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5 protocols using ab125078

1

Western Blot Analysis of RMS Cell Lines

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Total cell lysates from human RMS cell lines were obtained following lysis in 2%SDS lysis buffer supplemented with protease inhibitors (Santa Cruz Biotechnology, Dallas, Texas). Samples were boiled, vortexed and homogenized through a 28G syringe. 20–40 μg of protein was loaded in 4–20% Mini-Protean TGX gels (Biorad, Hercules, CA) and transferred onto PVDF membranes. Western blot analysis used primary antibodies: rabbit a-MYF5 (1:5000, Abcam ab125078, Cambridge, MA), mouse a-MYOD1 (1:1000, Abcam ab16148, Danvers, MA), rabbit a-MYOD1 (1:1000, Abcam ab133627), rabbit a-GAPDH (1:2000, Cell Signaling 2118), mouse a-TUBULIN (1:2500, Abcam ab4074) and secondary antibodies: HRP anti-rabbit (1:2000, Cell Signaling 7074) or HRP anti-mouse (1:3000, GE Healthcare NA93IV, Marlborough, MA). Blocking was completed using 5% skim milk/TBST. Membranes were developed using an ECL reagent (Western Lightening Plus-ECL, Perkin Elmer, Waltham, MA or sensitive SuperSignal West phemto Maximum Sensitivity Substrate, Thermo Scientific, Waltham, MA).
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2

Optimizing Myogenesis through siRNA Screening

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Gene-specific smart-pool or control siRNAs (Dharmacon, GE Life Sciences, Marlborough, MA) (0.01 μM) were reverse-transfected into cells using RNAiMax lipofectamine transfection reagent (Life Technologies, Waltham, MA) in flat clear bottom 96 well plates. Cells were then fixed at 72 hr post transfection in 4% PFA/PBS, washed in x1 PBS and permeabilized in 0.5% TritonX-100/PBS. Antibodies used were rabbit a-Myf5 (1:400, Abcam ab125078) and mouse a-MyoD (1:200, Abcam ab16148) in 2% goat serum/PBS, Alexa 488 goat anti-mouse (1:1000, Invitrogen A11029) and Alexa 594 goat anti-rabbit (1:1000 Invitrogen A11037). Cells were incubated with DAPI (1 μg/ml), and imaged at 200x using a LSM710 Zeiss Laser scanning confocal microscope. Images were processed in ImageJ and Adobe Photoshop.
For EdU and AnnexinV assays, gene-specific smart-pool or control siRNAs (Dharmacon, GE Life Sciences) (5 μM) were added to Rh18, RD, 381T, RMS559 and Rh3 cells in a 6-well plate and incubated for 48–96 hr prior to analysis.
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3

Mitochondrial Protein Expression Analysis

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Primary antibodies used against proteins were the following: α-tubulin (sc-23948, Santa Cruz, Texas, USA); ATG7 (8558, Cell signaling, Danvers, MA); Beclin-1 (4445, Cell signaling); CI-20 (NDUFB8) (ab110242, Abcam, Cambridge, UK); CII-30 (SDHB) (ab14714, Abcam); CIII-Core II (UQCRC2) (ab14745, Abcam); CIV-I (MTCO1) (ab14705, Abcam); CV-a (ATP5A) (ab14748, Abcam); cytochrome C (ab110252, Abcam); LC3 (PD014, Medical & Biological Laboratories Co., LDT, Japan); MYF5 (ab125078, Abcam); MYOD (sc-760, Santa Cruz); Myogenin (ab1835, Abcam); p16 lnK4a (1661, Santa Cruz Biotechnology); PAX3 (MAB2457, R&D System, MN, USA); PAX7 (ab199010, Abcam); phospho-SHC/p66 (566807, Calbiochem); PGC-1α (ab3242, Millipore); porin (MSA03) (ab14734, Abcam); SHC (610879, BD Trasduction Laboratories); SQSTM1/p62 (H00008878-M01, Abnova, Taipe, Taiwan); TFAM (PA5-29571, Thermo Fisher, USA) and TOM20 (5490, Cell Signallin).
Secondary antibodies used were the following: goat anti-rabbit IgG secondary antibody (7074 S, Cell Signaling Technology); horse anti-mouse IgG secondary antibody (7076 S, Cell Signaling Technology).
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4

Immunofluorescence Analysis of Myogenic Markers

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RH30 cells or myoblasts were fixed in 4% formaldehyde (POCH) in PBS, permeabilized in 0.1% TritonX-100 (Sigma-Aldrich), blocked in 1% bovine serum albumin (BSA, Sigma-Aldrich), incubated with rabbit anti-MYF5 monoclonal antibody (ab125078, Abcam) or anti-fast myosin skeletal heavy chain antibody (MyHC, MY-32, ab51263, Abcam), and then incubated with secondary goat anti-rabbit or anti-mouse antibodies conjugated with Alexa Fluor 555 (Life Technologies) and sometimes with Hoechst. The stained slides were mounted in Vectashield mounting medium with DAPI (Vector Laboratories Inc. Burlingame, CA, USA) or Dako Fluorescence Mounting Medium (Dako, Denmark). For visualization of morphology, the cells were stained with Wright’s dye (Sigma-Aldrich). Labeling was assessed by fluorescence microscopy using an Olympus BX51 or IX70 microscope (Olympus Corporation, Tokyo, Japan) and Olympus XC50 camera with cellSens Dimension software (both from Olympus). The images were processed using cellSens Dimension software or ImageJ software (National Institute of Health, USA). To quantify RH30 cells and myoblasts fusion, we calculated the fusion index by expressing the number of nuclei within MyHC-positive cells with ≥2 nuclei as a percentage of the total nuclei.
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5

Quantitative Muscle Fiber Characterization

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Primary antibodies: Myh2 (3 μg/ml, Developmental Studies Hybridoma Bank, sc-71, AB_2147165), Myh4 (3 μg/ml, Developmental Studies Hybridoma Bank, BF-F3, AB_2266724), Myh7 (3 μg/ml, Developmental Studies Hybridoma Bank, BA-F8, AB_10572253), Desmin (1:20. Thermo Fisher Scientific, MA5-13259), Cox5a (1:1000, Abcam, ab110262, AB_10861723), Glut1 (1:200, Abcam, ab652, AB_305540), Myf5 (1:10,000, Abcam, ab125078, AB_10975611), Fasn (1:1000, Abcam, ab22759, AB_732316). Secondary antibodies: goat-anti-mouse IgG2b Alexa 350 (1:200, Thermo Fisher A-21140, AB_2535777), goat-anti-mouse IgG1 Alexa 488 (1:200, Thermo Fisher A-21121, AB_2535764), goat-anti-mouse IgM Alexa 555 (1:200, Thermo Fisher A-21426, AB_2535847), IRDye 800CW goat anti-mouse IgG Secondary Antibody (1:10,000, Licor, 926-32210, AB_621842), IRDye 800CW goat anti-rabbit IgG Secondary Antibody (1:10,000, Licor, 926-32211, AB_621843), Anti-rabbit IgG HRP-linked Antibody (1:200, Cell Signaling Technology, 7074P, AB_2099233).
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