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9 protocols using nbp1 91258

1

Immunohistochemical Analysis of Fibrosis Markers

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Immunofluorescence and immunohistochemistry were performed as previously described Ref. 50. Antibodies include the following: rabbit anti‐fibronectin (Novus Bio, NBP1‐91258, Littleton, CO, USA), rabbit monoclonal anti‐Id1 (clone/catalogue number BCH‐1/37‐2; Biocheck, Foster City, CA, USA), rabbit anti‐phospho‐histone γH2AX and macroH2A.1.1 (Cell Signaling Technology #9718 and #12455, respectively), rat anti‐mouse CD31 (clone MEC 13.3, #557355; BD Biosciences, San Jose, CA, USA), and rabbit anti‐αSMA (Abcam, ab 124964, Cambridge, MA, USA). Paraffin sections from DBA.2Akita, DBA.2 WT, and Lepob/WiscJ were provided by DiaComp (NIDDK and University of Washington).
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2

Immunohistochemical Tissue Analysis Protocol

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8-μm tissue sections were cut by cryo-sectioning and stained with conjugated or purified antibodies. Purified antibodies were detected using secondary antibodies. The antibodies included MECA-79 (sc-19602, SCBT), anti-CD11c (117301, BioLegend), anti-CD11b (101202, BioLegend), anti-LYVE1 (ab14917, Abcam), anti-αSMA (19245S, CST), anti-CD31 (14-0311-82, Invitrogen), anti-Collagen I (ab34710, Abcam), anti-Collagen IV (NBP1-91258, Novus), anti-Laminin (ab11575, Abcam), anti-pan-cytokeratin (AE1/AE3, sc-81714, SCBT). DAPI (VECTASHIELD, Vector Laboratories) was used to counterstain the cell nuclei. The stained tissue sections were visualized using an EVOS™ FL Auto 2 Imaging System (Thermo Fisher Scientific). Quantification was performed on 2–3 sections from at least 3 separate mice using image analysis software Celleste (Invitrogen) and ImageJ (NCBI, 1.8.0_112).
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3

Protein Expression Analysis in Cell and Renal Cortex

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Cell and renal cortex lysate were obtained using RIPA buffer containing a protease inhibitor cocktail (Roche). Equal amounts (30μg) of protein samples were separated using SDS–polyacrylamide gel electrophoresis (SDS–PAGE), followed by transferred onto Immobilon®-P transfer membranes (Millipore). Membranes were then probed with anti-GSDMD (NBP2-33422, Novus, 1:1000), anti-fibronectin (NBP1-91258, Novus, 1:1000), anti-GSDME (13075-1-AP, Proteintech, 1:1000), anti-PARP (13371-1-AP, Proteintech, 1:1000), anti-collagen type I (ab34710, Abcam, 1:1000) and anti-β-actin (#4970, Cell Signaling Technology, 1:5000). After incubation with secondary antibodies, the blots were visualized with Immobilon Western Chemiluminescent HRP Substrate (Millipore). Images were captured with the ChemiDoc™ Touch Imaging System (Bio-Rad).
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4

Immunohistochemistry of Fibronectin and CD31

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The antibodies used in this study were anti-Fibronectin (rabbit polyclonal 1:400; Novusbio NBP1-91258), and conjugated FITC-CD31 (mouse monoclonal 1:100; Biolegend c.102405). The secondary antibody was Donkey anti-Rabbit Alexa-596 (1:200). Hematoxylin and eosin stain kit (Vectors Laboratory; H-3502).
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5

Protein Expression Analysis by Western Blot

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SDS-PAGE of 25 μg of protein was performed on 8% reducing gels. Proteins were transferred at 4 °C onto PVDF membranes in tris-glycine buffer containing 20% methanol. Total protein loading was measured prior to blotting using Ponceau S staining and densitometric analysis. Non-specific binding sites were blocked with 5% skim milk in tris-buffered saline supplemented with 0.1% Tween-20 (TBS-T) at room temperature. The blots were thoroughly washed in TBS-T before applying primary antibodies overnight at 4 °C with shaking. Primary antibodies were used at the following dilutions: ED-A (cellular) fibronectin (1:1000; MAB1940; MilliporeSigma, Burlington, MA; or NBP1-91258; Novus), SMemb (1:1000; ab684; Abcam), αSMA (1:5000; A2547; Sigma). Because the primary fibroblasts originated from a heterogenous population of cells, vimentin (1:2000; ab8069; Abcam) and platelet-derived growth factor receptor alpha (PDGFRα; 1:1000; ab134123; Abcam) were used as a phenotype controls on each blot. Appropriate HRP-conjugated secondary antibodies (Jackson ImmunoResearch, West Grove, PA) were applied at a 1:5000 dilution for 1 hour at room temperature. Protein detection was done using ECL substrate, and protein bands were visualized on blue X-ray film. Protein expression was measured by relative densitometry using Quantity One® analysis software (version 4.6.9; Bio-Rad).
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6

