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59 protocols using coolpix 995

1

Detailed Examination of Lecanora Specimens

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Approximately 450 Lecanora s.lat. specimens were collected during field expeditions to several areas in Brazil by the authors between 2016 and 2022. Approximately 300 were selected for molecular study.
Morphological characteristics of the apothecia and thallus were examined with an Olympus SZX7 and pictures were taken with a Nikon Coolpix 995. For analysis microscopic, hand-made sections of ascomata and thallus were mounted and studied in water. Microscopic photographs were prepared using an Olympus BX50 with Nomarski interference contrast and Nikon Coolpix 995.
Secondary metabolites were examined with thin-layer chromatography (TLC) using solvent C [31 ,32 ,33 (link)]. All the specimens were tested with UV light (λ365 nm), and spot reactions of KOH (K), paraphenylenediamine (Pd), and calcium hypochlorite (C).
The Terminology applied to distinguish Epihymenium types and Amphithecium were according to the terms explained in Guderley [17 ].
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2

Assessing Arabidopsis Root Morphology

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For morphological assessments of A. thaliana roots, seeds of ecotype Col-0 were grown on half strength Gamborg B-5 basal medium with 0.8% (W/V) phytagar (pH 5.7) as previously described. One-week-old seedlings were transferred to half strength Hoagland medium with 0.8% (W/V) phytagar [83 ] (pH 5.7) with different concentrations of Pi (0 and 1.25 mM) and Phi (0, 2.5 and 20 mM) in a completely randomized design and grown for further seven days. A minimum of 10 seedlings per treatment were assessed for their primary root growth using the photographs taken by a digital camera (Nikon; Cool PIX 995) and the experiment was repeated twice. A minimum of six seedlings per treatment were assessed for their root hair density using the photographs taken by a binocular microscope (Olympus SZ40) with an attached digital camera (Nikon; Cool PIX 995) and the experiment was repeated twice. Root hair density was determined as the number of hairs in a 5 mm root segment (from the root tip).
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3

Microscopic Examination of Nodule Samples

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Three-week-old nodules were fixed and processed using the low-temperature embedding procedure as previously described (Tsyganova et al., 2009 (link)). For light microscopy, 0.5-μm-thick, resin-embedded sections were cut with a glass knife and collected on slides. Specimens were stained in 5% Toluidine blue in 0.1 mM sodium borate. Sections were examined on a Nikon Eclipse 800 with a Nikon Coolpix 995 digital camera (Nikon Corp., Tokyo, Japan). For transmission electron microscopy, 90–100-nm-thick ultrathin sections were collected on copper grids with 4% pyroxylin and carbon. The grids with sections were counterstained in 2% aqueous uranyl acetate for 1 h followed by lead citrate for 1 min. The sections of nodules were examined and photographed in a JEM-1200 EM (JEOL Corp., Tokyo, Japan) transmission electron microscope at 80 kV.
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4

Ex Vivo Larynx Imaging Protocol

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The specimen was fixed in 10 % formalin for 24 h after marker insertion. Block-face images of the whole specimen were obtained before and after fixation using an optical/digital camera (Nikon Coolpix 995, Nikon, Japan). The block-face images served as visual reference for the registration process. The specimen was then scanned ex vivo on the CT component of a SPECT-CT scanner (Philips Precedence 16, Eindhoven, Netherlands) with careful positioning such that the orientation differences between in vivo and ex vivo CT scans of the larynx were minimised.
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5

Comprehensive Material Characterization

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1H-nuclear magnetic resonance (NMR) spectroscopy using an MR400 DD2 (Agilent Technologies, Inc., Santa Clara, CA, USA), differential scanning calorimetry (DSC) using a Q-10 (TA Instruments, Inc., New Castle, DE, USA), and POM images of LC cells using a Nikon Eclipse E600 POL (NIKON, Inc., Tokyo, Japan) equipped with a polarizer and a Nikon Coolpix 995 digital camera (NIKON, Inc., Tokyo, Japan) were employed to characterize the synthesized materials. The static contact angles of water on the polymer films were determined using a KRÜSS DSA10 (KRÜSS Scientific Instruments Inc., Hamburg, Germany) contact angle analyzer equipped with drop shape analysis software (KRÜSS Scientific Instruments Inc., Hamburg, Germany). The contact angles for each sample were measured more than four times on three independently prepared films, and the average values were used. UV stability tests were conducted on the LC cells using a VL-6.LC lampmax = 365 nm, Vilber Lourmat, Paris, France) to investigate the effects of a severe environment. The exposure dose of UV irradiation on the LC cells was measured with a UV detector using a GT-513 (Giltron, Seoul, Korea).
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6

Evaluating Endothelial Cell Apoptosis

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The influence of EBC samples on murine endothelial C-166 cell line was also assessed using FITC (fluorescein isothiocyanate)-labelled Annexin V/propidium iodine (PI) assay. The test was performed according to a modified manufacturer’s protocol (FITC Annexin V Apoptosis Detection Kit, BD Pharmingen, Franklin Lakes, NJ) [11 (link)]. The cells were incubated with medium alone (baseline control), EBC samples or 0.02% Triton X-100 (negative control) for 1 or 4 h. Then, they were subsequently washed twice with cold PBS and incubated with FITC-labelled Annexin V and PI for 15 min. The test was repeated three times. The presence of Annexin V- and/or PI-positive cells was assessed using Nikon Eclipse E800 fluorescent microscope with Nikon Coolpix 995 digital camera (Nikon, Japan).
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7

