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9 protocols using dotap transfection reagent

1

THP-1 Cell Transfection and Stimulation

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Control and siRNA for the indicated genes were from Dharmacon (OnTarget plus SMART pool siRNA). THP-1 cells were transfected with siRNA (100 nM) for 48 h using DOTAP transfection reagent (Roche) according to the manufacturer’s instructions, followed by overnight PMA stimulation.
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2

DNase I Transfection Modulates Immune Response

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CD14+ PBMCs were transfected with 1.5 mg of DNase I (Roche) or Heat Inactivated DNase I (75°C for 10 min/U) using DOTAP transfection reagent (Roche) according to manufacturer’s instructions. After incubation with DOTAP-DNase I or DOTAP-HI-DNase I for 3 hours (transfection mix was added in culture medium), cells were washed to remove excess of transfection reagent and enzyme, stimulated with IFNα and incubated for 18hrs or GMCSF 100ng/ml and IFNα 400ng/ml or IL4 20ng/ml and incubated for 3 days. HLA-DR and CD86 markers were analyzed by flow cytometry.
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3

Stable Cell Lines Expressing Mutant BRaf

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DNA transfections were performed using DOTAP transfection reagent (Roche, Basel, Switzerland) following manufacturer’s instructions. pEFmycB-Raf (V600E) plasmid was provided by Dr. Richard Morales (Sheridan et al., 2008). The plasmid was co-transfected with geneticin [G418] resistance plasmid PCIneo used for drug selection of stable clones. The PCIneo plasmid alone (4 μg) for vector control. Stable clones were selected by resistance to G418 (200 μg/ml) (Sigma, St. Louis, MO). Tet-R plasmid (4 ug) was co-transfected with pTinRNA mutated BRaf (V600E) plasmid (4 ug) or pTinRNA wild-type BRaf plasmid (4 ug) into melan-a BRaf clones. Stable clones with silencing mutated BRaf (V600E) were selected by resistance to G418 (200 ug/ml) and hygromycin (0.25 ug/ml), while stable clones with silencing wild-type BRaf were selected by resistance to G418 (200 ug/ml) and hygromycin (0.01 ug/ml).
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4

Immune Cell Isolation and Inflammasome Activation

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For sorting of immune cells from the spleen, single-cell suspensions were stained with an appropriate antibody mix and B220+, F4/80+, and CD3+ cells sorted using a BD Aria III cell sorter. BMDCs were derived from the bone marrow and peritoneal macrophages were isolated as previously described (Spalinger et al., 2016 (link)). Further details are given in Supplemental Experimental Procedures. THP-1 and HT-29 cells were obtained from DSMZ and cultured as previously described (Spalinger et al., 2016 (link)).
For inflammasome activation, THP-1 cells were differentiated into macrophages by treatment with 50 nM PMA (phorbol 12-myristate 13-acetate; Sigma-Aldrich) for 3 hr. All cells were primed for 12 hr with ultra-pure lipopoly-saccharide (upLPS; Invivogen) prior to inflammasome activation, unless otherwise stated. Mono-sodium urate (MSU), ATP, flagellin, and MDP were obtained from Invivogen. MDP was transfected into the cells using FuGene transfection reagent (Promega). flagellin and dsDNA were transfected using DOTAP transfection reagent (Roche).
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5

Investigating NLRP3 and NLRC4 Inflammasome Activation

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Antibodies recognized NLRP3 (Cryo-2; Adipogene), FLAG (M2; Sigma-Aldrich), ASC (8E4.1; Genentech), caspase-1 (sc-514; Santa Cruz Biotechnology, Inc.), IL-1β (GTX74034; GeneTex), phospho-NLRC4 S533 (GEN-82 clone 3–3; Genentech), and NLRC4 (hamster monoclonal 1D4 for immunoprecipitation and a rabbit polyclonal for blotting; Genentech). Other reagents included Z-VAD-FMK (MBL), S. typhimurium flagellin (InvivoGen), LPS from Escherichia Coli O111:B4 (Invivogen), Pam3CSK4 (Invivogen), and DOTAP transfection reagent (Roche). LDH release was measured with a Cytotoxicity Detection kitplus (Roche). Secreted IL-1β and TNF were measured with Meso Scale Discovery mouse kits.
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6

