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10 protocols using irdye 680 rd donkey anti mouse igg h l

1

Quantifying Brain CB1 Receptor Expression

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Blood samples were centrifuged, and plasma was separated and stored at −80°C until analyzed for BEC using gas chromatography as previously described (Lumeng et al., 1982 (link)). Whole-brain CB1R expression was determined via western blot as previously described (Kasten et al., 2017 (link)). Briefly, whole brain samples were homogenized in 2 ml of RIPA buffer, protein concentration was determined using a Bio-Rad protein assay kit (Bio-Rad, Hercules, CA), and 20 μg of protein in 20 μl of 4× loading buffer was loaded. For CB1R, primary and secondary antibodies used were Anti-Cannabinoid Receptor 1, Rabbit polyclonal to Cannabinoid Receptor 1 (1:1000 dilution, Abcam, Cambridge, MA) and IRDye 800CW Goat anti-Rabbit IgG (H+L) (1:5000 dilution, LI-COR, Lincoln, NE), respectively. For β-actin, primary and secondary antibodies used were β-actin mouse monoclonal (1:1000 dilution, LI-COR) and IRDye 680RD Donkey anti-Mouse IgG (H+L) (1:5000 dilution, LI-COR), respectively. The image was scanned using Odyssey CLx (Image Studio Lite 5.2), and CB1R expression was normalized using β-actin as the reference.
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2

Protein Isolation and Western Blotting

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Protein isolation and western blotting were performed using standard procedures44 (link) with the following details. 6 larval bodies obtained at 6 dpf were pooled in each independent sample for protein isolation. 40 μg of protein from each of these pooled samples was loaded per well. For primary antibodies, MTCO1 (Abcam, ab14705, RRID:AB_2084810) and SDHB (Abcam, ab14714, RRID:AB_301432) were both used at a 1:1000 dilution. The secondary antibody IRDye 680RD donkey anti-mouse IgG (H + L) (LI-COR Biosciences, 925–32212, RRID: AB_2716622) was used at 1:5000 dilution.
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3

Western Blot Analysis of Synaptic Proteins

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Protein was transferred to Immobilion PVDF transfer membrane (Millipore) in transfer buffer (25 mM Tris, 192 mM glycine, 20% (v/v) methanol) for 1 hr at 100 V constant, 350 mA. The membrane was blocked for at least 1 h in 5% (wt/vol) non-fat dry milk in Tris-buffered saline (25 mM Tris, 150 mM NaCl, 2 mM KCl, pH 8.0, 15 mM NaCl, 10 mM Tris, pH 8.0). Primary rabbit Complexin-1 (Proteintech, 10246–2–AP), mouse Nsf-1 (MA1–12435) and rabbit Syn3 (OSS00018W, 1:300) from Thermo Scientific, mouse Syt1 (Synaptic Systems, 105 011, mouse β-actin (Sigma Aldrich, A5316) were added 1:2,000 in blocking solution and incubated for 2–3 days on a shaker at 4 °C. The membrane was washed 3× for 30 min in Tris-buffered saline and incubated with secondary antibody (1:10,000, Li-Cor: IRDye 680 RD donkey anti-mouse IgG (H+L), #925-68072; IRDye 680RD donkey anti-rabbit IgG (H+L), #925-68073; IRDye 800CW donkey anti-mouse IgG (H+L), #925-32212; IRDye 800 CW donkey anti-rabbit IgG (H+L), #925-32213. Detection was performed using an Odyssey machine (Li-Cor). Image Studio 2.0 software was used for image analysis. The membrane was stripped with NewBlot PVDF 5x stripping buffer (Li-Cor) according to manufacturer’s protocol. We normalized and corrected for uneven loading using the intensity of the internal control band, beta-Actin.
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4

In-cell/On-cell Western Blot Protocol

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The in-cell/on-cell protocol was identical for cells and decellularised matrix. Samples were washed 1 × with PBS and then fixed overnight in Histochoice Tissue Fixative (VWRVH102, VWR, Radnor, PA, USA). For in-cell western blot, the cells were permeabilised using a 0.5 % triton X-100 for 15 min. For on-cell western blot, this step was conducted with 1 × PBS. Samples were then incubated in a LI-COR blocking buffer for 1 h at 37 °C. After blocking, cells were incubated overnight at 4 °C in a primary antibody mixed in LI-COR blocking buffer. Plates were immunolabelled using antibodies raised against either the NG2/CSPG4 intracellular domain (1:200, GGQPDPELLQFCRTPNPALRNGQYWV, UIC Protein Core, Chicago, IL, USA) or the NG2/CSPG4 ectodomain (1:200, AB5320, Sigma-Millipore). Samples were washed for 15 min in 0.5 % Triton X-100 at room temperature. All samples were fluorescently tagged with secondary antibodies (1:1000; IRDye 800CW Donkey anti-Rabbit IgG (H + L) or IRDye 680RD Donkey anti-Mouse IgG (H + L), LI-COR), washed 1 × in PBS, and imaged using LI-COR fluorescence quantitative western blot. Fluorescence values were collected from a region of interest containing only the cells. Raw fluorescence values were normalised to the untreated controls. All quantified data represents four biological replicates.
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5

