At the end of the experiments, culture medium was removed, centrifuged at 2000
g for 5 minutes, and snap frozen at –20°C. Cells were rapidly rinsed in phosphate-buffered saline (PBS), snap frozen in liquid nitrogen, and stored at –80°C. To obtain cellular proteins, thawed cells were extracted with 4°C modified radioimmunoprecipitation assay (RIPA) buffer containing proteinase and phosphatase inhibitors (2 mM EDTA, 1% NP-40, 0.5% sodium deoxycholate, 0.1% sodium dodecyl sulfate, 50 mM NaF, 2 mM dithiothreitol, 1 mM sodium orthovanadate, 10 mM NaP
4O
7, 1 mM phenylmethylsulfonyl fluoride, 20 μg/mL leupeptin, 20 μg/mL aprotinin, 20 μg/mL pepstatin, and 50 mM Tris, pH 7.5). After incubation on ice, cells were scraped, extract was removed, and 6× SDS-PAGE sample buffer was added. Samples were then boiled, snap frozen, and stored at –80°C until they were subjected to standard SDS-PAGE on 8% separating gels.
32 For MMP-3 assays, media aliquots were concentrated 5× to 8× with the use of spin columns (Centricon YM-10; Millipore, Bedford, MA). After 6× sample buffer was added, media aliquots were subjected to standard SDS/PAGE separations. After electrophoresis, proteins were electrophoretically transferred to polyvinylidene difluoride or nitrocellulose membranes. For some studies, membranes were blocked and extensively washed with 5% bovine serum albumin (BSA) in 1× TBST (10 mM Tris, 150 mM NaCl, 0.01% Tween-20, pH 7.5) before and after incubation in secondary antibody. To verify uniform total protein loading and transfer, blots were stained (Ponceau; Sigma-Aldrich, St. Louis, MO) after transfer and before the addition of the blocking agent. Detection was performed with the appropriate conjugated horseradish peroxidase secondary antibodies with chemiluminescent substrate (SuperSignal West Pico; Pierce, Rockford, IL). Exposed films from the chemiluminescent blots were scanned (ScanJet II CX/T; Hewlett-Packard, Palo Alto, CA), and relative band densities were determined (LabWorks software; UVP, Upland, CA).
33 In other cases, blocking buffer (Odyssey; LI-COR Biosciences, Lincoln, NE) was used to block membranes before incubation with primary antibodies. Bands were detected with the appropriate secondary antibody (Alexa Fluor 680 or IRDye 800 conjugated; Molecular Probes). Blots were then scanned, and relative band densities were determined (Odyssey Infrared Imager; LI-COR Biosciences).