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7 protocols using af 400 na

1

Comprehensive Cytokine Quantification and Detection

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Western blotting was performed as previously described. Blocked PVDF membranes (Bio‐Rad) were incubated (16 hr, 4°C) with anti‐human IL‐1α (500‐P21A, PeproTech; 1:500), anti‐mouse IL‐1α (AF‐400NA, R&D; 1:500), anti‐human IL‐1β (AF‐201‐NA, R&D; 1:500) or anti‐mouse IL‐1β (500‐P51, PeproTech; 1:500). Binding was detected with: anti‐rabbit HRP (NA934V, GE) or anti‐goat HRP (805‐035‐180, Jackson ImmunoResearch) (both 1:2000), ECL reagents (GE) and apposition to X‐ray film (Fujifilm). Cytokines were measured using human or mouse IL‐1α, IL‐1β, IL‐6, IL‐8 and MCP‐1 bead immunoassays (Life Technologies), as per the manufacturer's instructions, and assayed with a flow cytometer (Accuri C6). The antibody binding to the region between the calpain and caspase‐5 cleavage site in IL‐1α was generated by immunizing rabbits with a KLH‐conjugated peptide, followed by affinity purification and biotinylation (Innovagen). This was then used as the detection reagent in a standard sandwich ELISA using a goat anti‐human IL‐1α antibody (R&D) as capture.
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2

Comprehensive Inflammasome Signaling Pathway Protocol

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Antibodies used targeted mouse IL-1β (AF-401-NA, R&D Systems), mouse gasdermin D (ab209845, Abcam), ASC (AL177, Adipogen), mouse IL-1α (AF-400-NA, R&D Systems), human calpain 1 (ab39170, Abcam), human calpain 2 (ab39165, Abcam), and β-actin-HRP (A3854, Sigma). Pharmacological agents used were punicalagin (Sigma), glycine (Sigma), NBC6 (synthesized in house (17 (link))), MCC950 (CP-456773, Sigma), Z-VAD-fluoromethyl ketone (Merck), calpain inhibitor III (Merck), nigericin (Sigma), adenosine triphosphate (Sigma), ionomycin (Sigma), monosodium urate crystals (InVivoGen), calcium pyrophosphate dihydrate crystals (InVivoGen), and IL-Ra (Kineret®, Amgen). All other materials were from Sigma-Aldrich unless specified.
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3

Protein Expression Analysis in Macrophages

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To evaluate protein expression in host cells, C57BL/6 bone marrow-derived macrophages were plated in medium supplemented with 200 µg/mL of thymidine. Cells were challenged with L. pneumophila at the desired MOI, subjected to centrifugation at 1000×g for 5 min and incubated at 37° for the noted time periods. Lysates were collected using 2× SDS Laemmli sample buffer (0.125 M Tric-Cl pH 6.8, 4% SDS, 20% glycerol, 10% beta-mercaptoethanol, 0.01% bromophenol blue). Proteins were electroblotted to PVDF membranes, blocked in milk and analyzed by immunoprobing.
For phospho-specific antibodies, blots were washed of all milk and incubated overnight with 1∶1000 phospho-p38 or phospho-JNK (Cell Signaling) in 5% BSA in phosphate buffered saline (PBS). Rabbit anti-DUSP1 (MKP1 V-15, Santa Cruz) and mouse anti-tubulin (sigma) antibodies were diluted to 1∶200 and 1∶7,500, respectively, in 5% milk in TBST. Goat anti-IL-1α and Goat anti-IL-1β antibodies (R&D systems, AF-400-NA & AF-401-NA) were diluted to 1∶500 in 5% milk in TBST.
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4

