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5 protocols using alexa fluor conjugated secondary antibodies

1

Immunofluorescence Assay for Cilia Analysis

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For immunofluorescence (IF) assays, cells were counted and seeded at 5×104 cells on sterile glass coverslips. For assessing cilia, MEFs were serum-starved for 48 hours prior to analysis. Where indicated, drugs were added 24 hours prior to fixation. Cells were fixed in 4% PFA (Sigma Aldrich, St Louis, USA) or ice-cold Methanol (100%) for the centrosomal protein in PBS for 20 minutes at RT and permeabilized in 0.1% TritonX-100 (Sigma Aldrich) for 10 minutes or 90 seconds (cilia experiments) and blocked in 3% or 1% (cilia experiments) bovine serum albumin (BSA; Sigma Aldrich) in PBS for 1 hour in a humidified chamber at RT. Coverslips were washed and incubated with Alexa-fluor-conjugated secondary antibodies (Sigma Aldrich) diluted in 3 or 1% BSA (1:1000) for 30 minutes at 37°C in a humidified chamber in the dark. Coverslips were mounted using Prolong gold anti-fade mounting medium (Life Technologies). Imaging was performed on a DeltaVision personal DV deconvolution microscope and DeltaVision Ultra (super-resolution) (Applied Precision, GE Healthcare, Issaquah, WA) and analyzed using the GE DeltaVision software package. Automated counting was performed using script modules of Fiji-ImageJ software (Java3D, Minnesota, USA).
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2

Immunolabeling of Embryonic Patterning Proteins

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At exposure termination, embryos were dechorionated using 100 mg/L pronase, fixed overnight in 4% paraformaldehyde (PFA) in 1X phosphate buffered saline (PBS), and then stored in PBS at 4°C. Fixed embryos were then incubated with anti phospho SMAD 1/5/9 IgG (1:100 dilution, Cell Signaling), anti Tbx16 IgG2 (anti-VegT, 1:10, Zebrafish International Resource Center), or anti-zn-8 IgG1 (1:20, Developmental Studies Hybridoma Bank, University of Iowa) following previously described protocols.26 (link) Embryos were incubated with IgG-, IgG2-, or IgG1-specific Alexa Fluor conjugated secondary antibodies (Sigma) and imaged at 8X magnification using a Leica MZ10 F stereomicroscope equipped with a GFP filter and DMC2900 camera.
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3

Immunofluorescence Imaging of Transfected HEK293 Cells

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HEK293 cells were transfected with different plasmid DNAs in the indicated groups. A total of 2.5×10
4 cells/mL were cultured on slips at 37°C to 50%–60% confluence. The cells were exposed to 4% paraformaldehyde at a temperature of 4°C for 30 min and subsequently incubated in a blocking solution consisting of PBS with 10% (w/v) normal goat serum for 30 min at room temperature. Fixed cells were incubated with primary antibodies diluted in PBS with 1% BSA overnight at 4°C. Detection of the primary antibodies was performed using Alexa Fluor-conjugated secondary antibodies (Sigma-Aldrich). Confocal microscopy was employed to record images with a Zeiss LSM 510 confocal microscope (Carl Zeiss, Oberkochen, Germany). All images were then analysed using ImageJ (NIH, Bethesda, USA).
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4

Immunofluorescence Assay of Wound Skin Tissues

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For immunofluorescence assay, sections of paraffin-embedded wound skin tissues from WT or Mfge8−/− mice were deparaffinized and subjected to antigen retrieval. After permeabilized with 0.03% Triton X-100, and blocked in 5% BSA, anti-IL-1β (Abcam), anti-caspase-1 p20 (active caspase-1, Santa Cruz #SC-1218, Cell Signaling Technology, MA, USA), anti-CD31 (Abcam ab28364), and anti-α-smooth muscle actin (α-SMA) antibodies (R&D Systems MAB1420) were incubated overnight at 4°C. Secondary Alexa Flour 488 or Alexa Flour 647-conjugated antibodies (Abcam) were added for 2 h and then stained with DAPI (Sigma-Aldrich). For NETs assay, skin tissues sections were stained using anti-CitrH3 and anti-MPO antibodies (Abcam), followed by Alexa Fluor-conjugated secondary antibodies, and DAPI (Sigma-Aldrich). For P2X7 receptor detection, skin tissues were incubated with anti-P2X7 receptor antibody (Abcam ab195356), and following with Alexa Flour 647-conjugated antibodies. Sections (×200 or ×400) were imaged with Olympus BX51 microscope and Qimaging camera, and more than five fields per section were obtained.
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5

Immunocytochemistry Protocol for Cell Labeling

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For immunocytochemistry (ICC), cells were fixed with 4% paraformaldehyde (PFA) 15 min on ice, washed and incubated in blocking solution (1% Bovine serum albumin (BSA), 0,25% Triton X-100 (0,25% Tx) in 0.1M PBS) for 1 h at RT. Primary antibody (βIII tubulin (Tuj1, 1:1000, BioLegend), c-Fos (1:200, Cell Signaling), ChR2 (1:500, Progen), mCherry (1:500, Abcam) GFP (1:500, ThermoFisher Scientific) was added to the cells in blocking solution and incubated O/N at 4 °C. After washing, the cells were incubated 1 h at RT with Alexa-Fluor-conjugated secondary antibodies (568 goat and 488 goat and donkey) and Hoechst (Sigma Aldrich).
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