibitors. Incubate on ice for 20 min. Centrifugate at 16,000 × g, 4 °C for 15 min, and collect the supernatants. Add 25 µL of 4× Laemmli Sample Buffer containing 10% 2-Mercaptoethanol to the supernatants. Boil at 95 °C for 10 min. Store at -20 °C until use.

13. Detect and analyze the phosphorylation of Vangl2 by western blotting. Run an 8% Tris/Bis SDS-PAGE gel at 120 V for ~2 h, until the 55 kDa marker band runs to the bottom of the gel.

14. Use HA and Vangl2 phospho-specific antibodies for detection.

Data analysis

Here is a representative result showing that Wnt5a/Ror2 and CK1δ markedly promote phosphorylation, especially the hyperphosphorylation of Vangl2 (Figure 3).

Figure 3. Detection of Vangl2 phosphorylation. Wnt5a/Ror2 and CK1δ largely promote the phosphorylation of HA-Vangl2. CHO cells were transfected with HA-Vangl2 and/or co-transfected with FLAG-Wnt5a/Ror2 and Myc-CK1δ plasmids for 48 h before cell harvest, in the presence or absence of CK1 inhibitor D4476 (100 μM) for 6 h. The cell lysates were subjected to immunoblotting by the indicated antibodies. For detection of the phosphorylation of Vangl2, HA and two site-specific phospho-Vangl2 antibodies (p-T78/S79/S82 and p-S79/S82/S84) were used. Actin serves as a loading control. The lower-black, middle-blue, and upper-red arrows denote unphosphorylated, basally phosphorylated, and hyperphosphorylated Vangl2, respectively.

Recipes

1. Phosphate Buffered Saline (PBS)

   Reagent	Concentration
   NaCl	137 mM
   KCl	2.7 mM
   Na2HPO4	10 mM
   KH2PO4	1.8 mM

   Adjust the pH to 7.4.

2. RIPA Lysis Buffer

   Reagent	Concentration
   Tris [pH 7.4]	50 mM
   NaCl	150 mM
   IGEPAL CA-630	1% (v/v)
   Deoxycholic acid	0.25% (v/v)
   SDS	0.1% (m/v)

   For cell lysis, add protease and phosphatase inhibitors (final concentration 1×) immediately before use.

3. Buffer A

   Reagent	Concentration
   Guanidine	6 M
   Na2HPO4/NaH2PO4	0.1 M
   Imidazole	10 mM

   Adjust the pH to 8.0, by preparing 1 L of 0.1 M Na₂HPO₄/NaH₂PO₄ buffer (mix 93.2 mL of 1 M Na₂HPO₄ and 6.8 mL of 1 M NaH₂PO₄).

   For cell lysis before the ubiquitination assay, add deubiquitinase inhibitor NEM (10 mM), and protease and phosphatase inhibitors (final concentration 1×) immediately before use.

4. Buffer TI

   Reagent	Concentration
   Tris	25 mM
   Imidazole	20 mM

   Adjust the pH to 6.8.

5. Buffer B

   A mixture of Buffer A: Buffer TI with a volume ratio of 1:3.

6. 8% Tris/Bis SDS-PAGE Gel

   An 8% Tris/Bis SDS-PAGE gel contains the lower resolving gel (8%) and the upper stacking gel (5%).

7. 8% Resolving Gel

   Reagent	Volume (mL) per 10 mL resolving gel
   H2O	4.6
   30% Acrylamide/Bis solution	29:1 2.7
   1.5 M Tris (pH 8.8)	2.5
   10% SDS	0.1
   10% APS	0.1
   TEMED	0.006

8. 5% Stacking Gel

   Reagent	Volume (mL) per 2 mL stacking gel
   H2O	1.4
   30% Acrylamide/Bis solution	29:1 0.33
   1.0 M Tris (pH 6.8)	0.25
   10% SDS	0.02
   10% APS	0.02
   TEMED	0.002

9. WB Running Buffer

   Reagent	Concentration
   Tris-HCl [pH 7.6]	25 mM
   Glycine	192 mM
   SDS	0.1% (m/v)

10. WB Transfer Buffer

    Reagent	Concentration
    Tris-HCl [pH 7.6]	25 mM
    Glycine	192 mM
    Methanol	10% (v/v)

11. WB Blocking Buffer (5% BSA in TBST Buffer)

    Reagent	Concentration
    Tris	19 mM
    NaCl	137 mM
    KCl	2.7 mM
    Tween-20	0.1% (v/v)
    BSA	5% (m/v)