Spinal Cord Injury Mouse Model

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The injury model used was that of a section of the spinal cord. To produce a mouse model of the 10th thoracic vertebra (T10) complete transection SCI, C57BL/6 mice were anesthetized using 5% isoflurane in oxygen for induction and 2% isoflurane in oxygen for maintenance of anesthesia. The back fur was shaved and disinfected with Iodine Volts Swabs. An ~2 cm incision was made in the skin over T9–T11, and then the fat, fascia layer, and paravertebral muscles were separated successively to expose the T10 vertebra. T10 laminectomy was performed and T10 spinal tissue was completely transected using a sharp scalpel. In the Sham group, mice underwent the same surgical procedure except for the transection. Then, the muscle and skin were sutured layer by layer. Postoperative care was composed of disinfected wound treatment and manual bladder compression for voiding twice daily after SCI. Upon euthanasia was performed in a chamber filled with 99.9% CO2 gas for 10 min, and damaged regions of spinal cord tissue were harvested immediately for follow-up experiments. In particular, mice were intraperitoneally injected with an anti-mouse IL1α neutralizing antibody (R&D systems, Minneapolis, MN, SA, AF-400-NA, 20 mg/kg) and IgG control (R&D systems, Minneapolis, MN, SA, AB-108-C, 20 mg/kg) once per day for one week from the 1st day after surgery.
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5

Immunohistochemical Analysis of IL-1α in Neonatal Lungs

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Neonatal lungs sections were collected and fixed with 4% PFA and stored. Samples were then heated to deparaffinize and rehydrated with xylene and ethanol.
For DAB immunohistochemistry slides were quenched with BLOXALL (Vector labs) and blocked. They were then incubated with IL-1α primary antibodies (R&D systems, AF-400-NA), followed by a biotinylated secondary antibody, VECTASTATIN. R.T.U. ABC Reagent, and finally stained with DAB peroxidase (Vector Labs). They were counterstained with methyl green. IL-1α staining was visualized using the Olympus IX83 microscope and Olympus DP80 camera at Å~40 magnification using Olympus CellSens software.
For immunofluorescence, antigen retrieval was performed with citric acid, tissues were permeabilized with 0.5% triton, quenched with glycine, and blocked. They were incubated with IL-1α (R&D systems, AF-400-NA) and pro-surfactant protein C (Millipore, AB3786) primary antibodies overnight followed by incubation with secondary antibodies (Alexa fluor anti-rabbit donkey 647 and anti-goat donkey 594) for 1 h. Staining was visualized using the Olympus IX83 microscope and Olympus DP80 camera using Olympus CellSens software.
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6

Immunohistochemical Analysis of IL-1α in Bone

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Slides were deparaffinized and antigen retrieved in citrate buffer (pH 6) (Sigma, Saint Louis, MO) in a pressure cooker (2100 retriever, Aptum Biologics, Southampton, UK) (121°C) for 30 min. Slides were incubated with primary antibody (goat anti-IL-1α, 1:200 dilution, R&D systems AF-400-NA, Minneapolis, MN) overnight at 4°C, with same concentrations of goat IgG and a nonspecific peptide as negative controls. Slides were then incubated with secondary antibody (donkey-anti-goat IgG, 1:1000 dilution Jackson Immunoresearch, West Grove, PA). Tyramide signal amplification (PerkinElmer, Waltham, MA) was used to enhance the chromogenic signal. Mean fluorescence intensity in two to three representative areas within the area of new bone formation were measured excluding areas of bone, bone allograft, muscle, adipose tissue, and hematopoietic tissue. Mean fluorescence intensity was normalized against the value of negative control slides for final analysis. Images were taken with 20× objective of a Nikon Eclipse 90i microscope (Nikon, Melville, NY) and analyzed using NIS Elements-AR software (Nikon). N = 4–6 for each treatment group.
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7

Prostate Organoid Culture Protocol

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Organoid culture protocol was adapted from Lukacs et al.39 (link). Briefly, sorted bPSC were counted and resuspended in a 1:2 mixture of Prostate Epithelial Growth Medium (PrEGM, Lonza) and Matrigel (growth factor reduced, Corning). The mixture was deposited in a ring around the edge of a refrigerated 12-well plate at 104 cells/120 μL/well and allowed to solidify for 15 minutes at 37°C before addition of pre-warmed PrEGM with or without treatments. Growth medium with treatments was changed every 2–3 days before counting and harvesting on day 7. The following treatments were used with vehicle controls: Enzalutamide (Selleckchem), R1881 (Sigma-Aldrich), recombinant mouse IL-1RA (R&D Systems), recombinant mouse IL-1α (R&D), IL1-RA neutralizing antibody (#AF-480-NA, R&D) and IL-1α neutralizing antibody (#AF-400-NA, R&D). Intact organoids were released from Matrigel with Dispase (Gibco), fixed in 10% neutral buffered formalin followed by 70% ethanol, and embedded in HistoGel (ThermoFisher Scientific).
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