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83 protocols using fluorescent brightener 28

1

Visualizing Wheat Integument Cell Structure

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To measure the number and area of outer integument/seed coat cells, the ovaries of the transgenic wheat plants and WT were collected and transected with frozen slicer (POLAR DM; Sakura, Tokyo, Japan), the grains at 15 DAF were rapidly frozen in liquid nitrogen and then cross‐cut. The sliced samples were stained with 0.01% solution of Fluorescent Brightener 28 (Sigma, Hongkong, China) for 10 min, and photographed under fluorescent microscope (Olympus, System Microscope BX53) to determine the number and the size of the outermost layer cells of integument/seed coat. At least 10 ovaries or grains from individual plants of each transgenic line or WT were analysed.
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2

Functional Complementation Assay for BcsQ and BcsR Variants

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To test for the functional effects of BcsQ and BcsR point mutants or truncated variants, we resorted to a functional complementation assay as established previously (4 (link)). First, chemically competent cells were prepared from E. coli 1094 ΔbcsQ or ΔbcsR deletion strains (4 (link)). These were then transformed with low-copy pAM-238 plasmids carrying wild-type or mutant bcsQ or bcsR genes and plated on LB-agar plates (Miller) supplemented with the appropriate antibiotics [streptomycin (60 μg/ml) and chloramphenicol (15 μg/ml)]. Single colonies were inoculated in 5 ml of LB medium with antibiotics and left to grow overnight at 37°C and agitation. On the following morning, 5 μl of the cultures was spotted onto low-salt LB-agar plates [NaCl (1.5 g/liter)] supplemented with the antibiotics, 0.1 mM IPTG, and 0.02% calcofluor (Fluorescent Brightener 28, Sigma-Aldrich). The spots were allowed to air-dry, and the plates were incubated at 30°C. After 24 hours, the plates were photographed under brief illumination with long-wave ultraviolet light (365 nm).
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3

Microscopic Imaging of C. neoformans

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For microscopy experiments, overnight cultures of C. neoformans strains H99 or H99Nop1-GFP were diluted to 1 × 106 CFU/ml in 3 ml YPD with 2 μg/ml PIK-75 or DMSO (0.02%) and incubated for 24 h at 37°C. Cells were washed three times in sterile PBS, stained with 20 μg/ml CFW in PBS (Fluorescent brightener 28, Sigma, F3543), and incubated for 20 min at RT in the dark. Cells were imaged on a Nikon epifluorescence microscope with a Cool Snap HQ2 camera and Nikon Elements image acquisition and analysis software. Images were processed in Photoshop only to increase ease of viewing. All images were adjusted equally.
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4

Fungal Growth and Appressorium Development

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Either the mycelia blocks of Guy11 or Guy11 with different fluorescent markers were inoculated into a conical flask of 75 mL CM medium and oscillated (160 rpm) at 28°C for 24 h. Then, 25 mL of the cell-free supernatant, with a concentration of cultures with OD600 values of 1.0–1.2, was added to the treatment group. Mycelial growth was observed at different times under a microscope.
For the fluorescence observation of appressorium development, 20 μL of the mixture of the crude lysate SUP and conidia suspension (v\v=1:1) was dropped onto the surface of the hydrophobic glass coverslips and incubated at 28°C to induce appressorium formation. The germination tubes and appressoria were intermittently observed under a fluorescence microscope (Olympus DM5000B) after 2, 4, 6, 8, and 24 h of incubation.
Calcofluor white (CFW) staining was performed using fluorescent brightener 28 (10 μg/mL; Sigma-Aldrich) for hyphal microscopy.
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5

Quantifying Yeast Bud Scar Formation

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Cells were prepared as described in the “High-Life Experiments” section above, except diluted to 100 cells/μL prior to loading on a plate. After 0, 8, and 24 hours, all cells from a single plate were transferred to a 50 mL conical tube, and pelleted at 1000xg for 3 minutes. The supernatant was aspirated, and the cells were resuspended in 900 μL of sterile water and transferred to a 1.5 mL tube. 100 μL of 1 mg/mL Fluorescent Brightener 28 (Sigma F3543) in water was added, and the solution was incubated at room temperature in the dark for 5 minutes. Next, the solution was pelleted at 13000xg for 30 seconds, the supernatant was aspirated, and the cells were resuspended in 1 mL sterile water. This wash step was then repeated once. Finally, the cells were resuspended in 10 μL sterile water, and stored on ice in the dark until imaged. Z-stack brightfield and fluorescent images with 0.2 μm spacing were acquired for each sample on a confocal microscope. For green-fluorescent mother cells, the number of bud scars in the blue fluorescent channel were counted manually.
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6

