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63 protocols using dp72 ccd camera

1

Visualizing AgNP-induced nuclear changes in HT22 cells

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Cell morphology was monitored using an Olympus BX71 inverted microscope equipped with a DP72 CCD camera and a computer image analysis system CellB. Intracellular localization of AgNPs after 48-h treatment and after AgNP removal was evaluated using Nomarski microscopy. To analyze AgNP-mediated changes in nucleus, HT22 cells were fixed [32 (link)] and DNA was visualized using Hoechst 33342 staining. F-actin was stained using Alexa Fluor® 488 Phalloidin (a high-affinity filamentous actin, F-actin, probe conjugated to green fluorescent Alexa Fluor® 488 dye) according to manufacturer’s instructions (Life Technologies). Additionally, lamin B1 was immunodetected using lamin B1 antibody (1:100, Life Technologies) and secondary antibody conjugated with Texas red (1:1000, Life Technologies). Digital cell images were captured with an Olympus BX61 fluorescence microscope equipped with a DP72 CCD camera and Olympus CellF software. To analyze nuclear lamin B1 content, ImageJ software http://rsbweb.nih.gov/ij/ was used. We evaluated the integrated fluorescence density (red channel), which is the sum of all pixel values within the marked area of each nucleus analyzed and equivalent to the product of area and mean gray value. The integrated fluorescence density is presented in relative fluorescence units (RFUs). A total of 2000 cells were analyzed.
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2

Dual-Color FISH Chromosome Analysis

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A denaturation mixture in volume 25 µL containing 12.5 µL 100% formamide, 5 µL 50% dextran sulphate, 2.5 µL 20× SSC, 3 µL water, and with 1 µL of each probe (26S, 5S) in a final concentration of 100 ng per used volume was denatured at 96 °C for 10 min, then rapidly cooled for 2 min. The mixture was applied onto a chosen slide and co-denatured on a hot plate at 80 °C for 2 min, then incubated overnight at 37 °C in a humid chamber box. Post-hybridization washing was carried out at 42 °C with the following steps: 2× SSC twice for 5 min, 10% formamide in 0.1× SSC twice for 5 min, 2× SSC for 5 min, and 4× SSC with 0.05% Tween-20 for 5 min. Biotin and digoxigenin-labelled probes were immunodetected using streptavidin-Cy3 (GE Healthcare, Buckinghamshire, United Kingdom; 1:750 dilution) and anti-DIG-FITC (Roche; 1:250 dilution) antibodies, respectively. Chromosomes were counterstained with 4′,6-diamidino-2-phenylindole (DAPI) in Vectashield (Vector Laboratories, Burlingame, CA, USA).
Images were captured using an Olympus BX 51, Olympus, Tokyo, Japan fluorescence microscope equipped with an Olympus DP72 CCD camera. Three greyscale images of each mitosis event were taken, and images were pseudocoloured using Adobe Photoshop CS6 software (chromosomes—blue, 26S rDNA signals—green, 5S rDNA signals—red).
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3

Measuring Candida Cell Size

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Digital images of Candida cells were captured using an Olympus BX61 fluorescence microscope equipped with a DP72 CCD camera and Olympus CellF software (Olympus,Warsaw, Poland). ImageJ software (http://rsbweb.nih.gov/ij/) was used to analyze the cell size. Cell size was expressed as arbitrary units [a.u.].
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4

Kinetics of Growth and Viability Assay

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For the kinetics of growth assay (Lewinska et al. 2011 (link)), cells at the logarithmic phase of growth were washed, diluted, suspended in YPD medium, and cultured at 30 °C. Their growth was monitored turbidimetrically at 600 nm in a microplate reader every 2 h during a 10-h period. Cell viability was estimated with a LIVE/DEAD® Yeast Viability Kit (Thermo Fisher Scientific, Poland) using the standard protocol according to the manufacturer’s instructions as described elsewhere (Lewinska et al. 2014a (link)). Briefly, cells at the logarithmic phase of growth were washed and stained with a mixture of FUN® 1 and Calcofluor® White M2R and inspected under an Olympus BX61 fluorescence microscope equipped with a DP72 CCD camera and Olympus CellF software. Typically, a total of 200 cells were used for the analysis.
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5

