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Alexa fluor 488 goat anti rat igg

Manufactured by Thermo Fisher Scientific
Sourced in United States

Alexa Fluor 488 goat anti-rat IgG is a fluorescent secondary antibody used for the detection and localization of rat immunoglobulin G (IgG) in various applications such as immunofluorescence, flow cytometry, and Western blotting.

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76 protocols using alexa fluor 488 goat anti rat igg

1

Antibody Panel for Cellular Signaling

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Rat monoclonal anti‐large T antigen (LT; provided by B. E. Griffin, Imperial College of Science, Technology and Medicine at St. Mary's, London, UK), rabbit polyclonal antibody against GAPDH (Sigma‐Aldrich), rabbit polyclonal anti‐phospho‐IRF3 (Ser369(4D4G); Cell Signaling Technology, Danvers, MA, USA), rabbit polyclonal anti‐phospho‐IRF3 (Ser369 (D601M); Cell Signaling Technology), rabbit polyclonal anti‐phospho‐STING‐Ser365‐D8F4W (Cell Signaling Technology), rabbit polyclonal anti‐phospho‐STING (Ser365(D1C4T); Cell Signaling Technology), rabbit polyclonal against IFI16/p204 (Elabscience, Houston, TX, USA), rabbit polyclonal anti STING/anti MPYS (Sigma), rabbit monoclonal anti cGAS (Cell Signaling Technology), polyclonal rabbit anti‐biotin antibody (A150; Bethyl Laboratories, Montgomery, TX USA), rabbit IgG‐HRP (Bio‐Rad), goat anti‐rat IgG‐HRP (Bio‐Rad), Cy3® goat anti‐rabbit IgG (Thermo Fisher Scientific), Alexa Fluor® 488 goat anti‐rabbit IgG (Thermo Fisher Scientific), Alexa Fluor® 488 goat anti‐rat IgG (Thermo Fisher Scientific), Alexa Fluor® 488 goat anti‐rabbit (Cell Signaling Technology), and Alexa Fluor® 647 goat anti‐rat IgG (Thermo Fisher Scientific).
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2

Immunofluorescence Staining of Skin Samples

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Skin samples were fixed in 4% paraformaldehyde (PFA) in PBS overnight and submitted to the Johns Hopkins Oncology Tissue Services where they were embedded in paraffin, sliced into 4 μm sections, mounted and stained with hematoxylin and eosin (H&E). Gram stain was performed using the Gram Staining Kit (Sigma Aldrich) according to manufacturer’s instructions. For immunofluorescence labeling, paraffin sections were deparaffinized, underwent heat-mediated antigen retrieval in either Trilogy buffer (Cell Marque) or Tris-EDTA buffer (10mM Tris Base, 1 mM EDTA Solution, 0.05% Tween 20, pH 9.0), blocked in blocking buffer (PBS with 10% goat serum) for 1 hour at room temperature, and then incubated at 4° C overnight with 1 μg/mL rabbit anti-mBD14, rat anti-mouse Ly6G or rabbit anti-S.aureus primary antibodies in blocking buffer. The next day, sections were incubated for 1 hour at room temperature with 1 μg/mL of either AlexaFluor-488 goat anti-rabbit IgG (ThermoFisher, for mBD14 staining), AlexaFluor-488 goat anti-rat IgG (ThermoFisher, for Ly6G staining) or AlexaFluor-594 goat anti-rabbit IgG (ThermoFisher, for S. aureus staining). All slides were washed and mounted with Fluoromount-G with DAPI (ThermoFisher). All microscopy were performed on a Keyence BZ-X710 microscope (Keyence) and analyzed with Image J (National Institutes of Health Research Services Branch).
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3

Quantifying Cell Proliferation by BrdU Incorporation

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Cells were grown on coverslips, and BrdU (Sigma-Aldrich B5002) was added to the culture media at the final concentration of 10 µg/ml for 30 min. Cells were fixed in 4% paraformaldehyde and permeabilized with 0.3% Triton X-100. After blocking with 10% goat serum, the coverslips were incubated with rat anti-BrdU (1:200, ab6326, Abcam, Cambridge, MA) and then with the secondary antibody Alexa Fluor 488 goat anti-rat IgG (H + L, 1:800, Thermo Fisher Scientific A-11006). Nuclei were stained with DAPI. Fluorescent images were captured with a Nikon microscope Eclipse 80i (Nikon Instruments Inc., Melville, NY). DAPI- and BrdU-positive cells were counted from randomly selected 200x fields from three independent experiments, and the percentage of BrdU-positive cells was determined.
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4

