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27 protocols using dm500 light microscope

1

Histological Detection of Amyloid in Mice

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For histological evaluation of the presence of amyloid in each mouse, 6- μm-thick sections were cut from formalin-fixed, paraffin-embedded blocks containing tissues from mice that had received radiolabelled SAP and p5+14. The tissue sections were placed on Plus microscope slides and counterstained with hematoxylin and eosin (H&E). Detection of amyloid was achieved in consecutive tissue sections by staining with an alkaline Congo red solution (0.8% w/v Congo red, 0.2% w/v KOH, 80% ethanol) for 1 h at room temperature followed by counterstain with Mayer’s hematoxylin for 2 min.
All samples were examined using a Leica DM500 light microscope fitted with cross-polarising filters (for Congo red). Digital microscopic images were acquired using a cooled CCD camera (SPOT RT-Slider; Diagnostic Instruments).
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2

Histopathological Analysis of Formalin-Fixed Tissue

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Tissue samples were collected and preserved in 10% formalin buffer solution at room temperature. For histopathological analysis, tissues were processed for paraffin embedding, and multiple 5-micron sections were prepared. For haematoxylin and eosin staining, slides were deparaffinized and hydrated with deionized water followed by haematoxylin (Sigma) staining for three minutes and eosin for two minutes. Next, slides were thoroughly washed in H2O and dehydrated through sequential alcohol grading then cleared in xylene and mounted with permanent mounting media (Vector Lab). Stained slides were observed under a Leica DM500 light microscope, and representative images were taken at 10× and 40× magnifications.
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3

Aniline Blue Staining for Collagen Quantification

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For aniline blue staining, we modified the conventional trichrome staining protocol. Briefly, slides were deparaffinized and hydrated with deionized H2O followed by incubation in pre-heated Bouin's solution (Sigma) for 15 minutes. Next, slides were cooled at room temperature and washed under running tap water. Tissue sections were then incubated in working phosphotungstic-phosphomolybdic acid solution (Sigma) for five minutes followed by aniline blue (Sigma) for 10 minutes and rinsed in 1% acetic acid (SRL) for 2 minutes. Finally, slides were thoroughly washed with deionized H2O and dehydrated through sequential alcohol grading. They were then cleared in xylene and mounted with permanent mounting media (Vector Lab). Stained slides were observed under a Leica DM500 light microscope, and images were taken at 10× and 40× magnifications. The percentage of collagen stained area (aniline blue) was quantified using the automated ImageJ program in conjunction with the threshold plug-in [43 (link)].
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4

Photoautotrophic Growth of Euglena gracilis

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Euglena gracilis culture was obtained from the Canadian Phycological Culture Centre (CPCC; University of Waterloo, Waterloo, ON, Canada) and grown in modified acid medium (MAM) [39 (link)] at pH 3 and supplemented with one simple carbon source, i.e., glutamic acid, malic acid, glucose or reduced glutathione (GSH) at a concentration of 5 g L−1. Cultures were grown in a pre-combusted 1L Erlenmeyer flask and maintained under photoautotrophic conditions with an alternating light:dark cycle of 16:8 h. The light intensity was fixed at 150 µmol photons m−2 s−1 and the temperature kept between 20–25 °C. Previous studies [40 (link),41 (link),42 (link)] have shown that the addition of simple carbon sources in photoautotrophic conditions allowed faster growth. Having a greater biomass was crucial to carry out an in-depth study of the molecular characterization of phenolic compounds produced by E. gracilis. The cell concentration was counted using a Leica DM500 light microscope and a hemacytometer. The initial cell density of each culture was 1.0 × 106 cell mL−1, and the biomass was harvested on day 1, 3, 5, 6, 8 and 10 of growth. The cell pellet was washed 3 times with milliQ water and stored freeze-dried until further analysis.
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5