Quantifying Nerve Axons through Cryosectioning

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After harvesting the nerve cross-sections, they were stored in 4% formalin (ROTI® Histofix 4%, Carl Roth GmbH, Karlsruhe, Germany). After washing in phosphate buffered saline (PBS) overnight at 4 °C, the nerve samples were dehydrated in increasing sucrose/distilled water solutions (10%, 20%, and 40%). The probes were embedded using Tissue-Tek® O.C.T. (Sakura Finetek Europe B.V., Zoeterwoude, The Netherlands) and shock-frozen at −80 °C in 2-methyl-butane. 15 µm thick cryostat-sections were obtained and mounted on SuperFrost Ultra Plus© slides (Thermo Fisher Scientific/Menzel-Gläser, Braunschweig, Germany). The slides were dried at room temperature for 30–60 min and subsequently stored for 30–60 min in distilled water. After washing the slides in 50% ethanol for 1–3 min they were stained with Sudan black B staining solution for 5 min and subsequently washed in distilled water. The slides were covered using Kaiser’s glycerol gelatine (Carl Roth GmbH, Germany).
The slides were analyzed using a light microscope (Nikon Eclipse 80i, Nikon Corp., Tokyo, Japan) and photographed with the corresponding camera (Nikon Coolpix 995, Nikon Corp., Tokyo, Japan). The number of axons was determined by the ImageJ counting tool (ImageJ version 1.53a, Wayne Rasband, National Institutes of Health, Bethesda, MD, USA) (see Figure 1).
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8

Lung Histological Assessment in Mice

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Twenty-four hours after the final challenge, to harvest the lungs, mice were euthanized by an intraperitoneal injection of a lethal dose of 10% chloral hydrate (0.3 mL/100 g, i.p). After fixing in formaldehyde for 24 hours, lungs were dissected and paraffin-embedded. The lung tissue was cut into thin slices four microns thick and then stained with hematoxylin and eosin (H&E; Sigma-Aldrich). At least five bronchi were selected from each mouse based on size (150–350 mm in diameter) for analysis. In order to reduce evaluator bias, the degree of airway inflammatory cell infiltration was scored in a single-blind fashion. Lung lesions were scored semi-quantitatively using a measurement tool as previously described62 (link). Images were captured under a Nikon Eclipse E200 microscope connected to a Nikon Coolpix 995 camera (Nikon, Tokyo, Japan). The severity of inflammation was evaluated by assigning a value of 0 point for normal; 1 point for few cells; 2 points for a ring of inflammatory cells 1 cell layer deep; 3 points for a ring of inflammatory cells 2 to 4 cells deep; 4 points for a ring of inflammatory cells of >4 cells deep.
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9

Histological Analysis of Lung Mucus

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Lung tissues from the mice were harvested and embedded in paraffin. The paraffin blocks were serially sectioned at 4 μm thickness and stained with hematoxylin-eosin (H&E) and then stained with periodic acid-Schiff (PAS) and Alcian blue (AB). These stains allow the identification of mucus glycoconjugates and mucus-producing goblet cells in accordance with standard protocols. Immunohistochemical (IHC) analysis was performed with antibodies specific to Muc5ac (Abcam, USA). Briefly, after IHC staining, cells stained light yellow to brown were recorded as positive for immunostaining. Images were captured under a Nikon Eclipse E200 microscope connected to a Nikon Coolpix 995 camera (Nikon, Tokyo, Japan).
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10

Flow Cytometry and Colony Formation Assay

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The MCF-7 cells were analyzed after staining with CD24-PE (Cat. no. 555428) or CD44-FITC (Cat. no. 555478) antibody that were purchased from BD Pharmingen (San Diego, CA, USA). At least 1x10 5 cells were centrifuged at 500 x g for 3 min at 4˚C, resuspended in 10 µl of FITC-conjugated anti-CD44 and 10 µl of PE-conjugated anti-CD24, and then incubated at 4˚C in the dark for 30 min. As a negative control, cells were incubated with the isotype of CD44 or CD24. The labeled cells were washed 3 times and then analyzed using a FACSCaliber flow cytometer (BD Biosciences). Each analysis detected 10,000 cells.
Colony formation assay. The cells (5x10 3 ) in 1.5 ml 0.35% agarose-containing growth medium were overlaid with 1.5 ml 0.5% agarose-containing growth medium, and the cells were incubated for 10-14 days. The whole-well images were photographed using a Nikon Coolpix 995 digital camera (Nikon Corp.) and 3 fields (x10 magnification) of each well were imaged.
Statistical analysis. Data are statistically presented as the means ± SEM for the indicated number of separate experiments. Comparisons between groups were made using Student's t-tests. Probability values of P<0.05 were considered to indicate statistically significant differences.
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