Quantitative Quadriceps Muscle Analysis

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Quadriceps muscles from each mouse line were cryopreserved in melting isopentane for 30 s and 7-µm transverse cryosections were obtained (Leica CM3050 S). For immunofluorescence, sections were fixed in acetone at -20°C for 15 min and subsequently washed three times in PBS before being blocked in 5% goat serum for 30 mins at RT. Sections were incubated for >1 h in primary antibody (rat monoclonal anti-Laminin 1:500; Sigma, L06631) at RT. Slides were then washed three times in PBS before incubation with Alexa Fluor 488 goat anti-rat IgG (1:1000; ThermoFisher, A-11006) secondary for 30 mins at RT. Sections were finally washed three times in PBS and mounted in ProLong Gold Antifade with 4′,6- diamidino-2-phenylindole (DAPI) to visualize nuclei (ThermoFisher Scientific). Images were acquired on a Leica DM5500 B microscope equipped with a Leica HC PLAN APO 10× objective and stitched together with LASX software (Leica) to allow visualization of the entire quadriceps. SMASH—semi-automatic muscle analysis using segmentation of histology software—was used to analyze and quantify centrally located nuclei, fiber number, and fiber size (Smith and Barton, 2014 ).
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5

Immunostaining of Testicular Tissues

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Frozen sections prepared from testes were used for immunostaining51 (link). Anti-EGFP rat monoclonal antibody (1:1000; Nacalai Tesque, Kyoto, Japan) and anti-SOX9 rabbit antiserum52 (link) (1:2000) were used as the primary antibodies, and ALEXA Fluor 488 goat anti-rat IgG and ALEXA Fluor 555 goat anti-rabbit IgG (1:500; Thermo Fisher Scientific, Waltham, MA, USA) were used as the secondary antibodies. DAPI (4′6′-diamidino-2-phenylindole) was used for nuclear staining. The specimens were observed using a BZ-9000 microscope (Keyence, Osaka, Japan).
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6

Enteroid Immunofluorescence Staining Protocol

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For enteroid immunofluorescence staining, Matrigel was mechanically disrupted by pipetting, and enteroids were transferred onto Lab-TeKTM II Chamber Slide (Thermo Fisher Scientific). Enteroids were fixed with 4% paraformaldehyde, followed by permeabilization and blocking with 0.1% Triton X-100 and 5% goat serum in PBS for 30 min at room temperature. Primary antibody reaction was performed with 10 µg/mL Rat monoclonal anti-cryprdin-1 (clone: 77-R63, produced by our laboratory) and 5 µg/mL mouse monoclonal anti-E-cadherin (clone: 36/E-Cadherin, BD Transduction Laboratories) diluted by 1% Triton X-100 and 10% Block Ace (DS Pharma Biomedical) in PBS (antibody dilution buffer) for 2 h at room temperature. Enteroids incubated with Alexa Fluor 488 goat anti-Rat IgG and Alexa Fluor 594 goat anti-Mouse IgG (dilution 1:400, Thermo Fisher Scientific) diluted by antibody dilution buffer for 1 h at room temperature. Enteroids were also counterstained with 5 µg/mL staining 4′6-Diamidino-2-phenylindole (DAPI, Thermo Fisher Scientific) for 5 min at room temperature to visualize nuclei and were mounted with Aqua Poly/Mount (Polysciences). Pictures were taken using a confocal microscope (LSM 510 META, Carl Zeiss).
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7

