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303 protocols using axioskop 40

1

Tissue Fixation and Microscopy Analysis

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Samples of AM were fixed with 4% formaldehyde (Carlo Erba Reagents, Milan, Italy) or 3% paraformaldehyde (PFA) in 1× phosphate-buffered saline (PBS) for 2 to 3 h. Both groups of samples were then dehydrated in a series of graded increases in alcohol concentrations, embedded in paraffin, and cut on a microtome (Leica, RM 2265, Nussloch, Germany). Sections were routinely stained with hematoxylin–eosin (H&E) and Mallory trichrome staining solutions, mounted in Bio Mount, and observed under a ZEISS Axioskop 40 (Carl Zeiss, Gottingen, Germany) light microscope equipped with a Coolsnap videocamera (Photometrics, Tucson, AZ, USA).
For electron microscopy, samples were fixed with 2.5% glutaraldehyde in 0.1 M cacodylate buffer, pH 7.2–7.4, for 2 to 3 h at 4 °C. They were washed in cacodylate buffer and postfixed in 1% osmium tetroxide for 1 to 2 h at 4 °C. After dehydration in increasing alcohol gradients, samples were embedded in Spurr resin and cut at the ultramicrotome (C. Reichert-Jung Ultracut, Wien, Austria). Semithin sections were stained with 1% toluidine blue for light microscopy analysis. Observations were carried out under a ZEISS Axioskop 40 (Carl Zeiss) light microscope equipped with a Coolsnap videocamera (Photometrics).
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2

Fluorescent Staining of Apoptotic Cells

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Cells from different co-cultures on coverslips were stained with Acridine Orange AO (Roche Diagnostics GmbH, Mannheim, Germany) working solution (0.01%) at low pH, contrasted by crystal violet and were used for examination under fluorescence microscopy (excitation/emission: at 520–650 nm). Briefly, the cells were washed with PBS and stained with AO for 5 min at room temperature. Then, after washing with PBS, contrast staining with crystal violet was performed for 3 min in the dark, and was followed by three times washing with PBS. Acridine Orange (AO) was used to identify engulfed apoptotic cells and visualized under fluorescent microscopy (Axioskop 40 Zeiss, Oberkochen, Germany). Experiments were performed in triplicate.
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3

Tongue Immunohistochemistry for Cellular Markers

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Immunohistochemistry was performed on the tongue sections using the streptavidin-biotin method [33 (link)]. Briefly, the slides were deparaffinised, dehydrated and rinsed in distilled water, followed by incubation with 0.3% hydrogen peroxide and Avidin/Biotin blocking system (Dako, Carpinteria, CA, USA). The sections were then incubated with a monoclonal mouse anti-human Ki-67 (MM1, Novocastra, Newcastle, UK, 1:50), polyclonal goat IgG anti-mouse CCL3 (450-MA, R&D Systems, Minneapolis, MN, USA, 1:100), mouse monoclonal anti-CCR5 (D-6, Santa Cruz, Dallas, TX, USA, 1:100), the rat anti-mouse F4/80 (RM2900, Caltag, Buckingham, MK, UK at 1:100), anti-mouse CD4 (GK1.5, eBioscience, San Diego, CA, USA, 1:100) and anti-mouse CD8a (4SM15, eBioscience, San Diego, CA, USA, 1:100), 4 °C overnight. Negative controls were obtained by omission of the primary antibody, which was substituted with 1% PBS-BSA. The cells were analysed by a light microscope (Axioskop 40 Zeiss, Carl Zeiss, Gottingen, Germany) at 1000x original magnification and counted in 20 consecutive fields in two sections.
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4

Quantifying Collagen Fiber Area in Wound Tissue

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Sections were stained with Harris hematoxylin (Newprov, Pinhais, Paraná, Brazil) for 40 s, washed under running tap water for 2 min and stained with Masson's trichome solution for 17 min. Images of consecutive regions of the wound area were taken in × 200 magnification using an optic microscope (Axioskop 40 Zeiss; Carl Zeiss). The identification of collagen fibers was made by deconvolution of color images on ImageJ software Version 1.52 (NIH, Bethesda, Maryland, USA). During color image deconvolution, images with Masson’s trichrome stain were deconvolved, and the green component was identified as the collagen fibers. The area of the green collagen fibers was measured using the “threshold” tool. The threshold was manually adjusted until the entire green area was highlighted in red. Then, the threshold was measured as the percentage of the stained area58 .
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5