Karyotyping Metaphase Chromosomes

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Metaphase chromosomes were obtained from kidney cells, after in
vivo
treatment with colchicine and conventional air-drying
preparation (Bertollo et al.,
2015
), and the chromosomal preparations in slides were submitted to
conventional Giemsa staining 5% in phosphate buffer (pH = 6.8). Constitutive
heterochromatin was detected by the C-banding method (Sumner, 1972 (link)). The images were captured with a microscope
(Olympus BX43) coupled to a DP72 CCD camera (Olympus), edited, and arranged into
karyotypes using Adobe Photoshop software CC 2015. Homologous chromosomes were
paired and arranged into metacentric-submetacentric (m/sm) and subtelocentric
(st) groups, according to Levan et
al.
(1964)
. Two arms were considered for each one of
such chromosome types to determine the fundamental number (FN).
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6

Indirect Immunofluorescence for Protein Localization

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Indirect immunofluorescence (IF) was performed as previously described [9 (link)]. The primary and secondary antibodies that were used in these experiments are listed in S1 Table; a mouse monoclonal anti-α-tubulin served as the positive control. An Olympus BX-51 microscope was used for sample evaluation; micrographs were captured using an Olympus DP72 CCD camera and were analyzed using the Cell^P imaging system (Olympus, Tokyo, Japan).
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7

Immunostaining for HIF-1α and LC3B

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Immunostaining protocol was used as comprehensively described elsewhere [54 (link)]. Briefly, fixed cells were incubated with primary antibodies anti-HIF-1α (ab51608, 1:500) and anti-LC3B (ab52862, 1:500) (Abcam, Cambridge, UK) at 4°C overnight and secondary antibody conjugated to Texas Red (1:1000, T2767) (Thermo Fisher Scientific, Waltham, MA, USA) at room temperature for 1 h. Nuclei were visualized using DAPI staining and F-actin was detected using phalloidin staining. Digital cell images were captured using an Olympus BX61 fluorescence microscope equipped with a DP72 CCD camera and Olympus CellF software.
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8

Visualization of Nucleolar Structure

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To visualise the nucleolus, silver staining of nucleolar organiser regions (AgNOR) was performed. Silver staining of nucleolar argyrophilic proteins was conducted according to Howell and Black (1980 (link)) by incubating the cell slides with a colloidal developer containing 50 % AgNO3 in the dark at 37 °C for 15 min. After washing in tap water, the preparations were stained with 5 % Giemsa for 10 s and nucleoli were captured with an Olympus BX61 light microscope equipped with a DP72 CCD camera and Olympus CellF software. A total of 100 cells were analysed and their nucleolus morphological type was determined (normal, increased or fragmented nucleolus) [%]. Nucleolus size and nucleolus/nucleus ratio were calculated using ImageJ software http://rsbweb.nih.gov/ij/.
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9

Golgi Silver Staining Procedure

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Golgi silver staining was performed using the FD Rapid GolgiStain Kit (FD Neuro Technologies, Columbia, MD, USA) according to the manufacturer’s protocol. Images were acquired using a DP72 CCD camera (Olympus Corporation, Tokyo, Japan) mounted on an ECLIPSE E800 microscope (Nikon, Tokyo, Japan).
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10

DNA Content Analysis of Candida Cells

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Candida cells were fixed and stained as comprehensively described elsewhwere (Potocki et al. 2019 ). Some minor modifications were provided, namely fixed cells were treated with 5 mg/ml proteinase K for better staining performance. Briefly, for DNA visualization, cells were counterstained with a drop of mounting medium containing 4′,6′-diamino-2-phenylindole (DAPI) (Cambio, Cambridge, UK) and then analyzed using an Olympus BX61 fluorescence microscope equipped with a DP72 CCD camera and Olympus CellF software (Olympus,Warsaw, Poland). The CCD capture conditions were as the following: exposure time 150 ms, 100x oil immersion objective. DAPI fluorescent signals were collected using DAPI filters (λex = 345 nm, λem = 455). Fluorescence microscopy was adapted for DNA content analysis (Potocki et al. 2019 ). ImageJ software (http://rsbweb.nih.gov/ij/) was used to analyze the nuclear DNA content. DNA content was expressed as arbitrary units [a.u.].
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