Striatal CB1 receptor expression analysis

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On the day following the final day of behavioral testing, a subset of mice from Experiment 1 (n=23 HAP; 15 LAP3) were euthanized by cervical dislocation and brains were rapidly extracted. Bilateral punches of the dorsal striatum were extracted from a single 2mm coronal slice and rapidly frozen using liquid nitrogen. Western Blots were run to identify levels of CBi receptors following the method of Kasten et al. (2017) (link). Briefly, the tissue samples were homogenized in RIP A buffer with protease inhibitor (1ml of RIP A buffer containing lOOul of 10X PI and lOul of 0.1M PMSF) (Thermo Fisher). Sample load was calculated using a Bio-Rad Protein Assay kit. Primary antibody (Anti-Cannabinoid Receptor 1, Rabbit polyclonal to Cannabinoid Receptor 1, Abeam) was added to the PBS buffer (5% nonfat milk in 1x PBS with 0.1% Tween 20) and a secondary antibody was added at a 1:5000 dilution (IRDye 800 CW Goat anti-Rabbit IgG (H+L), LI-COR). The image was then scanned from membrane with a CLx Odyssey scanner. B-actin was used as the reference (primary β-actin mouse monoclonal antibody, secondary antibody IRDye 680RD Donkey anti-Mouse IgG (H+L), LI-COR).
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6

In-cell/On-cell Western Blot Protocol

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The in-cell/on-cell protocol was identical for cells and decellularised matrix. Samples were washed 1 × with PBS and then fixed overnight in Histochoice Tissue Fixative (VWRVH102, VWR, Radnor, PA, USA). For in-cell western blot, the cells were permeabilised using a 0.5 % triton X-100 for 15 min. For on-cell western blot, this step was conducted with 1 × PBS. Samples were then incubated in a LI-COR blocking buffer for 1 h at 37 °C. After blocking, cells were incubated overnight at 4 °C in a primary antibody mixed in LI-COR blocking buffer. Plates were immunolabelled using antibodies raised against either the NG2/CSPG4 intracellular domain (1:200, GGQPDPELLQFCRTPNPALRNGQYWV, UIC Protein Core, Chicago, IL, USA) or the NG2/CSPG4 ectodomain (1:200, AB5320, Sigma-Millipore). Samples were washed for 15 min in 0.5 % Triton X-100 at room temperature. All samples were fluorescently tagged with secondary antibodies (1:1000; IRDye 800CW Donkey anti-Rabbit IgG (H + L) or IRDye 680RD Donkey anti-Mouse IgG (H + L), LI-COR), washed 1 × in PBS, and imaged using LI-COR fluorescence quantitative western blot. Fluorescence values were collected from a region of interest containing only the cells. Raw fluorescence values were normalised to the untreated controls. All quantified data represents four biological replicates.
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7

Co-immunoprecipitation Protein Detection

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For co-IP experiments, we first probed the IP bait with HRP-linked secondary antibodies, as described above. Then, we probed for the co-IP using LI-COR secondary antibodies. After incubation with primary antibody, as described above, membranes were washed and incubated with secondary antibodies compatible with the LI-COR System (FLAG/GFP: Licor IRDye® 680RD Donkey anti-Mouse IgG (H+L), #926-68072; Actin: Licor IRDye® 800CW Donkey anti-Rabbit IgG (H+L), #926-32213; both 1:15,000 in Skim Milk solution) for 1 h at room temperature. After three additional washes with PBS-T, the membranes were imaged using an Odyssey CLx scanner and processed using Image Studio software (LI-COR, Version 3.1).
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8

