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5 protocols using anti pi 4 5 p2

1

Antibody Validation for Ciliary Proteins

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The antibodies used in this study included anti-acetylated tubulin (Sigma-Aldrich, T7451 and Cell Signaling Technology, 5335); anti-ARL13B (Proteintech, 17711-1-AP); anti-gamma tubulin (Abcam, ab179503); anti-INPP5E (Proteintech, 17797-1-AP); anti-OSBPL2 (Proteintech, 14751-1-AP and Abclonal, A14199); anti-FLAG (Sigma-Aldrich, F1804); anti-HA (Cell Signaling Technology, 3724); anti-GAPDH (Cell Signaling Technology, 5174); anti–PI(4,5)P2 (Echelon, Z-P045); anti–PI4P (Echelon, Z-P004); anti-SMO (Santa Cruz, sc-166685); anti-Gli3 (Abcam, ab6050 and Proteintech, 19949-1-AP); anti-Gli1 (Proteintech, 66905-1-Ig); Donkey anti-Mouse IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 555 (Invitrogen, A31570); Donkey anti-Rabbit IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 546 (Invitrogen, A10040); Donkey anti-Mouse IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 (Invitrogen, A21202); Donkey F(ab′)2 Anti-Rabbit IgG H&L, Alexa Fluor 647 (Abcam, ab181347); IRDye 800CW Secondary Antibody (LI-COR, 925-32211); and IRDye 680LT Secondary Antibody (LI-COR, 925-68020). The regents used in this study included Smoothened Agonist (Sigma-Aldrich, 566661); Digitonin (MCE, HY-N4000); FLAG Immunoprecipitation Kit (Millipore, FLAGIPT1); DAPI (Sigma-Aldrich, F6057); and isopropyl β-D-thiogalactoside (IPTG, Sigma-Aldrich, I6758).
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2

Quantifying Intracellular PI-4,5-P2 Localization

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PI-4,5-P2 staining for internal membranes was done using the protocol described in (Hammond et al., 2009 (link)). In brief, cells were fixed in 2% pre-warmed PFA followed by permeabilization with 20 μM digitonin. Samples were blocked in 5% NGS in Buffer A with 50mM NH4Cl before being incubated in primary antibodies namely, anti- PI-4,5-P2 (1:100) (Echelon Biosciences; Z-P045–2), anti-TOM20 (1:100) (ABclonal Science; A6774) and anti-PMP70 (1:100) (Thermo Fisher Scientific; PA1650) as indicated. Samples were washed thrice before incubation with secondary antibodies, followed by post-fixation with 2% PFA in PBS. During the final washes DAPI was added to the wash buffer. The samples were imaged at 40x water on Zeiss LSM710 microscope. Colocalization was calculated in ImageJ using the Spot Localization plug-in plugin ComDet.
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3

Antibody Immunostaining for Lipid Signaling

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Purified mouse monoclonal anti-PI-3,4-P2, anti-PI-3,4,5-P3, anti-PI-4,5-P2, anti-PI-3-P and polyclonal anti-hVps34 (class III PI3K) antibodies were obtained from Echelon Biosciences, Inc. (Salt Lake City, UT). Polyclonal anti-transducin alpha (Tα) antibody was obtained from Santa Cruz Biotechnology (Santa Cruz, CA). DAPI stain used for nuclear staining and secondary antibodies were purchased from Invitrogen-Molecular Probes (Carlsbad, CA). Monoclonal anti-arrestin antibody was a kind gift from Dr. Paul Hargrave (University of Florida, Gainesville). All other reagents used for buffer preparations were of analytical grade and purchased from Sigma (St. Louis, MO).
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4

Immunofluorescence and Western Blot Antibodies

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The primary antibodies used in this study are as follows: anti-PI(4)P (Echelon Biosciences Inc., Salt Lake City, UT, USA, Z-P004, 10 μg/mL for immunofluorescence (IF), 2.5 μg for immunoprecipitation (IP)), anti-Son (Abcam, Cambridge, UK, ab121759, 1 μg/mL for IF), anti-C23 (Abcam, ab22758, 1 μg/mL for IF), anti-lamin B1 (Abcam, ab16048, 3 μg/mL for IF), anti-PI(4,5)P2 (Echelon Biosciences Inc., Z-A045, 2.5 μg/mL for IF), anti-RPA194 (Santa Cruz Biotechnology, Inc., Dallas, TX, USA, sc-28714, 1 μg/mL for IF), anti-mouse IgM isotype control (Abcam, ab91545, 2.5 μg for IP), anti-hnRNP U (Merck, Darmstadt, Germany, 05-1516, 1 μg/mL for Western blot (WB)), anti-NXF1 (Abcam, ab129160, 0.03 μg/mL for WB) and anti-NUMA1 (Abcam, ab109262, 0.1 μg/mL for WB).
The secondary antibodies used in this study are as follows: goat anti-Mouse IgM Alexa Fluor 555 (Invitrogen, Waltham, MA, USA, A21426, 5 μg/mL), goat anti-Mouse IgM Alexa Fluor 568 (Invitrogen, A21043, 5 μg/mL) and goat anti-Rabbit IgG Alexa Fluor 488 (Invitrogen, A11034, 5 μg/mL) for IF; and IRDye® 800 CW Donkey anti-Rabbit IgG (LI-COR Biosciences, Lincoln, NE, USA, 926-32213, 0.05 μg/mL) and IRDye® 800 CW Donkey anti-Mouse IgG (LI-COR Biosciences, 926-32212, 0.05 μg/mL) for WB.
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5

Immunocytochemical Localization of α-Synuclein

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Cell lines or primary neuronal cultures were fixed in cold 2% paraformaldehyde for 20 min, washed in PBS, and permeabilized with 0.5% saponin in blocking solution (1% BSA in PBS (w/v)) for 30 min at room temperature. Cells were incubated with anti-α-Syn antibodies, Syn211 (at 1:750 dilution, overnight at 4 °C); MJFR-1 (1:2000), LB509 (ab27766; 1:250), or anti-α-Syn ab21976 (1:330) from Abcam, Zotal, Tel Aviv, Israel. The immunoreactive pattern of these anti-α-Syn antibodies in SK-Mel2 cells is shown in Fig. S1 (P-AP2M1-T156 (D4F3; Cell Signaling Technology; 1:300). The following antibodies were from Echelon Biosciences (Salt Lake City, UT, USA): anti-PI(3,4)P2 (Z-P034b; 1:300) or anti-PI(4,5)P2 (Z-P045 1:200; Z-A045 1:800) for 2 h at room temperature. Cells were then washed (PBS; 10 min ×3) and incubated with a host-suitable secondary ab, washed again, and mounted in Vectashield mounting medium (Vector Laboratory, Burlingame, CA USA).
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