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90 protocols using axiocam icc5

1

Morphometric Analysis of Sky-Island Ligidium Species

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We fixed and stored the specimens in absolute ethanol and mounted the dissected appendages in a neutral balsam mounting medium. All studied specimens are deposited in the Insect Museum, Jiangxi Agricultural University, Nanchang, China (JXAUM).
Photographs were taken with a digital camera Zeiss AxioCam Icc 5 attached to a digital microscope Zeiss Stereo Discovery V12. Line drawings were made by the GNU Image Manipulation Program [36 ]. Species identifications were based on traditional morphological criteria. Terminology of morphology follows Schmidt [37 ].
For morphometric analysis, we selected 42 specimens representing seven sky-island Ligidium species of southwest China that were revealed by molecular delimitation. To evaluate variation in body shape, 16 landmarks were placed on pereonites 1–7 (Fig. 1a). The images were converted into TPS format using tpsUtil 1.56 [38 ]. Landmarks for all images were aligned, rotated and scaled using Procrustes superimposition [39 (link)]. Afterwards, we recorded the landmarks using TPSdig 2.17 [40 ] and analysed the data with MorphoJ [41 (link)]. To visualize shape variations across morphospace, we conducted principal component analyses (PCAs) and canonical variate analyses (CVAs). Mahalanobis and Procrustes distances were applied to evaluate the morphological variations among species.
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2

Quantifying DNA Methylation Signals in Micronuclei

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After 5mC immunodetection, slides were analyzed using a Carl Zeiss Imager Z2 fluorescence microscope with fluorescent lighting HSP, 120 W. The images were recorded with an AxioCam ICc5 digital camera and immersion lens with a ×100 magnification. The specific location of the cell nuclei with the micronuclei was also recorded. After subsequent FISH, the same slides were analyzed using the same equipment. The specific locations for each previously recorded cell nucleus and micronucleus were found after FISH and hybridization signals were captured. The frequencies of MN with specific signals and without signals were calculated. For the group treated with MH, a total of 350 nuclei with MN were evaluated. In order to analyze the presence of DNA methylation signals within the rDNA foci, 50 MN with rDNA signals were evaluated.
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3

Myoblast Migration Quantified via Wound Healing Assay

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Myoblast migration was assessed by a wound healing assay, which was performed after reaching 80–100% confluency (day 4) in 6-well plates using duplicates from three independent cell cultures. Initially, the cell monolayers were mechanically scratched (“wound”) in the shape of a cross by a 200 µL sterile tip in the center of each well. The cell debris was removed by two washes with PBS, and the myoblasts were incubated in DMEM media with 1% antibiotics and 2% fetal bovine serum (Sigma-Aldrich, USA) to reduce the cell proliferation rate. The wound areas were evaluated at 0, 6, 12, 18, 24, 30 and 48 hours, and images were captured under an inverted microscope coupled to the digital camera AxioCam ICc5 (Zeiss, Germany). The wound areas corresponding to the area mean of the four lines in the cross-shaped wound were measured using ImageJ® software63 (link). The wound areas were used to calculate the reduction in the wound area size over time (wound closure) and the variation in wound closure over the time interval (migration rate or migration speed).
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4

Microscopic Analysis of TiAlNb Matrix and TiAl Composite

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A Zeiss metalloscope (AxioCam ICc5, Jena, Germany) is used for the observation of the metallographic structure of the TiAlNb matrix and TiAl composite. The microstructure of the different specimens is observed by a scanning electron microscope (SEM, S-4800, Hitachi Ltd., Tokyo, Japan) with EDAX energy-dispersive spectrometry (EDS). Ion beam thinning is used for the preparation of the electron transparent foils of the TiAl composite. High-resolution transmission electron microscopy (HRTEM) images and the selected area electron diffraction (SAED) patterns of the specimens are obtained by JEM-2100 transmission electron microscopy (TEM).
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5

Surface Characterization of Iron Samples

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The scanning electron microscope (SEM) (JEOL JSM-7000F, Japan with EDX INCA and ZEISS AURIGA COMPACT) was employed to examine the surface morphology of pure Fe and PEI coated iron samples.
Atomic force microscopy (AFM) measurements were performed by the Veeco/Bruker Dimension Icon microscope in the tapping mode. This method allowed to obtain high-definition data of surface topology in both height and phase contrast modes. Images were processed in NanoScope Analysis and Gwyddion software.
Macroscopic photos were made by Carl Zeiss Stemi 2000-C stereomicroscope equipped with Zeiss AxioCam ICc 5 cameras.
Confocal microscopy was performed by the Plu Neox 3D optical surface profiler by SENSOFAR with 20 × objective. The size of the single image was 637 × 478 µm (approx. 637 × 478 µm). Raman spectra were recorded by XploRA ONE Raman microscope from Horiba Jobin Yvon with laser wavelength of 532 nm and magnification objective—10 × in range of 100–4000 cm-1.
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6