Western Blot Analysis of Synaptic Proteins

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Protein was transferred to Immobilion PVDF transfer membrane (Millipore) in transfer buffer (25 mM Tris, 192 mM glycine, 20% (v/v) methanol) for 1 hr at 100 V constant, 350 mA. The membrane was blocked for at least 1 h in 5% (wt/vol) non-fat dry milk in Tris-buffered saline (25 mM Tris, 150 mM NaCl, 2 mM KCl, pH 8.0, 15 mM NaCl, 10 mM Tris, pH 8.0). Primary rabbit Complexin-1 (Proteintech, 10246–2–AP), mouse Nsf-1 (MA1–12435) and rabbit Syn3 (OSS00018W, 1:300) from Thermo Scientific, mouse Syt1 (Synaptic Systems, 105 011, mouse β-actin (Sigma Aldrich, A5316) were added 1:2,000 in blocking solution and incubated for 2–3 days on a shaker at 4 °C. The membrane was washed 3× for 30 min in Tris-buffered saline and incubated with secondary antibody (1:10,000, Li-Cor: IRDye 680 RD donkey anti-mouse IgG (H+L), #925-68072; IRDye 680RD donkey anti-rabbit IgG (H+L), #925-68073; IRDye 800CW donkey anti-mouse IgG (H+L), #925-32212; IRDye 800 CW donkey anti-rabbit IgG (H+L), #925-32213. Detection was performed using an Odyssey machine (Li-Cor). Image Studio 2.0 software was used for image analysis. The membrane was stripped with NewBlot PVDF 5x stripping buffer (Li-Cor) according to manufacturer’s protocol. We normalized and corrected for uneven loading using the intensity of the internal control band, beta-Actin.
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9

Western Blot Analysis of Influenza-Specific CD8+ T Cells

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Donor OT-I CD8+ T cells were sorted from the lungs of wild-type recipient mice 9 days post-influenza virus infection, washed two times with 1X phosphate-buffered saline (PBS) and cell pellets were stored at −20°C in RIPA buffer (150-mM sodium chloride, 1.0% NP-40, 0.5% sodium deoxycholate, 0.1% sodium dodecyl sulfate, 50 mM Tris, pH 8.0). Samples were freeze-thawed three times and then heated to 99°C on a heat block for 10 min. Samples were loaded into a 4–12% Mini-PROTEAN TGX Gel (Bio-Rad, Hercules, CA, USA), then transferred at 4°C to PVDF membrane (EMD Millipore, Darmstadt, Germany). Membranes were blocked at room temperature for 1 h in 5% BSA in Tris-buffered saline with tween (TBST), then incubated overnight at 4°C with primary antibodies in TBST as follows: Mouse IgG1 SHIP-1 (clone: P1C1) (Santa Cruz, Dallas, TX, USA); Rabbit Granzyme B (cell signaling, Danvers, MA, USA); and Mouse β-Actin (8H10D10) (cell signaling). Membranes were washed, then incubated with LI-COR IRDye 800CW Donkey Anti-Rabbit IgG (H + L) and LI-COR IRDye 680RD Donkey Anti-Mouse IgG (H + L) in 1% milk/TBST for 1 h at room temperature, and imaged using an Odyssey imaging system.
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10

Western Blot Antibodies for Tubulin, VASH1

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Detyrosinated tubulin; rabbit polyclonal (Abcam ab48389); western blot: 1: 1,000.
Alpha tubulin; mouse monoclonal, clone DM1A (Cell Signaling #3873); western blot: 1:1,000
TTL; rabbit polyclonal (Proteintech 13618–1-AP); western blot: 1:500.
GAPDH; mouse monoclonal (VWR GenScript A01622–40); western blot: 1:1,000.
IRDye 800CW Donkey anti-Mouse IgG (H + L) (LI-COR 925–32212); western blot: 1:10,000.
IRDye 680RD Donkey anti-Rabbit IgG (H + L) (LI-COR 925–68073); western blot: 1:10,000.
IRDye 680RD Donkey anti-Mouse IgG (H + L) (LI-COR 926–68072); western blot: 1:10,000.
IRDye 800CW Donkey anti-Rabbit IgG (H + L) (LI-COR 926–32213); western blot: 1:10,000.
VASH1; rabbit polyclonal (Abcam ab199732); western blot 1:5000–1:1000
A novel antibody for human and mouse VASH1 (named anti-VASH1 Gre) was produced in rabbits by using a peptide C-RIRGATDLPKIPIPSVPTFQPTTPV-NH2 (corresponding to exposed region of the protein, see Wang, Bosc and Choi et al.)16 (link) linked at the N-terminal to the keyhole limpet hemocyanin protein via the cysteine. Sera from rabbits were purified on the respective peptides. Validation of these antibodies was performed in HEK293T cells protein extracts (see Online Figure IIIA). HEK293T cultures and transfections, as well as SDS-PAGE and immunoblots, were performed as in Aillaud et al.11 (link)
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