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34 protocols using collagenase type a

1

Isolation and Differentiation of Pre-Adipocytes

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For obtaining white pre-adipocites, WT and Mkk6−/− inguinal fat were mechanically and enzymatically disaggregated using type-A collagenase (2 mg/ml collagenase type-A, Roche) at 37 °C. Cell suspension passed through a 70 µm cell strainer (Falcon) to eliminate stroma and debris, and centrifuged at 400 × g for 8 min at RT. Pellet was collected and cells were counted using a CasyTon cell counter. Pre-adipocytes were inmortalized by infection with SV40T-pBABE-neo virus. Cells were differentiated to adipocytes for 9 days in 8% FCS medium supplemented with 5 μg/ml insulin, 25 μg/ml IBMX, 1 μg/ml dexamethasone, and 1 μM troglitazone. Then cultures were incubated with 100 nM T3, 100 nM T4, and 1 μM norepinephrine for 48 h before extraction. Alternatively, pre-adipocytes were differentiated to adipocytes using brown adipocyte differentiation protocol in which cells were induced to brown fat with 20 nM insulin, 1 nM T3, 125 μM indomethacin, 2 μg/ml dexamethasone, and 50 mM IBMX for 48 h, and maintained with 20 nM of insulin, and 1 nM of T3 for 8 days. In some experiments, white pre-adipocytes were infected with lentivirus containing shRNA targeting AMPK, TAK1, TAB1, p38α, or a scrambled sequence, and selected by resistance to puromycin.
Cell cultures used in this paper were tested for mycoplasma infection.
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2

Isolation of Single FDB Myofibers

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After mice were euthanized, the flexor digitorum brevis (FDB) muscles were harvested bilaterally. To obtain single myofibers by enzymatic dissociation, muscles were placed into DMEM with 10% Fetal Bovine Serum (FBS), 1 μl/ml gentamicin, and 1 mg/ml type A collagenase (Roche, Basel, Switzerland, 11099793001) overnight at 37°C. Myofibers were plated on extracellular matrix (ECM, Sigma E1270)-coated imaging dishes (MatTek Corporation, Ashland, MA, P34G-1.0, 0-14-C) before fixation. The small size of the mouse FDB muscle makes it ideal for performing these enzymatic dissociations to obtain isolated, live myofibers, which are challenging to perform with the larger size of the mouse quadriceps muscle.
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3

Canine Adipose-Derived Mesenchymal Stem Cell Isolation

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Subcutaneous fat was taken from the abdomens of one beagle dog and enzymatically digested with phosphate-buffered saline (PBS, Thermo Fisher Scientific, Waltham, MA, USA) containing 0.1% type A collagenase (Roche Diagnostics, Indianapolis, IN, USA) under shaking for 1 h at 37 °C. The stromal-vascular fraction (SVF) was extracted after centrifugation at 700×g for 5 min at room temperature. Single cell suspensions of SVF were passed through a 70-mm strainer (Falcon, BD Labware, Franklin Lakes, NJ, USA) and cultured in complete medium [α-MEM GlutaMAX (Invitrogen, Thermo Scientific, Carlsbad, CA) with 20% fetal bovine serum (FBS, Moregate Biotech, Bulimba, Australia) and 1% penicillin/streptomycin (Sigma–Aldrich, St Louis, MO, USA)] in a humidified atmosphere of 95% air and 5% CO2 at 37 °C. After 24 h, the floating cells were removed, and the medium was replaced with fresh medium. The adherent cells (adipose-derived MSCs) were subcultured using trypsin-ethylenediaminetetraacetic acid (trypsin-EDTA, Life Technologies) every 3 days until passage 5. All used MSCs taken from one dog.
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4

Lung Single Cell Isolation and Analysis

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Lung single cell suspensions (lung homogenates) were prepared after enzymatic digestion as previously described in detail [23 (link)]. In brief, the mice were euthanized and the lungs were perfused via the right ventricle with HBSS (PAA, Germany) to remove the intravascular pool of cells. The tissues were minced and digestion was performed in 0.09 U/ml type A collagenase (Roche, Germany) and 9.09 U/ml DNase (Roche, Germany) in IMDM (PAA, Germany) with 10 % FCS (PAA, Germany) at 37 °C for 1 h. The single cell suspensions were prepared by tissue resuspension with 20 G 1 ½ cannulas (0.9 × 40 mm; BD, Germany) and by mashing through a 70 μM cell strainer (BD, Germany). Red blood cells were lysed by ammonium chloride lysis. The cells were washed with HBSS for flow cytometry staining, or the leukocytes were magnetic-bead sorted after washing with PBS/2 % BSA/2 mM EDTA (PAA, Germany). Bronchoalveolar lavages (BAL) were performed as previously described [25 (link)]. The bacterial load in lung homogenates and BAL were defined by preparing a two-fold dilution series in sterile HBSS after centrifugation (2500 g, 15 min, 4 ° C) according to the method developed by Schott [26 (link)].
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5

