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17 protocols using marimastat

1

Enzymatic specificity of FIB One probe

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To determine the enzymatic specificity of FIB One, the probe was incubated at a concentration of 1 μM (unless otherwise stated) with the recombinant MMPs (Enzo Life Sciences) (active domains of MMP-1, MMP-2, MMP-3, MMP-7, MMP-8, MMP-9, MMP-10, MMP-11, MMP-12, and MMP-13, all at 30 nM), thrombin (Sigma Aldrich) (5 U/mL), factor Xa (Sigma Aldrich) (500 nM), plasmin (Sigma Aldrich) (30 nM), and human neutrophil elastase (30 nM). Where appropriate, enzymes were incubated with specific inhibitors for 30 min at 37°C prior to addition of FIB One. The pan-MMP inhibitor marimastat (Tocris Biosciences) was used at 20 μM, and the MMP inhibitor AZD1236 was used at 0-14 μM. Enzyme free reactions served as a control. Enzymatic reactions were performed in MMP buffer (10 mM CaCl2, 6.1 g Tris-HCl, 8.6 g NaCl per litre, pH 7.5) in a final volume of 20 μL. Reactions were performed in duplicate in 384-well plates (Life Technologies) with optically clear plate seals (Thermo Scientific) and repeated thrice (independently). Fluorescence signal was measured for up to 60 min, ex/em 485/528 nm using microplate reader (BioTek Synergy H1 multimode reader). Data were normalised to buffer alone and are presented as fold-change in signal (relative fluorescent units, RFU) compared to enzyme-free controls. Data were plotted using Prism 7 (GraphPad Software Inc., La Jolla, CA, USA).
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2

EGFR Kinase Inhibitors Modulate C. albicans Infection

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The EGFR kinase domain inhibitors were purchased from Santa Cruz (Gefitinib), Selleckchem (PD153035), Tocris Bioscience (AG1478) and Sigma (GW2974). Marimastat, GI-253023X, glibenclamide and Bapta-AM were purchased from Tocris Bioscience. Inhibitors were reconstituted in DMSO and aliquoted for appropriate freezer temperature storage. TR146 cells were incubated with inhibitors for 1 h prior to C. albicans infection, candidalysin exposure or mock treatment. Phospho-EGFR Tyr1068 (#3777), phospho-EGFR Tyr845 (#6963S), c-Fos (#2250S) and phospho-MKP1 (#2857S) antibodies were purchased from Cell Signalling Technology. Mouse anti-human α-actin antibody was purchased from Millipore (UK) (#MAB1501), goat anti-mouse (#115-035-062) and anti-rabbit (#111-035-144) horseradish peroxidase (HRP)-conjugated antibodies were purchased from Jackson Immunologicals (Stratech Scientific, UK). Fluorescent ErbB receptor affibodies were a kind gift from the Science and Technologies Facilities Council for use with confocal imaging work. APC anti-human EGFR antibody was purchased from BioLegend (# 352905) for use with Imagestream analyses. Biologically active EREG and EPG were purchased from Peprotech and used at 10, 25 and 50 ng/mL either individually or together at the same concentration.
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3

Annexin V-AF568 and Hoechst 33342 Staining

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Annexin V-AF568 and Hoechst 33342 were purchased from Thermo Fisher Scientific (Waltham, MA, USA). O-phospho-L-serine (OPS) and Phorbol 12-myristate-13-acetate (PMA) were obtained from Sigma Aldrich (St. Louis, MO, USA). Ionomycin (IO) was purchased from Merck Millipore (Darmstadt, Germany). Hydroxamate-based ADAM17/ADAM10 inhibitor GW280264X [30 (link)] was purchased from Aeobious (Gloucester, MA, USA). Marimastat and ADAM10 inhibitor GI254023X [31 (link)] were purchased from Tocris Bioscience (Bristol, UK). Additional antibodies used: ANO1 (Bio-Techne, Abingdon, UK), ANO4 (Aviva Systems Biology, San Diego, CA, USA), ANO5 (Abcam, Cambridge, UK), ANO6 and ANO7 (OriGene, Rockville, MD, USA), ANO9 and ANO10 (LSBio, Seattle, WA, USA), and GAPDH (Novus Biologicals, Littleton, CO, USA). Secondary antibodies for automated Western were obtained from Protein Simple (San Jose, CA, USA) or Novus Biologicals (Novus Biologicals, Littleton, CO, USA).
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4