Immunoblotting and Immunofluorescence of BMP-1, LTBP-1, and Markers

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Immunoblotting was performed as previously described [44 (link)]. Equal amounts of tissue lysates were used for immunoblotting. Blots were incubated with specific antibodies to BMP-1 and LTBP-1 (Abcam, ab205394 and ab78294), Flag (Sigma-Aldrich, F3165), ALK5 (R&D system, MAB5871), Col3a1 and Fibronectin 1 (Novus Biologicals, NB600 and NBP1–91258). β-Actin (Sigma-Aldrich, A2228) was used as a loading control. Immunofluorescence was performed as previously described in detail [44 (link)]. We used specific antibodies to CD34 (BD Bioscience, 553731 or Abcam, ab54208), Nkx2.1 (Abcam, ab76013) and VE-cadherin (BD biosciences, 562243). The nuclei were stained with 4’,6-diamidino-2-phenylindole (DAPI, Sigma-Aldrich, D9564).
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7

Immunoblotting and Immunofluorescence Analysis

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Immunoblotting was performed as described previously [44 (link)]. Equal amounts of tissue lysates were used for immunoblotting. Blots were incubated with specific antibodies to BMP-1 and latent TGFβ1-binding protein-1 (LTBP-1) (ab205394 and ab78294; Abcam), Flag (F3165; Sigma-Aldrich), ALK5 (MAB5871; R&D Systems), Col3a1 and Fn1 (NB600 and NBP1-91258; Novus Biologicals). β-Actin (A2228; Sigma-Aldrich) was used as a loading control. Immunofluorescence was performed as described in detail previously [44 (link)]. We used specific antibodies to CD34 (553731; BD Bioscience or ab54208; Abcam), Nkx2.1 (ab76013; Abcam) and VE-cadherin (562243; BD Biosciences). The nuclei were stained with 4′,6-diamidino-2-phenylindole (D9564; Sigma-Aldrich).
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8

Multimodal Immunostaining of Tissue Sections

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5μm sections of tissue were cut by cryosectioning and stained with conjugated or purified antibodies. Purified antibodies were detected using secondary antibodies. The antibodies used include anti-Sb9 (PA5-51038, Invitrogen), anti-mouse GrB (16G6, #14-8822-82, Invitrogen), anti-human GrB (2C5, sc-8022, SCBT), anti-human GrB (B18.1, NBP1-97525, Novus), anti-MelanA (ab51061, Ab-cam), anti-α-SMA (D4K9N, #19245S, CST), anti-cleaved caspase-3 (Asp175, #9661, CST), anti-Collagen I (NB600-408, Novus), anti-Fibronectin (NBP1-91258, Novus), anti-PDGFR-α (APA5, ab90967, Abcam), anti-PDGFRβ (APB5, #14-1402-82, Invitrogen), anti-pan-cytokeratin (AE1/AE3, sc-81714, SCBT), anti-FAP (ab53066, Abcam), anti-FSP-1 (S100A4, ABF32, Millipore), FITC anti-CD11b (M1/70, #101206, Biolegend), FITC anti-Gr-1 (RB6-8C5, #108417, Biolegend), and anti-Ly-6C (HK1.4, #128012, Biolegend). DAPI (VECTASHIELD, Vector Laboratories) was used to counterstain the cell nuclei. The stained tissue sections were visualized using an EVOSTM FL Auto 2 Imaging System (Thermo Fisher Scientific) for whole images and a fluorescence confocal microscope (Nikon) for high-resolution images. Quantification was performed on 2–3 sections from at least 3 separate mice using image analysis softwares Celleste (Invitrogen) and ImageJ (NCBI, 1.8.0_112).
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9

Protein Quantification and Western Blot Analysis of Pancreas Tissues

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Pancreas tissues were homogenized on ice in lysis buffer (125 mM tris-HCl [pH 6.8], 4% SDS, 4M urea) with 1× protease inhibitor cocktail (87786, Thermo Fisher Scientific), and supernatant was collected following centrifugation at 10,000g for 20 minutes at 4°C. Protein concentrations were determined using BCA Protein Assay Kit (23225, Pierce Biotechnology). Western blots were then performed as described previously (21 (link)). Densitometry analysis was performed using ImageJ software to quantify protein bands, which were then normalized against loading control GAPDH. The primary antibodies used in this study were anti-COL1A1 (NBP1-30054, Novus Biologicals), anti-fibronectin (NBP1-91258, Novus Biologicals), phospho–c-Jun (ab32385, Abcam), phospho-JNK (AF1205, Novus Biologicals), and anti-GAPDH (MA5-15738, Thermo Fisher Scientific).
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