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11 protocols using lps ultra pure

1

Obese Animal Model of ALI

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On PN150, 200 μg Escherichia coli lipopolysaccharide (O55:B5, LPS Ultrapure, InvivoGen, Toulouse, France) (19 (link), 20 (link)) suspended in saline solution to a total volume of 200 μl or an equivalent volume of saline (SAL) was instilled intratracheally in both Control and Obese animals, resulting in four experimental groups (n = 9, each): (1) Control-SAL; (2) Control-ALI; (3) Obese-SAL; and (4) Obese-ALI. After 24 h, echocardiography and lung mechanics were analyzed, and biological samples were collected. Lungs were stored for further evaluation of histology, enzyme-linked immunosorbent assay (ELISA), and myeloperoxidase (MPO) activity. Gene expression was also quantified in macrophages and neutrophils obtained from blood and BALF.
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2

Generating Monocyte-Derived Dendritic Cells

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DCs were generated from PBMCs as previously described24 (link). Briefly, PBMCs were isolated from healthy volunteers by ficoll (Bicoll Seperation, Biochrom AG) density gradient centrifugation. Magnetic activated cell sorting with paramagnetic CD14-beads (Miltenyi Biotec) was used to further separate monocytes. Monocyte-derived dendritic cells (DCs) were generated in RPMI-1640 supplemented with 10% FBS (Sigma-Aldrich), 120 mg/l Refobacin (Merck), 10 ng/ml IL-4 (Miltenyi Biotec) and 100 ng/ml GM-CSF (Bayer Healthcare) for 5 to 6 days.
Co-cultivation experiments of DCs with A. fumigatus or C. albicans and E.coli were performed on day 6 with a multiplicity of infection (MOI) of 1 in a concentration of 1*106/ml. LPS (1 μg/ml, Sigma-Aldrich), LPS ultra-pure (1 μg/ml), zymosan depleted (100 μg/ml), Pam3CSK4 (100 ng/ml) (Invivogen) were used in the indicated concentrations.
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3

Inflammatory Signaling Pathway Assays

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Insulin was obtained from Life Technologies (Saint Aubin, France), LPS ultrapure from InvivoGen (San Diego, USA) and IL-1β from PeproTech France (Neuilly sur seine, France). Antibodies were obtained from the following companies: REDD1 from Proteintech (Chicago, IL); pT180/Y182 p38 MAPK, p38 MAPK, JNK, pT183/Y185 JNK, pS536p65 NF-κB, IL1β, pT308PKB, PKB, ERK from Cell Signaling Technology (Beverly, MA); NFκB, HSP90 from Santa Cruz Biotechnology (Heidelberg, Germany); tubulin from Sigma-Aldrich; NLRP3, caspase-1 (p20) from Adipogen (San Diego, USA). The primer sets for real time PCR were purchased from Eurogentec (Seraing, Belgium) and Qiagen (Courtaboeuf, France). Culture media were obtained from Life Technologies (Saint Aubin, France). Rapamycin was obtained from Calbiochem (Nottingham, UK).
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4

Characterization of Bacterial Lipid Mediators

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LTA from Bacillus subtilis was obtained from two different vendors (Sigma-Aldrich, Vienna, Austria, catalog number L3265, from here on referred to as LTAextract, and Invivogen, Toulouse, France, catalog number tlrl-lta, from here on referred to as LTApure). LPS from Escherichia coli O111:B4 extracted by successive enzymatic hydrolysis steps and purified by the phenol-TEA-DOC extraction protocol (LPSultrapure) was obtained from Invivogen (catalog number tlrl-3pelps). For TLR4 antagonism experiments, the TLR4 antagonist TAK-242 was used (Calbiochem/Merck Millipore, Darmstadt, Germany; catalog number US1614316, resatorvid, ethyl (6R)-6-[N-(2-chloro-4-fluorophenyl)sulfamoyl]cyclohex-1-ene-1-carboxylate) (Ii et al., 2006 (link); Kawamoto et al., 2008 (link)).
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5

Dendritic Cell Culture and Stimulation

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DC were cultured from bone marrow obtained from wild-type (WT) C57Bl6, Sdc-1-/- and Balb/c mice according to a method adopted from Lutz et al. [27 (link), 28 (link)]. In short, femora and tibiae were harvested after cervical dislocation and bone marrow was flushed with medium (RPMI-1640 Dutch modification (Invitrogen, USA), supplemented with 50 μM β-mercaptoethanol (Sigma-Aldrich, St Louise, USA), 1% glutamax (Invitrogen), 1% pyruvate (Invitrogen) and 10,000 U/ml penicillin-streptomycin (Invitrogen). Cells were suspended in medium with 10% fetal calf serum (BioWhittaker, Lonza, Basel, Switzerland), supplemented with 20 ng/ml rGM-CSF (PeproTech, Rocky Hill, USA) and subsequently cultured for 9 days in six well plates (0.8 x 106 cells/well, Corning Incorporated, USA) at 37˚C and 5% CO2. At day 3 and day 6 medium was refreshed. After 8 days of culture, DC were stimulated with different TLR ligands for 24 hours, i.e for TLR2 stimulation 1 μg/ml PAM3CysSerLys4 (PAM3, tlrl-pms, InvivoGen), for TLR4 stimulation 1 μg/ml LPS Ultra pure (InvivoGen, San Diego, USA), and for TLR9 stimulation 5 μg/ml ODN1826 (tlrl-1826, InvivoGen). Unstimulated DC received no additives. At day nine, cells were harvested. Culture supernatant was collected and stored at -20°C for cytokine measurement. Cells were analyzed by flow cytometry or used in co-culture with T cells.
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6

