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6 protocols using anti mouse af546

1

Subcellular Localization of V5-tagged Proteins

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Macrophages were cultured for 6 h or 24 h as described above on glass cover slips, then stained with 100 nM MitoTracker Deep Red (Thermo Fisher Scientific) for 30 min at 37°C, then washed, briefly incubated with 2 μg/mL DAPI (Thermo Fisher Scientific) and then fixed with 4% formaldehyde (SIGMA). In selected experiments, cells were permeabilized and then stained in 0.05% Saponin (SIGMA) and 0.2% BSA with anti-V5 antibody detected with anti-mouse AF546 (all Life Technologies). Cover slips were mounted on slides using ProLong Diamond (Thermo Fisher Scientific) and left to settle at 4°C overnight. LSM 880 Airyscan microscope (Zeiss) was used to acquire confocal images. Confocal images were acquired with ZEN software (Zeiss), deconvolved with HuygensSoftware, and analyzed using Imaris imaging software.
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2

Immunohistochemistry of Murine Liver Tissue

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Livers were embedded in optimal cutting compound and frozen in liquid nitrogen. 12 µm tissues sections were cut and fixed in 4% paraformaldehyde or acetone. Tissues were blocked in serum of the same species as the secondary antibody before incubation in primary antibody for 2 hours at room temperature. Tissues were then incubated in fluorochrome-conjugated secondary antibodies for 1 hour at room temperature prior to counterstaining with DAPI. Stained tissues were visualized using a laser scanning confocal microscope (LSM710, Carl Zeiss) with 10X or 20X lens. The following antibodies were used for immunohistochemistry: anti-Ly6G (1A8) 1:100 (eBioscience), anti-CD146 1:100, anti-CD31 1:100, anti-collagen V 1:200 (ABCAM), anti-FGF2 1:200 (Millipore), anti-CD66b 1:100 (Acris), anti-rabbit Alexafluor-633, anti-mouse AF-546 and anti-rat AF488 (all Life Technologies at 1:250).
For the human FGF2 ELISA on mouse serum we used a commercially available ELISA kit (Biolegend No434311). Serum was diluted 2-fold before addition to the ELISA plate and the protocol was followed as per the manual.
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3

Indirect Staining for FACS Analysis

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For FACS analysis, cells were stained using an indirect staining method. Cells were collected from the flasks (with or without treatment), and were fixed using ice-chilled 70% ethanol at 4 °C. The cells were then washed and incubated with primary antibodies (as mono-staining) overnight at 4 °C at a concentration of 1 µg for HLA-G (Epigentek, USA) and 1.25 µg for PD-L1 (Proteintech, USA) per 100,000 cells. In parallel, the cells were stained with equivalent amount of isotype antibodies (Figure S4) i.e., rabbit polyclonal IgG and mouse monoclone IgG1 antibody (Invitrogen, ThermoFisher Scientific, Waltham, MA, USA). On the following day, the cells were then washed and incubated with secondary antibodies (anti-rabbit AF488 and anti-mouse AF546; Invitrogen) for 2 h. To stain the cells in mitosis, we used MPM2 antibody (Anti-phospho-Ser/Thr-Pro, Cy5 conjugate; Sigma-Aldrich, Saint Quentin Fallavier, France) at concentration of 2 µg per 100,000 cells. The cells were analyzed using 3-Laser Flow cytometer “Gallios” by Beckmann Coulter and the results were analyzed using “Kaluza Analysis 2.1” software. Cell cycle was recorded through DAPI, using Michel H. Fox algorithm (built-in Software).
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4

Immunohistochemical Analysis of Clever-1, CD8, and CD163

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Formalin-fixed paraffin-embedded (FFPE) tissues were stained with Vectastain Elite ABC-HRP rat kit (PK-6104; Vector Laboratories) using rat anti–Clever-1 (clone S2–7/H7) as previously described (24 (link)). CD8 and CD163 staining was performed at Covance according to their validated protocols. For immunofluorescence (IF) analysis, rabbit anti-Granzyme B (PA1–26616; Invitrogen), mouse anti-CD8 (LS-C311966; LSbio), or irrelevant isotype controls and the secondary antibodies anti–rabbit-AF488 (A11034; Life Technologies) and anti–mouse-AF546 (A11030; Invitrogen) were used. The slides were mounted with Prolong Gold containing DAPI (Thermo Fisher).
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5

Immunohistochemical Localization of Steroid Receptors in Murine Brain

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Brain sections from male mice were washed with PBS and blocked for 1 hr at room temperature with 2% bovine serum albumin (BSA) containing 0.3% Triton X-100 in PBS. They were then incubated for 48 hr at 4°C with the following primary antibodies: rabbit anti-AR (1:200; Epitomics) or rabbit anti-ERα (1:5000; Millipore Corp) and goat anti-choline acetyltransferase (ChAT) (1:1000; Millipore Corp) or mouse anti-calcitonin gene-related peptide (CGRP) (1:8000; Abcam, Cambridge, UK). After the primary antibody was removed by rinsing, sections were incubated with secondary antibodies for 1 hr at room temperature. The following secondary antibodies were used for double-staining: anti-rabbit Alexa Fluor (AF) 488 (1:1000; Invitrogen, Grand Island, NY, USA) and anti-goat AF 546 (1:1000; Invitrogen) or anti-mouse AF 546 (1:1000; Invitrogen).
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6

Immunofluorescence Staining of Cellular Proteins

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Cells settled overnight on glass coverslips were washed three times in PBS (pH 7.0) for 5 min after which the cells were fixed in 4% paraformaldehyde for 15 min followed by three washes in PBS as above. The cells were permeabilized in permeabilization buffer (PBS containing 5% goat serum, 10% sucrose and 1% Triton X-100) for 15 min. The cells were incubated with anti-p40 [6 (link)] (biotin-linked antibody 1:1000), anti-dsRNA (clone K1 mouse 1:1000; Product Number 10020500 English & Scientific Consulting) and anti-CP anti-serum [6 (link)] (rabbit 1:1000) in permeabilization buffer for 90 min then incubated with 20 μg mL-1 anti-biotin AF488 (Invitrogen; S11223), anti-mouse AF546 (Invitrogen; A11003) and anti-rabbit AF633 (Invitrogen; A21070) in permeabilization buffer for 30 min. Cells were washed thrice, for 15 mins. In the second wash, 1 μg mL-1 DAPI was added to stain the nuclei of the cells. Cells were mounted using fluorescent mounting medium (DAKO, S3023). Cells were imaged using a Zeiss LSM780 laser scanning confocal microscope using the x63, 0.75 NA objective. All images were acquired using the same exposure and detector settings for each spectral channel. The Zen 2011 Blue software was used to acquire images from the Zeiss LSM780 microscope and to perform image overlays.
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