VSMC Transfection and PDGF-BB Stimulation

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VSMCs were plated in 6-well plates at 3x105 cells each well and cultured in 2 mL DMEM containing 10% FBS at 37°C in a 5% CO2 incubator for 24 h to reach 50–80% confluence. The cells were transfected with pXp27 plasmid using 1,2-Di-(9Z-octadecenoyl)-3-trimethylammonium propane methylsulfate (DOTAP) transfection reagent (Roche Applied Science, Indianapolis, IN). For a negative control, the cells were transfected with 5-µg pXp1 reporter plasmid with or without promoter activity; for a positive control, the cells were transfected with plasmid pGL2 containing CAT (Promega); and as an internal control, the cells were transfected with plasmid pSVAP2 with alkaline phosphatase (ALP) expression (SINO-AMERICAN BIOTECHNOLOGY COMPANY, Luoyang, Henan, China). Six hours after transfection, pXp27-transfected cells were fed 1 mL of 10% FBS culture medium, 1 mL of medium with 10 ng/mL PDGF-BB (R&D), or 1 mL of medium with 10 ng/mL PDGF-BB+10 nM RAD001 (Novartis Pharma AG, Basel, Switzerland) and cultured for an additional 24 h.
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7

Isolation and Characterization of Human and Mouse Macrophages

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Human PBMCs were isolated by Ficoll-gradient centrifugation, washed, and counted. PBMCs were incubated with anti-human CD14 MicroBeads (Miltenyi Biotec), and monocytes were separated on a LS magnetic column on a QuadroMACS separator (Miltenyi Biotec). Cells were differentiated with human GM-CSF (50 ng/ml, Sino Biological) in RPMI 1640 medium with L-glutamine (300 mg/L, ThermoFisher), supplemented with 10% heat-inactivated fetal bovine serum (FBS, ThermoFisher) and 1% penicillin/streptomycin (Gibco) for 7 days followed by 24 h of native HDL (1 mg/ml) treatments in FBS-free media. Bone marrow cells were isolated from WT C57BL/6 mouse femurs and differentiated to BMDMs using murine GM-CSF (50 ng/ml, Tonbo Biosciences) in Dulbecco's modified Eagle's medium (ThermoFisher) supplemented with sodium pyruvate (110 mg/L), L-glutamine (584 mg/L), 10% heat-inactivated FBS (ThermoFisher), and 1% penicillin/streptomycin (Gibco) for 7 days. BMDMs were transiently transfected with tDR-GlyGCC-30-AF647 (1 μg/ml) complexed to DOTAP transfection reagent (Roche) for 24 h in serum-free media followed by native HDL (1 mg/ml) treatments in FBS-free media for 24 h.
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8

Transfection and Infection Assay for Recombinant Bacmids

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A transfection/infection assay [101] (link) was performed to examine the ability of the recombinant bacmids to infect Sf9 cells. Bacmid DNA was extracted from E. coli cells in strict accordance with the Bac-to-Bac manufacturer's instructions (Invitrogen Life Technology). The transfection of bacmid DNA into insect cells was performed using the DOTAP transfection reagent (Roche Applied Science). Briefly, 5 µl of bacmid DNA solution and 8 µl of DOTAP were mixed with 35 µl and 72 µl of HBS buffer, respectively, and gently shaken. The two solutions were then combined, mixed by pipetting, and incubated for 30 min at room temperature. The DNA-DOTAP complex was diluted with 360 µl of TC100 serum-free medium and layered onto a monolayer of Sf9 cells at approximately 50-60% confluence in 35-mm Petri dishes. After 5 h of incubation, the DNA-DOTAP-containing supernatant was replaced with fresh medium, and the incubation was continued. The transfected monolayers were inspected with a fluorescence microscope at 48 and 96 h p.t. to determine the percentage of cells emitting fluorescence. At 96 h p.t., the cells were harvested for DNA extraction, and the supernatants were harvested and used for the inoculation of fresh monolayers. The inoculated monolayers were examined with a fluorescence microscope at 96 h p.i., and the cells were harvested for DNA extraction.
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9

Exosomal miR-186-5p Delivery and Lentiviral Transduction

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The miR-186–5p mimic (MC11753) and inhibitor (MH11753), and corresponding negative controls (Life Technologies) were packaged into artificial exosomes using DOTAP transfection reagent (Roche) according to the manufacturer’s protocol. Lentiviral pseudotyped particles were produced by Lipofectamine 2000 (Life Technologies) mediated transfection of 293TN cells (System Biosciences) with the lentiviral vector, the psPAX2 packaging construct (gift from Dr Didier Trono, addgene plasmid #12260), and a plasmid carrying the G-glycoprotein of vesicular stomatitis virus (VSV-G). Viral supernatant was collected 36h post transfection and filtered through a 0.45μm membrane. Cells were incubated for 6h with the viral supernatant and 8 μg/ml of Hexadimethrine bromide (Sigma-Aldrich) and FACS-sorted 48h post transduction.
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