Mycelium and Morphology Analysis

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The mycelia and MS morphologies were observed using digital camera and microscope. After a 6-day incubation, the biomass was quantified in AM and MM cultures. Furthermore, the MS yield was examined in the AM culture. The biomass and MS yields were determined according to previous methods12 . Meanwhile, a wet-mount of 72-h and 144-h cultures in 0.1% Calcofluor (Fluorescent Brightener 28, Sigma) were viewed and photographed using a fluorescent attachment (Nikon Ni, Nikon Inc., Japan).
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7

Detection of Exopolysaccharides in S. maltophilia Biofilms

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The presence of exopolysaccharides in the matrix of S. maltophilia biofilms was detected as previously described (Passerini de Rossi et al., 2009 (link)). Sterile microscope borosilicate coverslips were aseptically placed into Petri plates along with 15 ml TSB inoculated with S. maltophilia strains (106 CFU/ml) and incubated for 48 h. The coverslips were removed, rinsed with distilled water and stained in the dark with 0.1% calcofluor white dye (Fluorescent brightener 28, Sigma-Aldrich) for 10 min. Then, coverslips were rinsed, mounted on the microscope slides and examined with an Olympus BX50-DP73 microscope (Olympus, New York, USA). Images were obtained with a 40X lens objective. Calcofluor emissions were detected using a DAPI filter (excitation/emission wavelengths: 330–385/420 nm). The polysaccharide matrix fluoresces blue under the DAPI light filter.
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8

Quantitative 3D Cell Imaging and Analysis

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Yeast cells collected by centrifugation (4000 g, 5 min,) and suspended in 200 μL phosphate buffered saline were stained with 10 μg/mL concanavalin A–Alexa Fluor 594 conjugate (Molecular Probes, Eugene, OR) and 20 μg/mL Fluorescent Brightener 28 (Sigma) for 25 min in the dark. Then, cells were washed twice in PBS and fixed with 4% paraformaldehyde for 30 min. Fluorescence-stained sections were examined under a Nikon A1 RSI microscope with a magnification of ×60 at constant Z-steps of 1 μm. The laser confocal system comprised a 65-mW multi-Ar laser. Three-dimensional (3D) images were processed with NIS elements version 3.21 (Nikon Instruments Inc.) and Volocity 3D image analysis software version 6.01 (PerkinElmer). Cell size measurements and total cell volume were determined using ImageJ software.
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9

Cell Wall Integrity Assay for ΔperA

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To test the cell wall integrity of ΔperA, three cell wall perturbing agents, Calcofluor white (CFW, Fluorescent brightener 28, Sigma F3543), Congo red (CR, Sigma C6277), and caspofungin (Cancidas, MERCK & CO., INC.) were added to 25 mL of GMM plates in appropriate concentrations. CFW stock solution was made in 10 mg ml−1 in 25 mM NaOH solution, and added to GMM at 5 μg ml−1 for the final concentration. CR stock solution was made at 10 mg ml−1 in sterile H2O and added to GMM at 0.25 mg ml−1 for the final concentration. Caspofungin stock solution (5 mg ml−1 in PBS) was added to GMM to make 0.5 μg ml−1 for the final concentration. Conidia in 5 μl of sterile H2O were inoculated onto GMM by serial dilutions and cultured at 37 °C for 2 days.
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10

Conidial Morphology and Cell Wall Analysis

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To examine the morphology of the conidial heads, PDA medium was inoculated with spores and incubated at 37°C for 24 h. The samples were then stained with Fluorescent Brightener 28 (Sigma, USA) and observed using the BX53 fluorescence microscope (Olympus, Japan). Additionally, potato dextrose broth (PDB) medium was inoculated with spores (1 × 105 CFU) and incubated at 37°C for 12 h. The samples were then stained with Fluorescent Brightener 28 and observed using the IX71 fluorescence microscope (Olympus). The samples for transmission electron microscopy (TEM) were prepared following the method described by Weichert et al. (38 (link)). ImageJ was used to measure the thickness of cell wall. The length of three random points on the cell wall was measured, and the average of these values was calculated as a result of cell wall thickness (39 (link)).
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