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8 protocols using calyculin a

1

Cytoskeleton Disruption Assay

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Cells were left for 16 h to attach on micro-patterned lines. Then, the drugs at the following concentrations and incubation time were added: Cytochalasin D (Sigma-Aldrich, Cat. C2618): 500 nM for 30 min., Nocodazole (Sigma-Aldrich, Cat. M1404): 1 μg/ml for 30 min., Blebbistatin (Merk, Cat. B0560): 25 μM for 15 min., Calyculin A (Abcam, Cat. ab141784): 50 nM for 15 min. Afterward, the cells were fixed with 4%PFA/PBS and immunofluorescence was performed.
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2

Signaling Pathway Modulation Assay

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[γ-32P]ATP was purchased from PerkinElmer. HG-10-102-01, MLi-2, GSK2578215A, LRRK2-IN1, MRT67307, GDC0941, AG1478, BID1870, H-89, PD0325901, UO1216, Rapamycin and Phos-tag acrylamide were all synthesized by Natalia Shpiro (University of Dundee). Phos-tag acrylamide stocks are stored in aliquots at −80°C and working stocks are stored for a few weeks at 5 mM aqueous solution at 4°C in opaque tubes given the photo-sensitive nature of this reagent. iN04 was purchased from ChemBridge Corporation (#7989904). Full-length recombinant human LRRK2[G2019S] was purchased from Invitrogen (#A15202). GZD-824 was purchased from Cayman Chemical (#21508) and calyculin A (#ab141784) was purchased from Abcam, Inc. Phorbol 12-myristate 13-acetate (PMA) (#P8139), interleukin-1A (#I2778), oligomycin (#75351), antimycin A (#A8674), AICAR (#A9978) and forskolin (#F6886) were all purchased from Sigma–Aldrich. Human EGF (#8916), and human IGF-1 (#3093) were purchased from cell signaling technology (CST). PKC-specific inhibitor GO6983 was purchased from Selleckchem (#S2911). ON-TARGETplus SMARTpool human LRRK1 (#L-005320-00-0005), human LRRK2 (#L-049666-00-0005) and non-targeting control pool (#D-001810-10-20) siRNA were purchased from Horizon Discovery.
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3

Pharmacological Modulation of Neuronal Function

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Picrotoxin (Sigma #P1675), bicuculline (Sigma #505875), tetrodotoxin (Cayman #14964), BI2536 (Selleckchem #S1109), Calyculin A (Abcam #ab141784), DL-AP5 (Tocris #0105), CNQX (Tocris #0190), FK506 (Tocris #3631), digitonin (Sigma #D141), nimodipine (Sigma #482200), conotoxin (Sigma #343781-M), agatoxin (Abcam #ab120210). All combined treatment paradigms throughout the manuscript were carried out in the presence of PTX (unless otherwise stated). As controls, pharmacological inhibitor treatments were also carried out in the absence of PTX in the same experiment.
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4

Fibroblast Signaling Pathway Analysis

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The primary fibroblasts were treated with TGFβ, FGF, PDGF (7666-MB, 3139-FB, 1447-PC, R&D Systems), or PP1 inhibitor Calyculin A (141784, Abcam) for 15 or 30 min, respectively. After 2 times of PBS washing, the total protein was extracted by lysate with protease inhibitor and phosphatase inhibitor. The total protein concentration was detected by BCA kit, and the protein was separated by 10% SDS-PAGE and then transferred to PVDF membrane. The 5% skimmed milk was used to block the protein at room temperature for 2 h, and then the primary antibodies were added and reacted at 4 °C overnight. On the second day, the corresponding second antibody was added and sealed at room temperature for 1 h, followed by the final step of ECL addition for exposure. The antibodies contain anti-p-Smad2/3 antibody (8828, Cell Signaling Technology, 1:1 K), anti-p-P38 antibody (9211, Cell Signaling Technology, 1:1 K), anti-p-ERK1/2 antibody (4370, Cell Signaling Technology, 1:2 K), anti-p-AKT antibody (4060, Cell Signaling Technology, 1:2 K), p-JNK antibody (4668, Cell Signaling Technology, 1:1 K), anti-GAPDH antibody (30201ES, Yeasen, China, 1:1 W), anti-rabbit IgG secondary antibody (305-035-003, Jackson ImmunoResearch, 1:1 W) and anti-mouse IgG secondary antibody (115-035-003, Jackson ImmunoResearch, 1:5 K).
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5

Jasplakinolide Treatments for Cytoskeleton Dynamics

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For in vivo jasplakinolide treatments, wild-type embryos were collected on E15.5 and incubated with 3μM jasplakinolide (Sigma-Aldrich), 30 nM Calyculin A (Cell Signaling Technology), or DMSO in serum-free DMEM (Biological Industries) at 37°C for 2 h before embedding in OCT or processed for whole-mount preparation and immunofluorescence microscopy as described above. For in vitro treatments, keratinocytes were infected with shScr;puromycin or shAnln;puromycin, selected with 3 μg/ml puromycin (Sigma) and plated on fibronectin-coated coverslips (40,000 cells in a single well of a 24-well plate). Twenty-four hours later, the medium was switched to high calcium (1.5mM Ca2+) and cells were treated with 100nM jasplakinolide (Sigma-Aldrich) or 2nM Calyculin A for 5 min, and then with 8μM nocodazole for 6 h. Cells were then fixed and labeled with Phalloidin-iFluor 647 (Abcam, ab176759) and pERM (Cell Signaling Technology, 1:200) overnight at 4°C. After washing, sections were incubated with a secondary antibody (1: 500 dilution) at room temperature for 1 h. Data was collected using a Nikon C2+ 60×/1.4 objective that generates optical sections of 0.49 μm at the middle of the cell.
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6

Inhibitors for Cellular Signaling Assays

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Doxycycline (Sigma-Aldrich) was used at 2 µg/ml. The following doses of inhibitors were used: 4 µM DCB (Sigma-Aldrich), 10 µM p38 inhibitor (SB203580; New England Biolabs), 50 µM blebbistatin (Sigma-Aldrich), 5 µM R0-3306 (CDK1i; Sigma-Aldrich), 1 µM calyculin A (Abcam), 15 µM DDR1-IN-1 (Tocris), 10 µM Y-27632 (ROCKi; Tocris), 10 µM MG132 (Tocris), and 5 nM nocodazole (Sigma-Aldrich).
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7

Protein Phosphatase Inhibitor Effects

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Protein phosphatase inhibitors calyculin A (Abcam), okadaic acid (Enzo) and rubratoxin A (Abcam) were dissolved in DMSO. In all infectivity experiments, cells were treated with the desired drug concentration 6 h before infection (or DMSO as a negative control), and medium was changed 24 h after treatment.
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8

Cell signaling regulatory protocol

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LiCl, adenosine 5′-triphosphate (ATP) disodium salt hydrate, Akt inhibitor VIII, 8-bromoadenosine 3′,5′-cyclic monophosphate (8-br-cAMP), PKA inhibitor H89, and 6-bromo-indirubin-3′-oxime (BIO) were purchased from Sigma-Aldrich Korea. Tetramethyl-6-carboxyrhodamine (TAMRA)-labeled peptides (T-Pep, TAMRA-KEEPPSPPQSPR; T-Pep(p), TAMRA-KEEPPSPPQp-SPR) were synthesized by Peptron, Inc. ECL Prime Western Blotting Detection Reagent was obtained from Amersham Bioscience (RPN2232). Xpert protease and phosphatase inhibitor cocktail were purchased from GenDEPOT. Calyculin A was purchased from Abcam (ab141784).
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