Staphylococcus aureus Sphingomyelinase Assay

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Sphingomyelinase from Staphylococcus aureus, Annexin V-FITC, cycloheximide (CHX), O-phospho-L-serine (OPLS), phosphorylcholine (OPC), phorbol 12-myristate-13-acetate (PMA), and EGTA (ethylene glycol tetraacetic acid) were obtained from Sigma. OPLS and OPC were dissolved in H2O and adjusted to pH 7 before use. Hydroxamate-based ADAM17/10 inhibitor GW280264 [24 (link)] was purchased from Aeobious. Marimastat and ADAM10 inhibitor GI254023X [24 (link)] were obtained from Tocris Bioscience. Highly purified human recombinant TNF-α was provided by BASF Bioresearch.
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5

Quantifying IL-8 Cleavage and Alteration

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IL-8 cleavage/alteration was measured similarly to previously reports [14 (link)]. CVL were clarified by centrifugation and diluted 1:4 with RPMI-1640 medium buffered with HEPES (Sigma, St. Louis, MO, added as a source of cations) and 0.1 ml of diluted fluid was added to 0.1 ml (2 ng/ml) of carrier-free recombinant human IL-8 (rhCXCL-8/IL-8, R&D Minneapolis, MN, USA). The mixtures were incubated for 20 h at 4°C or 37°C. Afterward, ELISA was used to determine the concentration of IL-8 (BD Bioscience, San Diego, CA USA). The cutoff for determining if samples were positive for IL-8 cleavage/alteration was set by calculating the standard deviation of negative controls in multiple runs and multiplying by 3. In some experiments, protease inhibitors were added to the incubations; either General Protease Inhibitor (1:25 final concentration) (Sigma), EDTA (2 mmol final concentration), Marimastat (13 nM final concentration, Tocris, Bristol, UK) or CP471474 (16 nM final concentration, Tocris). A culture supernatant from Group A Streptococcus was used as a positive control in all experiments (a kind gift from Paul Sumby, Center for Molecular and Translational Human Infectious Diseases Research, Huston, Texas 77030).
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6

Apoptosis Induction and Inhibition Assay

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Annexin V-Fluor 488 was from Thermo Fisher Scientific (Waltham, MA, USA). O-phospho-L-serine (OPS), Phorbol 12-myristate-13-acetate (PMA), and cycloheximide (CHX) were from Sigma Aldrich (St. Louis, MO, USA). The hydroxamate-based ADAM17/ADAM10 inhibitor GW280264 (GW) was purchased from Aeobious (Gloucester, MA, USA). Marimastat and the ADAM10 inhibitor GI254023X (GI) were purchased from Tocris Bioscience (Bristol, UK). The neutralizing ADAM17 antibody D1 (A12) was purchased from AdipoGene Life Sciences (Fuellinsdorf, Switzerland, AG-27B-6000PF-C100). Antibodies against EGFR, AKT, full-length caspase-3, cleaved caspase-3, and actin were from Cell Signaling Technology (Danvers, MA, USA). Anti-mCherry antibodies were from Novus Biologicals/Bio-Techne (Wiesbaden, Germany). Anti-ADAM17 antibodies used for Western blotting were from Merck Millipore (Darmstadt, Germany; AB19027) and from Cell Signaling Technology (3976S). Recombinant human killer TRAIL (kTRAIL), which utilizes a linker peptide to increase cross-linking to form a more stable oligomer, was from ENZO Life Sciences (Lörrach, Germany); pan-caspase inhibitor zVAD-fmk (ZVAD) was from BACHEM (Bubendorf, Switzerland). The live dead dye 7-Aminoactinomycin D (7-AAD) was from BioLegend (San Diego, CA, USA). BAPTA-AM was from MedChemExpress (Monmouth Junction, NJ, USA).
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7