Inflammasome Activation and Cytokine Detection

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Cell culture reagents (e.g., PBS, DMEM, RPMI, Trypsin‐EDTA) were from Gibco, Thermo Fisher Scientific. Stimuli were as follow: LPS (UltraPure, Invivogen), nigericin (Thermo Fisher Scientific), PFO (Biotrend), LFn‐BsaK, LFn‐MxiH and PA were produced in‐house as described previously (19), and uric acid used for in‐house production of MSU crystals (Sigma‐Aldrich). Inhibitors used were CRID3 (Tocris) and VX‐765 (Selleckchem). Antibodies were as follow: anti‐ASC polyclonal antibody (AL177, Adipogen, 50 µg ml−1) or anti‐ASC monoclonal antibody (N‐15, Santa Cruz, 1:500), anti‐Caspase‐1 p20 antibody (Casper‐1, Adipogen, 1:1,000), anti‐IL‐1β antibody (BAF401, R&D Systems, 1:1,000), and anti‐GSDMD (L60, Cell Signaling Technology, 1:1,000). DRAQ5 was from Thermo Fisher Scientific. For FACS, Abs used were anti‐CD45‐BV421, Ly6G‐FITC and Ly6C‐PerCP (BD Biosciences, 1:100). HTRF for human or mouse IL‐1β were from CisBio. ELISA kits were used to detect IL‐1β, TNFα, IL‐6 or CXCL1 (DuoSet, R&D Systems). Cell viability was measured with the Cell Titer Blue kit (CTB, Promega).
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7

Monocyte Transfection and TLR Stimulation

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Monocytes were isolated as described above, and transfected with siRNA using the Human Monocyte Nucleofector kit (Lonza) and a Nucleofector II instrument (Amaxa/Lonza), according to the manufacturer’s instructions. The TLR1, TLR2, MYD88, and non-targeting control (NT) siRNA pools (ON-TARGETplus SMARTpool; Horizon Discovery, Cambridge, UK) were used at 300 nM. Immediately following nucleofection, 0.5 ml of RPMI + 10% FBS was added to the cells, which were put into culture with an additional 1 ml of this medium and left to recover at 37°C for 72h. Cells were harvested and a subset was used to verify efficient knockdown via flow cytometry, by labeling with Biotin anti-TLR1 (TLR1.136), Streptavidin-PE (both from BioLegend, San Diego, CA), AF647-conjugated anti-TLR2 (11G7), FITC-conjugated CD14 (M5E2) (both from BD Biosciences), PE-Cy7-conjugated anti-TLR4 (HTA125), and Live/Dead Fixable Violet stain (both from Thermo Fisher). The remaining cells were added to PN Fr.-coated 48-well culture plates (5×105 cells/well), and incubated in StemSpan medium for 16h. The TLR1/TLR2 agonist Pam3CSK4 (1 µg/ml) and the TLR4 agonist LPS (Ultrapure; 100 ng/ml) (both from InvivoGen) were added as indicated. RT-qPCR was performed and gene expression was analyzed as described above.
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8

Dendritic Cell Culture from Murine Bone Marrow

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Dendritic cell culture DC were cultured from bone marrow obtained from wild-type (WT) C57Bl6, Sdc-1 -/-and Balb/c mice according to a method adopted from Lutz et al. (24, 25) . In short, femora and tibiae were harvested after cervical dislocation and bone marrow was flushed with medium (RPMI-1640 Dutch modification (Invitrogen, USA), supplemented with 50 µM β-mercaptoethanol (Sigma-Aldrich, St Louise, USA), 1% glutamax (Invitrogen), 1% pyruvate (Invitrogen) and 10,000 U/ml penicillin-streptomycin (Invitrogen). Cells were suspended in medium with 10% fetal calf serum (BioWhittaker, Lonza, Basel, Switzerland), supplemented with 20 ng/ml rGM-CSF (PeproTech, Rocky Hill, USA) and subsequently cultured for 9 days in six well plates (0.8 x 10 6 cells/well, Corning Incorporated, USA) at 37˚C and 5% CO 2 . At day 3 and day 6 medium was refreshed. After 8 days of culture, DC were stimulated with different TLR ligands for 24 hours, i.e for TLR2 stimulation 1 µg/ml PAM 3 CysSerLys 4 (PAM 3 , tlrl-pms, InvivoGen), for TLR4 stimulation 1 µg/ml LPS Ultra pure (InvivoGen, San Diego, USA), and for TLR9 stimulation 5 µg/ml ODN1826 (tlrl-1826, InvivoGen). Unstimulated DC received no additives. At day nine, cells were harvested. Culture supernatant was collected and stored at -20°C for cytokine measurement. Cells were analyzed by flow cytometry or used in co-culture with splenocytes.
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9

Lymphatic cell cytokine production

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In vitro-derived LCs were harvested after 24 h of B. malayi L3 or mf exposure and were stimulated for a subsequent 24 h with 108 cells/mL of the TLR2 ligand heat-killed Listeria monocytogenes (HKLM, Invivogen, San Diego, CA, USA), 25 μg/mL of the TLR3 ligand PolyI:C (Invivogen), 05 μg/mL of the TLR4 ligand lipopolysaccharide (LPS, ultrapure; Invivogen) or 05 μg/mL of TLR2/6 ligand FSL-1 (Invivogen). Culture supernatants were collected and assessed for cytokine production.
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10

Macrophage Stimulation Assay

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Stimulation experiments were performed on adherent peritoneal macrophages which were primed by 100 ng ml -1 LPS Ultrapure (Invivogen, France) for 4 h before been stimulated by purified proteins for 20 h.
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