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12 protocols using α myc

1

Rac1 and RalBP1 Antibody Sourcing

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Monoclonal anti-Rac1 antibody (23A8) was obtained from Millipore. α–human RalBP1 (RLIP76), α–R-Ras, α-Arf6, α-GFP, α-FLAG, α-myc and α-ARNO antibodies were from Santa Cruz Biotechnology, Inc. Anti-HA antibody was from Covance. Restriction endonucleases were from New England Biolabs.
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2

Antibody Immunoblotting Protocol

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Anti-V5, 1:2000, AbD Serotec (MCA1360GA); α-HA, 1:1000, Santa Cruz Biotechnology (F-7: sc-7392); α-FLAG, 1:1000, SIGMA (monoclonal anti-FLAG M2); α-myc, 1:1000, Santa Cruz Biotechnology (9E10, sc-40); α-GFP, 1:1000, Santa Cruz Biotechnology (B-2: sc-9996); α-Pgk1, 1:10000, Santa Cruz Biotechnology (F-7: sc-7392); α-PAP, HRP-conjugated, 1:2000 Sigma (1291); Secondary α-mouse Polyclonal Goat IgG, 1:5000, R&D SYSTEMS (FAH007).
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3

Antibody-Based Amyloid-Beta Assays

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The following antibodies were used: α-Myc (9E10 Santa Cruz #sc-40), α-Flag (M2 Sigma #F3165), α-Nct (Cell Signaling 3632S), α-GAPDH (Cell Signaling Technology, ab125247), α-APP (C7), α-AICD 50–99 (Rb) was a kind gift from Philip Szekeres at Eli Lilly, α-Ms 800nm (Licor Bio 926–32212) and α-Rb 680nm (Licor Bio 926–68021). Tripeptides were synthesized by Anaspec corp. Total brain lipid extract was from Avanti Polar Lipids (#131101). The following Aβ ELISA kits were used: 4G8 (Meso Scale Diagnostics, K15199E) or 6E10 (Meso Scale Diagnostics, K15200E) for cell-based assays; Aβ40 (#KHB3482) and Aβ42 (#KHB2442) ELISA kits from Invitrogen for in vitro assays.
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4

Chromosome Spreads and Immunostaining of Meiotic Proteins in Arabidopsis Pollen Mother Cells

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Chromosome spreads of A. thaliana pollen mother cells and immunostaining of ASY1 and SPO11-1-Myc were performed using fresh buds, as described (Armstrong et al. 2002 (link)). The following antibodies were used: α-ASY1 (rabbit, 1/500 dilution) (Armstrong et al. 2002 (link)) and α-Myc (mouse, 1/50 dilution) (9E10, Santa Cruz Biotechnology). Microscopy was conducted using a DeltaVision Personal DV microscope (Applied Precision/GE Healthcare) equipped with a CDD CoolSNAP HQ2 camera (Photometrics). Image capture and analysis were performed using softWoRx software version 5.5 (Applied precision/GE Healthcare).
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5

Immunoblotting and Immunofluorescence Techniques

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For immunoblotting, protein samples were separated on 12% SDS-PAGE and transferred to nitrocellulose membrane (Whatman, NJ). Membranes were incubated with 7% skim milk (in PBST 1X), followed by antibody hybridization. α-Tubulin, α-Myc, α-GFP, α-HA and goat α-RIG-I antibodies were purchased from Santa Cruz Biotech. α-Mitofilin was purchased from NOVUS. α-Flag and α-V5 were purchased from Sigma and Invitrogen respectively. α-IRF3, α-RIG-I and α-FAT10 were purchased from Enzo Life Science, α-phospho IRF3 (Ser369), α-G3BP-1 was purchased from Cell Signaling. α-NP antibody was purchased from Abcam. Immunoreactive signals were detected by enhanced chemiluminescence in horseradish peroxidase (Pierce Biotechnology, MA). For immunofluorescence experiments: Alexa 488-, 568-, 647- conjugated anti-mouse, anti-rabbit, anti-goat IgG antibody purchased from Invitrogen were used as secondary antibodies.
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6

ChIP-qPCR Analysis of Transcription Factors

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Chromatin immunoprecipitation (ChIP) assays were performed according to Blythe et al. (Blythe et al., 2009 (link)). Briefly, stage 10 embryos were fixed with 1% formaldehyde in PBS for 60 minutes at room temperature. After fixation, embryos were homogenized in 600 μl RIPA buffer (50 mM Tris-HCl [pH 7.4], 1 % NP-40, 0.25 % Na-Deoxycholate, 150 mM NaCl, 1 mM EDTA, 0.1 % SDS, 0.5 mM DTT, 5 mM Na-Butyrate, Protease Inhibitor Cocktail, Phosphatase Inhibitor Cocktail), and centrifuged. The pellet was re-homogenized in 650 μl RIPA buffer and crosslinked chromatin is sheared to <1,000-bp fragments by sonication. Sonicated samples were immunoprecipitated by 1 μg α-myc, α-HA, α-HDAC1 (Santa Cruz Biotechnology, Inc) or α-flag (Sigma) antibody with 50 μl Protein G-PLUS agarose beads (Santa Cruz biotechnology, Inc). After immunoprecipitation, eluted DNA was purified by Phenol/Chloroform extraction and analyzed by using PCR with specific primer pair (FoxH1-BS, PCR cycle 40: Forward 5′-AGGATCTAGGGATCTCATTAGCAC-3′, Reverse 5′-AATCTGCTGTGACTGAAAGAAACTT-3′).
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7