Histological Liver Lipid Analysis

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Five μm paraffin-embedded liver sections were stained with hematoxylin and eosin staining. Liver images were captured with a Zeiss AxioCam ICc5 color camera mounted on a Zeiss Axio Scope A1 light microscope and taken from 10 random 40x fields for each animal. Lipid staining was conducted using an Oil Red O staining kit (Cat# ab150678; Abcam) according to the manufacturer's protocol. Briefly, 20 μm optimal cutting temperature (O.C.T) (4583; SciGen, Inc., Gardena, CA, USA) compound-embedded liver sections were placed in propylene glycerol, followed by an Oil Red O solution and hematoxylin staining. Stained sections were photographed as previously described.
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7

GhSEP Promoter-GUS Expression Analysis

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The 2kb promoter sequence of each GhSEP was cloned and, finally, the genome regions of GhSEP1A, GhSEP2D, GhSEP3.1A, GhSEP4.1D, and GhSEP4.2D were obtained and inserted into the pGreen-GUS vector to generate pro:GhSEP-GUS constructs. Then, the construct was transformed into Arabidopsis using the methods described above. The homozygous lines were used for the histochemical assays of GUS activity. Different tissues were collected for GUS staining, including 13-day-old seedlings and cauline leaves, inflorescence, and floral organs from 6-week-old plants. Samples were immersed in the staining solution (Coolaber, Beijing, China) and incubated at 37°C overnight. Then, the samples were decolored in 70% (v/v) ethanol twice until the negative-control material (WT) turned white. Stained and cleared specimens were visualized and photographed using a stereoscope (AxioCam ICc 5; Carl Zeiss, Jena, Germany).
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8

Immunolocalization of Heat Shock Proteins

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Immunolocalization of HSP 90, 70, 60 and 27 was performed in all hemocyte cultures (controls, F24 and F48). The cells were fixed in 4% Paraformaldehyde (Sigma-Aldrich; PFA) in Phosphate-buffered saline (PBS) and permeabilized in 0.1% Triton X-100 (Sigma-Aldrich) in PBS. The cells were incubated overnight at 4°C with primary antibodies all from Enzo Life Sciences: HSP90α/β monoclonal antibody, HSP70 monoclonal antibody, HSP60 (insect) polyclonal antibody or HSP27 polyclonal antibody. Antibodies were diluted 1:40 in PBS with 1% bovine serum albumin (BSA, Sigma-Aldrich). The cells were then incubated in 4% BSA-PBS for two hours to prevent non-specific antibody binding. Following this, the hemocytes were incubated for a further two hours at room temperature with secondary antibody DyLight 488, Goat Anti-Mouse IgG (Abbkine) for HSP 90 and 70 or Dylight 594, Goat Anti-Rabbit IgG (Abbkine) for HSP 60 and 27. Concentrations of secondary antibodies were 2μg/ml. ActinGreen 488 ReadyProbes Reagent (Invitrogen) or ActinRed 555 ReadyProbes Reagent (Invitrogen) were used to label the actin fibers. The cell nuclei were stained with Hoechst (Enzo Life Sciences). Fluorescence signals were analyzed by fluorescent microscopy an Axio Vert.A1 fluorescence microscope (Zeiss) with Axio Cam ICc 5 (Zeiss).
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9

Triclopyr Exposure on Zebrafish Embryos

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For morphological assessment, twenty healthy embryos were exposed to 0.5, 1, 5, 10, or 50 µM triclopyr (20 embryos per plate for each replicate of an experimental group, with one embryo per well); OECD Test No. 236: Fish Embryo Acute Toxicity (FET) Test was followed [23 (link)]. At 96 hpf, 15 larvae from each treatment group were individually transferred onto concave glass slides and anesthetized with 4 µg/mL tricaine (MS-222, Sigma Aldrich, St. Louis, MO, USA). Images of the larvae at 96 hpf were captured with a digital camera (AxioCam ICc 5, Zeiss, Jena, Germany) attached to a stereomicroscope (Stemi 508, Carl Zeiss, Oberkochen, Germany). Morphological measurements were conducted using the DanioScope software (version 1.1, Noldus Information Technology, Wageningen, The Netherlands). The test was performed in triplicate with independent trials. Four morphometric parameters were evaluated for each zebrafish larva, including body length (µm), eye size area (µm2), pericardial area (µm2), and yolk sac area (µm2). To compare the treated organisms, the description of normal zebrafish development provided by Kimmel [24 (link)] was used as reference.
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10

Histochemical GUS Assay for Transformed Roots

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The indigogenic GUS activity staining was carried out according to the method of [24 ] with modifications. Putative transformed root sections were incubated in 100 mM sodium phosphate buffer (pH 7.0) containing 10 mM EDTA (pH 8.0), 0.1% (v/v) Triton-X100, 1 mM X-Gluc (5-bromo-4-chloro-3-indolyl-beta-D-glucuronic acid, cyclo- hexylammonium salt), 1 mM K4Fe(CN)6 and 1 mM K3Fe(CN)6 for 24 h at 37°C, in the dark. The roots were subsequently washed with distilled water and observed under SteREO Discovery.V12 stereomicroscope (Carl-Zeiss) fitted with AxioCam ICc5 (Carl-Zeiss) to capture images.
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