12. WB Washing Buffer (TBST Buffer)

    Reagent	Concentration
    Tris	19 mM
    NaCl	137 mM
    KCl	2.7 mM
    Tween-20	0.1% (v/v)

Acknowledgments

Funding: This research was supported by grants from the Hong Kong Research Grants Council (ECS_27115317), (GRF_17122119), and (GRF_17118120) to B.G., and grants from the National Natural Science Foundation (general program_31771561 and 32170711) to B.G. We appreciate our original research papers where this protocol was derived from: Feng et al. (2021), Gao et al. (2011), and Yang et al. (2017).

Competing interests

The authors declare that they have no competing interests.

References

1. Butler, M. T. and Wallingford, J. B. (2017). Planar cell polarity in development and disease. Nat Rev Mol Cell Biol 18(6): 375-388.
2. Choo, Y. S. and Zhang, Z. (2009). Detection of protein ubiquitination. J Vis Exp (30): 1293.
3. Chuykin, I., Itoh, K., Kim, K. and Sokol, S. Y. (2021). Frizzled3 inhibits Vangl2-Prickle3 association to establish planar cell polarity in the vertebrate neural plate. J Cell Sci 134(24): jcs258864.
4. Feng, D., Wang, J., Yang, W., Li, J., Lin, X., Zha, F., Wang, X., Ma, L., Choi, N. T., Mii, Y., et al. (2021). Regulation of Wnt/PCP signaling through p97/VCP-KBTBD7-mediated Vangl ubiquitination and endoplasmic reticulum-associated degradation. Sci Adv 7(20): eabg2099.
5. Gao, B., Song, H., Bishop, K., Elliot, G., Garrett, L., English, M. A., Andre, P., Robinson, J., Sood, R., Minami, Y., et al. (2011). Wnt signaling gradients establish planar cell polarity by inducing Vangl2 phosphorylation through Ror2. Dev Cell 20(2): 163-176.
6. Humphries, A. C. and Mlodzik, M. (2018). From instruction to output: Wnt/PCP signaling in development and cancer. Curr Opin Cell Biol 51: 110-116.
7. Kelly, L. K., Wu, J., Yanfeng, W. A. and Mlodzik, M. (2016). Frizzled-Induced Van Gogh Phosphorylation by CK1epsilon Promotes Asymmetric Localization of Core PCP Factors in Drosophila. Cell Rep 16(2): 344-356.
8. Ossipova, O., Kim, K. and Sokol, S. Y. (2015). Planar polarization of Vangl2 in the vertebrate neural plate is controlled by Wnt and Myosin II signaling. Biol Open 4(6): 722-730.
9. Radaszkiewicz, T., Noskova, M., Gomoryova, K., Vondalova Blanarova, O., Radaszkiewicz, K. A., Pickova, M., Vichova, R., Gybel, T., Kaiser, K., Demkova, L., et al. (2021). RNF43 inhibits WNT5A-driven signaling and suppresses melanoma invasion and resistance to the targeted therapy. Elife 10: e65759.
10. Strutt, H., Gamage, J. and Strutt, D. (2019). Reciprocal action of Casein Kinase Iepsilon on core planar polarity proteins regulates clustering and asymmetric localisation. Elife 8: e45107.
11. Wang, B., Jie, Z., Joo, D., Ordureau, A., Liu, P., Gan, W., Guo, J., Zhang, J., North, B. J., Dai, X., et al. (2017). TRAF2 and OTUD7B govern a ubiquitin-dependent switch that regulates mTORC2 signalling. Nature 545(7654): 365-369.
12. Wang, J., Feng, D. and Gao, B. (2021). An Overview of Potential Therapeutic Agents Targeting WNT/PCP Signaling. Handb Exp Pharmacol 269: 175-213.
13. Yang, W., Garrett, L., Feng, D., Elliott, G., Liu, X., Wang, N., Wong, Y. M., Choi, N. T., Yang, Y. and Gao, B. (2017). Wnt-induced Vangl2 phosphorylation is dose-dependently required for planar cell polarity in mammalian development. Cell Res 27(12): 1466-1484.
14. Yang, Y. and Mlodzik, M. (2015). Wnt-Frizzled/planar cell polarity signaling: cellular orientation by facing the wind (Wnt). Annu Rev Cell Dev Biol 31: 623-646.