Synthetic Lipids and Antibodies for Biomolecular Assays

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The following synthetic lipids were purchased from Avanti Polar Lipids: 1-palmitoyl-2-oleoyl-sn-glycerol-3-phosphocholine (POPC), 1-palmitoyl-2-oleoyl-sn-glycerol-3-phosphoethanolamine (POPE), 1-palmitoyl-2-oleoyl-sn-glycerol-3-phosphoserine (POPS), 1-palmitoyl-2-oleoyl-sn-glycerol-3-phosphoinositol (POPI), cholesterol, and the detergent n-Dodecyl-N,N-Dimethylamine-N-Oxide (LDAO) was from Anatrace. The following antibodies were used in this study: αHA (Santa Cruz, sc-7392, 1:200 dilution,), αMyc (Santa Cruz, sc-789 and sc-40, 1:1,000 dilution), αUb (mono- and poly-ubiquitinylated proteins, Enzo, BML-PW8810, 1:500 dilution), αPgk1 (Invitrogen, 459250, 1:1,000 dilution), and αGFP (Roche, 11814460001, 1:1000 dilution).
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8

Synthetic Lipids and Antibody Analysis

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Synthetic lipids 1-palmitoyl-2-oleoyl-sn-glycerol-3-phosphocholine (POPC), 1-palmitoyl-2-oleoyl-sn-glycerol-3-phosphoethanolamine (POPE), 1-palmitoyl-2-oleoyl-sn-glycerol-3-phosphoserine (POPS), 1-palmitoyl-2-oleoyl-sn-glycerol-3-phosphoinositol (POPI), cholesterol, 1,2-dioleoyl-sn-glycero-3-phospho-1′-myo-inositol-3′-phosphate (PI(3)-phosphate) as well as yeast polar lipid (YPL) extracts were purchased from Avanti Polar Lipids. The detergent n-Dodecyl-N,N-Dimethylamine-N-Oxide (LDAO) was from Anatrace.
The following antibodies were used in this study: αPep12p (Invitrogen, Catalog No: 710037, 1:1,000 dilution), αPgk1p (Invitrogen, Catalog No: 459250, 1:10,000 dilution), αHA (Santa Cruz, sc-7392, 1:200 dilution,), and αMyc (Santa Cruz, sc-789 and sc-40, 1:1,000 dilution), and αGFP antibodies (Roche, Catalog No: 11814460001).
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9

Antibody Characterization and Purification

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Antibodies against (α-) Piccolo (rabbit), Bassoon (mouse), and MAP2 (rabbit and mouse) were used as previously described [41 (link)]. α-Tubulin (mouse) antibodies were from Sigma, and α-PSD-95 (mouse) was from Affinity BioReagents. The following antibodies were purchased from Santa Cruz: α-Synaptophysin (rabbit), α-Trio (C-terminal antibody; goat), and α-Myc (rabbit). The mouse Trio α-GEF2 antibody was from Abnova. Mouse α-Synaptotagmin was purchased from BD Biosciences. The rabbit α-GFP antibody was from Invitrogen. The α-ELKS2 antibody was generated in rabbits using a commercial vendor (Washington Biotechnology). The epitope was E. coli purified GST-tagged amino acids 107–138 of ELKS2 [same region as used by [16 (link)]]. The serum was passed over a column of GST coupled to Actigel ALD using manufacturer’s protocol (Sterogene Bioseparations) to remove antibodies directed against GST. Antibody was then affinity purified with the antigen coupled to Actigel ALD.
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10

Inducible Protein Expression in E. coli

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Escherichia coli MG1655 cells carrying arabinose‐inducible expression plasmids pBAD or pPER5 were grown overnight at 28°C in 3 ml of LB supplemented with appropriate antibiotics and 0.4% (wt./vol.) glucose. Cultures were normalized to OD600 = 0.1 and grown for 2 h at 28°C. Cells were then washed with LB to remove residual glucose, and 0.1% (wt./vol.) l‐arabinose was added to the media to induce protein expression. Cultures were grown for 2 or 4 h at 28°C as necessary, and 0.25 OD600 units of cells were pelleted and resuspended in 40 μl (2×) Tris‐Glycine sodium dodecyl sulfate (SDS) sample buffer (Novex, Life Sciences) supplemented with 0.05% (wt./vol.) β‐mercaptoethanol. Samples were boiled and cell lysates were fractionated by SDS‐PAGE, transferred onto PDVF membranes, and immunoblotted with α‐Myc (Santa Cruz Biotechnology, 9E10, mouse mAb) antibodies, used at 1:1000 dilution.
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