Testis Macrophage Isolation and Analysis

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For flow cytometry analysis testis were kept in ice-cold PBS after excision. Tunica albuginea was removed, and single-cell suspensions were retrieved after collagenase enzymatic digestion of seminiferous tubules. Briefly, tubules were dissociated in 1.5 mL of type A collagenase (Roche) and DNase (Roche) with 10% FCS (GIBCO) at 37°C for 30 minutes. Cell suspension was resuspended and filtered through a 70 μm cell strainer (BD). Red blood cells were removed by RBC lysis buffer (QIAGEN).
Testicular macrophage population was examined by FACSCanto II flow cytometer (Becton Dickinson). After exclusion of doublets, debris, and dead cells, immune cells were identified by using panleukocyte marker CD45 (103108, 2 μg/mL, clone 30-F11, BioLegend). Macrophages were identified using F4/80 (123116, 5 μg/mL, clone BM8, BioLegend) and CD64 antibodies (139304, 2 μg/mL, clone X54-5/7.1, BioLegend).
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6

Isolation and Culture of Valve Interstitial Cells

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Human aortic valve leaflets were excised and washed in phosphate buffered saline (PBS). Valve leaflets were incubated in 0.15% w/v Type A collagenase (Roche Life Sciences, United States) and forcefully agitated for 10 minutes at 37°C to remove endothelial cells. The de-endothelialised valve tissue was washed again in PBS and digested for a further 3 hours to isolate VIC. The VIC suspension was centrifuged for 7 min at 700 × g, and the resulting pellet resuspended in Dulbecco’s Modified Eagle Medium (DMEM) containing 2% heat-inactivated foetal calf serum (FCS), 150 U/mL penicillin/streptomycin, 2 mM L-glutamine (all from Sigma, Gillingham, UK) and plated into tissue culture flasks which were maintained at 37°C under 5% CO2. When cells had become confluent and passaged, they were subsequently maintained in media without streptomycin or penicillin. In preliminary experiments we determined that the presence of streptomycin had no effect on the levels of expression of MSC (S1 Fig).
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7

Xenopus oocyte-based heterologous expression

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Oocytes were extracted from adult female Xenopus laevis,25 (link) isolated after incubation with 2 mg/ml Collagenase Type A (Roche) in OR-2 (in mM): NaCl 82.5, KCl 2, MgCl2 1, HEPES and injected with 2.5 ng of wild-type or mutant mRNA. The heterozygous condition is simulated by injecting a 1:1 mixture of wild-type and mutant mRNA. The oocytes were incubated in modified Barth’s solution (in mM): NaCl 88, KCl 1, MgSO4 1.68, HEPES 10, Ca(NO3)2 0.47, NaHCO3 2.4, CaCl2 0.41, supplemented with penicillin and streptomycin routinely for 30–72 h at ∼15°C before electrophysiological recordings. Each variant was studied in more than one batch of oocytes.
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8

Isolation and Characterization of PAEC

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PAEC were isolated with 0.1% collagenase type A (Roche Molecular Biochemical, Indianapolis, IN) and characterized using techniques described previously (35 (link)). Cells for individual experiments were grown to confluence in 100 mm plates for immunoprecipitation, 60 mm plates for western blots, 24-well plates for angiogenesis activity assays, 6 well plates for mRNA extraction or transfection and 24- well plates for PGI2 and TXA2 assays. We studied PAEC from control and PPHN lambs between passages 4–6.
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9

Isolation and Characterization of PAEC

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PAEC were isolated with 0.1% collagenase type A (Roche Molecular Biochemical, Indianapolis, IN) and characterized using techniques described previously (35 (link)). Cells for individual experiments were grown to confluence in 100 mm plates for immunoprecipitation, 60 mm plates for western blots, 24-well plates for angiogenesis activity assays, 6 well plates for mRNA extraction or transfection and 24- well plates for PGI2 and TXA2 assays. We studied PAEC from control and PPHN lambs between passages 4–6.
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10

Isolation and Characterization of Airway Epithelial Cells

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Collagenase type A (Roche, Basel, Switzerland); Dispase II (Gibco/ThermoFisher, Waltham, MA); Elastase (Worthington-Biochem, Lakewood, NJ); DNAase (Sigma-Aldrich, St. Louis, MO); Absolute RNA Microprep kit (Agilent, #400805, Stratagene, La Jolla, CA); bronchial epithelial basal medium (BEBM, Lonza, Mapleton, IL); small airway epithelial cell growth medium (SAGM; Lonza); Dulbecco’s modified Eagle medium (DMEM; GIBCO, Rockville, MD); PneumaCult-ALI medium (Stemcell Technologies, Vancouver, Canada); iScript cDNA Synthesis Kit (Bio-Rad, Hercules, CA); SYBR Green (Applied Biosystems, Foster City, CA. SCGB1A1/CCSP (Secretoglobin family 1A, member 1) antibodies (LifeSpan BioScience, Seattle, WA); FOXJ1/HFH4 (Novus Biologicals, Littleton, CO).
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