Induction of Angiogenic Sprouting in HUVEC Cultures

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Human foreskin fibroblasts (HFFs) were cultured in high-glucose Dulbecco’s Modified Eagle Medium (DMEM, Gibco) supplemented with 1% penicillin/streptomycin, l-glutamine and 10% fetal bovine serum. In a typical 2D experiment, DexMA hydrogels were seeded at 2000 cells/cm2.
Human umbilical cord vein endothelial cells (HUVECs, Lonza) were cultured in fully supplemented EGM-2 media (Lonza) and expanded to passage 4 prior to use in experiments. For angiogenic device experiments, HUVECs were seeded into one channel at 107/mL and allowed to adhere to the bottom surface for 30 min. The device was inverted, cells were seeded to the top surface at 107/mL, and allowed to adhere and spread for 2 h. Unattached cells were thoroughly washed out with EGM-2 and the devices were placed on a platform rocker (BenchRocker BR2000) to generate gravity-driven flow through both channels. Eight hours after seeding, an angiogenic growth factor cocktail consisting of 75 ng/mL VEGF (R&D Systems), 75 ng/mL MCP-1 (R&D Systems), 150 ng/mL PMA (Sigma), and 250 nM S1P (Cayman Chemical) was introduced to the second channel to induce angiogenic sprouting. MMP inhibitor Marimastat (Tocris Bioscience) was administered into both channels at 500 nM.
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8

Thrombin-induced Cyr61 Expression

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Corneal stromal fibroblasts and myofibroblasts were preincubated for 3 h in a serum-free medium containing growth factors. Vehicle (dimethyl sulfoxide [DMSO], water, or PBS [Gibco]), the thrombin-specific inhibitor hirudin (4.4 Antithrombin Units/ml [AT-U/ml] in water, Sigma, St. Louis, MO), the serine protease inhibitor aprotinin (0.3 µM, in water, Roche, Indianapolis, IN), the cysteine protease inhibitor E-64 (10 µM, in water, Sigma), the serine/cysteine protease inhibitor leupeptin (10 and 100 µM, in PBS, Sigma), the chymotrypsin-like serine and cysteine protease inhibitor chymostatin (100 µM, in DMSO, Sigma), the metalloproteinase inhibitor marimastat (10 µM, in DMSO, Tocris Bioscience), or the aspartic protease inhibitor pepstatin A (1 µM, in DMSO, Sigma) were added at least 5 min before the addition of 1.0 U/ml of thrombin or additional medium. The concentrations given were the final concentrations in the cell media. The cells were incubated with thrombin at a final concentration of 1.0 U/ml for 2 or 3 h. The lysates and media were processed for SDS-PAGE and transferred to PDVF membranes. Cyr61 was visualized on western blots using the central linker region-specific Cyr61 antibody.
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9

Inhibitors of Cellular Mechanics in Motility

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Inhibitors were implemented in invasive morphology and/or migration assays at concentrations as follows: 10 μM GM6001 (Millipore) or 100 μM marimastat (Tocris) to broadly inhibit MMPs; 70 μM NSC23766 to inhibit Rac1 (Tocris); 10 μM Y-27632 to inhibit ROCK (Sigma); 100 μM CK-666 to inhibit Arp 2/3 (Sigma); 1 μg mL−1 monoclonal β1 integrin-blocking antibody (Abcam, P5D2); 50 μM Blebbistatin (Abcam); and 2.5 μM Latrunculin-a (Tocris). Vehicle-alone controls for these inhibitors were as follows: DMSO for GM6001, marimastat, CK-666, Blebbistatin, and Latrunculin-a; deionized water for NSC23766 and Y-27632; and IgG nonspecific antibody (Sigma, I5381) for β1 integrin-blocking antibody. All inhibitor concentrations followed those used in similar studies: GM60016 (link),47 (link), marimastat48 (link), NSC2376615 (link), Y-2763242 (link), CK-66649 (link), β1 integrin-blocking antibody42 (link), Blebbistatin31 (link),50 (link), and Latrunculin-a50 (link). Drug concentrations were also verified in-house using gelatin degradation assays and traction force microscopy experiments (described elsewhere in Methods).
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10

Characterization of MMP and ADAM Enzymes

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MMP-1, MMP-2, MMP-8, MMP-9, MMP-10, MMP-13, MMP-14, ADAM10, and ADAM17 were purchased from R&D Systems (cat # 901-MP, 902-MP, 908-MP, 911-MP, 910-MP, 511-MM, 918-MP, 936-AD, and 930-ADB, respectively). All common chemicals were purchased from Sigma. Marimastat was purchased from Tocris (cat# 2631), actinonin was from Sigma-Aldrich (cat# 01809). Hybricare medium was from ATCC (ATCC® 46-X™).
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