Immunofluorescence Staining of Mouse Vasculature

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Tissue sections were treated with 0.25% Triton X-100 for 10 min, washed with PBS 3 times, blocked with 1% bovine serum albumin for 1 h, and incubated with a rat anti-mouse CD31 primary antibody (Catalog number: 553370, BD Biosciences, San Jose, CA), rabbit anti-mouse α-SMA antibody (Product code: ab5694, Abcam, Cambridge, MA), or a rat anti-mouse ER-TR7 antibody (Catalog number: sc-73355, Santa Cruz Biotechnology, Dallas, TX) at 4 °C overnight. Secondary antibodies were Alexa Fluor 488 goat anti-rat IgG (Catalog number: A-11006) and Alexa Fluor 488 goat anti-rabbit IgG (Catalog number: A-11034)(Thermo Fisher Scientific, Rockford, IL). After washing with PBS, sections were mounted in DAPI-containing mounting medium (Vector Laboratories, Burlingame, CA) and examined under a Zeiss LSM 710 NLO confocal microscope.
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8

Measuring DNA Replication Dynamics

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Cells were plated on poly-lysine coated coverslips and allowed to adhere for 24–48 hours. Cell were then treated with 1 µm campothecin for indicated times, and CldU (Fisher Scientific) was added to the medium at a final concentration of 25 μm, Including no treatment controls. After incubation with CldU for 1 h, cells were fixed with 70% ethanol at room temperature for 20 minutes. Next the samples were denatured with 3 M HCL and allowed to shake for 30 minutes at room temperature. Samples were washed with PBS and blocked with 3% BSA prepared in PBST and allowed to shake for 30 minutes at room temperature. Samples were incubated overnight on a shaker at 4 °C with primary antibody (Rat Anti- BrdU, BioRad). Following a wash with PBST, samples were incubated with secondary antibody (Alexa Fluor 488 goat anti-Rat IgG, Thermo Fisher) covered at room temperature on the shaker for 30 minutes. Samples were washed and stained for 5 minutes with DAPI (1 µg/ml water, Sigma) on the shaker. Coverslips were then mounted to slides for visualization using mounting media (ProLong Diamond Anti-fade mountant, Thermo Fisher). Slides were imaged on Olympus BX61 upright fluorescent microscope and images were analyzed using ImageJ.
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9

Immunofluorescence and Western Blot Antibodies

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Mouse monoclonal anti-VP2/3, rabbit polyclonal anti-VP1 antibody, (produced in our laboratory), mouse monoclonal anti-VP1, rat monoclonal anti-large T antigen (LT) (provided by B. E. Griffin, Imperial College of Science, Technology and Medicine at St. Mary’s, London, UK), mouse monoclonal anti-importin β1 antibody (Fisher Scientific), rabbit anti-importin β1 antibody (Bioss Antibodies, Woburn, MA, USA), normal mouse IgG (Upstate Biotechnology, Lake Placid, NY, USA), normal rabbit IgG (Upstate Biotechnology), Alexa Fluor® 488 donkey anti-mouse IgG (Thermo Fisher Scientific), Alexa Fluor® 488 goat anti-rat IgG (Thermo Fisher Scientific), Alexa Fluor® 546 donkey anti-rabbit IgG (Thermo Fisher Scientific), goat anti-rabbit IgG-HRP (Bio-Rad), and goat anti-mouse IgG-HRP (Bio-Rad).
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10

Immunofluorescence Analysis of Muscle Fibers

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Frozen muscle sections of 8 μm were prepared from quadriceps of 8-week-old male WT, mdx and mdx/ASC−/− mice. Immunofluorescence staining was performed as described previously24 (link). In brief, the slides were fixed with 4% paraformaldehyde for 15 minutes at room temperature and washed with PBS before blocked with 5% BSA for 1 hour. The slides were incubated with primary antibodies against eMyHC (F1.652, Developmental Studies Hybridoma Bank, University of Iowa, IA) and laminin α2 (4H8/2, Alexis, San Diego, CA) at 4 °C overnight. After that, the slides were washed with PBS and incubated with secondary antibodies (Alexa Fluor 488 goat anti-rat IgG, Invitrogen, Carlsbad, CA or Alexa Fluor 594 goat anti-mouse IgG, Invitrogen) for 1h at room temperature. The slides were sealed with VECTASHIELD Antifade Mounting Medium with DAPI (vector laboratory, Burlingame, CA). Embryonic-MyHC-positive muscle fibers were counted and expressed as percentage of total number of positive fibers over total number of fibers in 10 fields. All images were taken under a Nikon Ti-E fluorescence microscope, magnification, X200 (Nikon, Melville, NY).
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