Wound Healing Histological Analysis

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The mice were euthanized after 12 h, 3, and 7 days (Sup. Fig. S1f). Samples were collected 2.0 mm beyond the wounds and fixed in paraformaldehyde 4% for 48 h and processed for both optimal cutting temperature compound or paraffin embedding. Optimal cutting temperature compound was done in 20 µm cryosections (CM3050 S, Leica Microsystems, Morrisville, North Carolina, USA), and the slides were observed by confocal microscopy. Paraffin blocks were serially sectioned using a microtome at 6 μm sections (Leica). Five consecutive histological fields in five different sections were selected to analyze re-epithelialization and inflammatory process grading (40 × or 100 ×). According to a previous study57 (link), the inflammatory process intensity, fibrin clot formation, degree of angiogenesis, epithelium differentiation, and indentation were given a score of 0 to 5 based on its level of abundance in the wound beds according to a previous study. The granulation tissue area, epithelium area and thickness were quantified by the Fiji software (NIH). All samples were analyzed with an optical microscope (Axioskop 40 Zeiss, Göttingen, Lower Saxony, Germany), and one blinded examiner undertook all histological analysis. Detailed staining protocols are described below.
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6

Quantifying Wound Myofibroblast Activation

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Immunohistochemistry was performed for α-SMA detection at day 7 post-surgery in the wound sections. Briefly, the slides were deparaffinized and dehydrated, followed by incubation with 3% hydrogen peroxide and 1% bovine serum albumin (BSA). The sections were then incubated with a polyclonal rabbit anti-mouse α-SMA primary antibody (MM1, Novocastra, Newcastle, UK, 1:200) at room temperature for two hours. The immunolabeling was visualized through incubation in 3,3-diaminobenzidine (DAB) solution (Dako, Carpinteria, California, USA). Then, the sections were stained with Mayer’s hematoxylin and covered. Negative controls were obtained by omission of the primary antibody, which was substituted for 1% PBS-BSA. Images of 10 consecutive fields were taken in × 200 magnification using an optic microscope (Axioskop 40 ZEISS; Carl Zeiss, Gottingen, Germany). Immunostaining for α-SMA was quantified by color deconvolution plugin on ImageJ Version 1.52 (NIH). The red component was identified as α-SMA staining, and a threshold was manually adjusted and finally measured as the percentage of the stained area in the wound beds.
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7

Histological Assessment of Periodontal Inflammation

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Periodontal tissue samples from periodontal pockets or healthy oral mucosa extracted during surgery of impacted third molars were fixed in 10% buffered formalin, embedded in paraffin wax, and cut longitudinally (3 μm). The sections were deparaffinized, rehydrated, and stained with H&E for evaluation of the inflammatory infiltrate. Inflammatory cells were counted in four fields in two independent sections, using a light microscope (Axioskop 40 ZEISS; Carl Zeiss, Gottingen, Germany) at 400x magnification. Data were expressed as total inflammatory cells/field.
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8

Quantifying Eosinophils with Sirius Red

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Sirius red staining is a method used to access the presence of eosinophils60 (link). Briefly, slides were incubated in Harris hematoxylin for 2 min, rinsed in tap water, and then 100% ethanol. Subsequently, slides were immersed in an alkaline (pH 8–9) Sirius Red solution (CI 35780, Sigma Aldrich) for 2 h. Ten random foci were selected from low power in an optic microscope (Axioskop 40 Zeiss; Carl Zeiss) and were assessed by one blinded examiner. Eosinophils were counted per viewing field (× 400 magnification) and averaged for each wound bed.
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9

Photodynamic Therapy-Induced ROS Detection

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The cells were incubated with ZnPc and Pc32 for 24 h and then illuminated with 10 J/cm 2 . ROS formation was determined 2 and 7 h post-PdT for ZnPc and 2 h post-PdT for Pc32 using cellROX Green and cellROX Orange (Thermo Fisher Scientific, Inc.) according to the manufacturer's protocol. controls underwent PdT without previous ZnPc loading. The cells were analyzed using a fluorescence microscope (Axioskop 40, Zeiss; x40 objective, 1.30 NA; carl Zeiss AG, Oberkochen, Germany) equipped with a digital camera (dX4-285FW, Kappa Optronics (Gleichen, Germany). cellROX Green depicts ROS formation in the nucleus and mitochondria (ex/em approximately 470/525 nm) by producing bright green fluorescence, whereas orange fluorescence (cellROX Orange) depicts ROS in the cytoplasm of the cells (ex/em approximately 546/575 nm).
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10

Microalgae Characterization and Harvesting

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The microalgae culture was characterized by the concentration of total suspended solids (TSS) as dry cell weight (DCW), volatile suspended solids (VSS) and soluble chemical oxygen demand (SCOD), following Standard Methods (APHA, 1999) . Microalgae were identified by optical microscopy examination (Axioskop 40 Zeiss, Germany), using a photo camera and the Motic Image Plus 2.0 software and conventional taxonomic books (Streble at al., 1987) . The initial cells count was 42620000 Scenedesmus sp./mL, corresponding to a 99.8% of total cells count. Turbidity was determined with a Hanna Microprocessor Turbidity Meter HI93703 and pH with a Crison Portable 506 pH-meter. Turbidity was used to calculate the microalgae harvesting efficiency during magnetic separation.
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