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7 protocols using sds loading buffer

1

Whole-Cell Protein Extraction and Analysis

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Whole-cell extracts were prepared after invasion by PRU tachyzoites or stimulation by its associated PAMPs. Supernatants were precipitated with methanol/chloroform, boiled for 10 min with SDS loading buffer (Cell Signaling Technology), and resolved on SDS-PAGE gels. Proteins were transferred to polyvinylidene difluoride (PVDF) membranes (Millipore) and incubated with the appropriate antibodies. Immobilon Western Chemiluminescent HRP Substrate (Millipore) was used for protein detection. The antibodies used are shown in Table S2.
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2

Immunoprecipitation and Mass Spectrometry Analysis

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Cell pellets from T-REx Mock and T-REx AspALP cells were lysed in Cell Lysis Buffer M (FUJIFILM Wako Pure Chemical Corporation) supplemented with Protease Inhibitor Cocktail Set V (EDTA free) (FUJIFILM Wako Pure Chemical Corporation) at 1 × 107 cells/mL. Dynabeads protein A (Thermo Fisher Scientific) was mixed with anti-CaM antibodies (Abcam) and formed the magnetic bead-antibody complex. The complex was mixed with 200 μL of cell lysates in the presence or absence of 10 mM EGTA with gentle rotation. The magnetic bead-antibody-antigen complex was washed 3 times. Regarding Western blotting, the complex was supplemented with 30 μL of SDS loading buffer (Cell Signaling Technologies) and denatured at 95 °C for 5 min. In the MS analysis, the complex was lysed in 100 μL of 8 M urea.
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3

Cell Signaling Pathway Analysis via IP and WB

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Total cell lysates were prepared after transfection or stimulation for the experiments. For IP experiments, cell extracts were incubated with indicated antibodies together with Protein A/G beads (Pierce, Rockford, IL, USA) overnight. Beads were washed four times with lysis buffer, and immunoprecipitates were eluted with SDS loading buffer (Cell Signaling Technology, Danvers, MA, USA) and resolved in SDS-PAGE gels. Antibodies used were rabbit polyclonal antibodies against p65, p-p65, IkBα, p-IkBα, ERK, p-ERK, p38, p-p38, JNK, and p-JNK (from Cell Signaling) and mouse monoclonal antibodies against Myc (9E10), HA (Santa Cruz, Dallas, Texas, USA), Flag (M2, Sigma). Anti-GdX antibodies were generated in this lab, and the specificity was examined 23 (link). WB and IP experiments were performed according to previous protocols 44 (link).
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4

Protein Immunoblotting with SDS-PAGE

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For immunoblotting analysis, whole-cell extracts were lysed with low-salt lysis buffer, and supernatants were precipitated with methanol/chloroform, boiled for 5 min with SDS loading buffer (Cell Signaling Technology, Danvers, MA, USA) and resolved on SDS-PAGE gels. The proteins were transferred to PVDF membranes (BioRad) and further incubated with the indicated antibodies. LumiGlo Chemiluminescent Substrate System from KPL (Gaithersburg, MD) was used for protein detection. Images were cropped for presentation and the full size images are presented in Supplementary Fig. 8.
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5

Immunoprecipitation and Western Blot Protocol

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Cells were lysed by low-salt lysis buffer. For endogenous IP, whole-cell lysates were treated with indicated antibodies overnight and then incubated with protein A and G beads (Pierce) for 4 to 6 hours. For exogenous IP, whole-cell lysates were only incubated with anti-FLAG or anti-MYC (EQKLISEEDL) agarose gels. Immunoprecipitates were eluted with 2× SDS loading buffer after washing five times with low-salt lysis buffer. Cells were lysed by low-salt lysis buffer, boiled for 5 min with SDS loading buffer (Cell Signaling Technology), and resolved on SDS–polyacrylamide gel electrophoresis gels. Proteins were transferred to a polyvinylidene difluoride membrane (MilliporeSigma). The membranes were blocked with 5% (w/v) reagent-grade nonfat milk and further incubated with the antibodies as listed in the “Antibodies” section. EMD Millipore Luminata Western HRP Chemiluminescence Substrate was used for protein detection for all blots.
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6

Inflammasome Activation and Cytokine Profiling

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THP-1-derived macrophages or BMDMs were seeded in 6-well plates and treated as indicated. The cell pellets were collected into 1.5 ml Eppendorf tubes and lysed in TBS buffer (50 mM Tris-HCl (GCRF, China), 150 mM NaCl (GCRF, China), 0.5% Triton X-100 (Sigma-Aldrich), PH 7.4) with phosphatase inhibitor (Roche) and EDTA-free protease inhibitor (Bimake) on a rocker for 30 min on ice, and then centrifuged at 6000 × g/4 °C for 15 min to discard the supernatants. The cell supernatants were harvested for precipitation and detected the activation of caspase-1 (p10) and the maturation of IL-1β (p17) by western blotting. The pellets were washed twice with TBS buffer and resuspend in TBS buffer containing 2 mM fresh disuccinimidyl suberate (DSS, Thermo Fisher Scientific) cross-linker at 37 °C for 30 min to crosslink with flipping the tubes every 10 min, and then spun at 6000 × g/4 °C for 15 min. The crosslinked pellets were resuspended in 25 μl 2× SDS loading buffer (Cell Signaling Technology) and boiled at 100 °C for 5 min, and analyzed by immunoblotting of anti-ASC antibody, anti-BAX antibody or anti-BAK antibody.
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7

Immunoprecipitation and Western Blotting

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For immunoprecipitation, whole-cell extracts were acquired after transfection or stimulation with appropriate ligands, followed by incubation with anti-myc beads or the appropriate antibodies plus Protein A/G (Pierce). Beads were then washed five times with low-salt lysis buffer, and immunoprecipitates were eluted with 2× SDS Loading Buffer (Cell Signaling Technology) and resolved by SDS–polyacrylamide gels, and then transferred to NC membranes. Primary antibodies against indicate genes and anti-myc beads were used according to manufacturer’s instructions. Peroxidase conjugated secondary antibody (CST) was used, and the antigen-antibody reaction was visualized by enhanced chemiluminescence assay (ECL, Thermo). The antibodies used are listed in Supplementary Table 9.
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