Cryosectioning and X-Gal Staining Protocol

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Tissues were taken out of liquid nitrogen or -80°C and immediately embedded in tissue freezing medium (Leica Microsystems Nussloch GmbH). Tissue sections of 7-15 micron thickness were made by using cryomicrotome (Leica CM1850). After sectioning, tissues were fixed over the charged slides. Until beginning of the staining procedure, slides with the tissue were kept on ice. For the X-gal staining procedure all the working solutions were made fresh from corresponding stocks. Initially, slides were placed in fixative for 30 min at 4°C. Then slides were rinsed with wash buffer for 4 × 5 min. This was followed by incubation of slides with X-gal staining solution for more than 12 h in 37°C incubator. The staining container was impermeable to normal light. Two beakers containing water were kept inside the incubator for maintaining the humidity and protecting from drying of staining solution (X-gal). After overnight staining, slides were washed with PBS 3 × 5 min. At last, slides were mounted with aqueous mounting solution (VectaMount™ AQ; Vector laboratories, Inc.; Burlingam, CA, USA). A consecutive frozen slide was stained using H and E. All slides were observed under Leica DM500 light microscope and representative photographs were taken.
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6

Bee Pollen Botanical Identification

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Bee pollen sample loads were collected in 2018 from Bayburt, Turkey, with bottom-fitted pollen traps. The pollen samples were stored at −18 °C until analysed. The botanical origin of the bee pollen loads was prepared according to Wodehouse [55 (link)]. A few drops of 96% ethyl alcohol were dropped on the pollen on the slide. The preparation was allowed to stand on the heater until the alcohol evaporated. A portion of basic fuchsine added glycerin-gelatin was placed on the pollen and mixed. Pollen grains were examined by a Leica DM500 light microscope and diagnosed using an immersion objective lens (×100) [17 ,56 ].
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7

Toluidine Blue Staining Protocol

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For toluidine blue staining, briefly, the slides were deparaffinized and hydrated with deionized H2O, followed by staining with toluidine blue solution pH 2.3 (Merck) for three minutes. They were subsequently washed with deionized H2O three times. Slides were dehydrated quickly using 95% and 100% ethanol and then cleared in xylene and mounted with permanent mounting media (Vector Lab). Stained slides were observed under a Leica DM500 light microscope, and images were taken at 10× and 40×magnifications.
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8

Macro and Micro Fungal Morphology Analysis

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Macro-morphological descriptions were based on fresh and dried herbarium specimens. Microstructures are described using dried herbarium specimens. Fine sections through the basidiomata were prepared for observation using a razor blade under a stereomicroscope Leica EZ4 and mounted in 5% aqueous solution of potassium hydroxide (KOH) mixed with 1% aqueous solution of Phloxine. Melzer’s reagent (to test for dextrinoid or amyloid reactions), Cotton Blue (to test for cyanophilic reaction) were used and then examined at a magnification of 1000× using a Leica DM500 light microscope. Measurements were done with the software “Makroaufmaßprogramm” from Jens Rüdigs (https://ruedig.de/tmp/messprogramm.htm) and analysed with the software “Smaff” version 3.2 (Wilk 2012 ). In total, 135 basidiospores were measured from the sequenced specimen OAB0022 and additional examined specimen OAB0268. The basidiospore size is given as length and width of the spore. As measurements we present the mean with standard deviation and minimum and maximum values in parentheses (see below). The length (L), arithmetic average of all spore lengths, and the width (W), arithmetic average of all spore widths, were calculated. In addition, the ratio of length/width (Q) was calculated.
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9

Evaluating Insect Fertility and Oocyte Development

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Mating pairs were established for each newly emerged female (treated or control individual) using non-treated males of the same age. Control and experimental females (n = 10 for each concentration) were placed in separate boxes (20 cm 3 ). The pairs were reared under the same conditions described above for mass rearing. After mating, the females were supplied with pots filled with a humid sand/turf mixture, necessary for oviposition. These pots were checked daily for egg pods and the total number of eggs per egg pod was counted (to analyze fecundity). Eggs were allowed to hatch by placing them on the humid sand/turf mixture and covering them with approximately 1 cm of this mixture. The number of hatchlings was counted daily in order to determine hatchability percentage (to analyze fertility). To evaluate the effect of AFPt on oocyte development, the lengths of 5 basal oocytes in the treated and control groups were measured after 4, 8 and 12 days of adult emergence using an ocular micrometer fitted to a dissecting microscope(Leica LASEZ software V 3.1.0, Germany), adapted in a DM500 light microscope (Leica). The mean length was compared between treated and control.
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10

Controlling Rat Estrous Cycle for DM2 Study

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As the KP system is regulated by sex steroids, e.g., oestrogen and progesterone, we controlled rat’s oestrous cycle. We selected females in the dioestrus stage when the level of the hormones is low (n = 5 per each group, control and DM2).
To determine the stages of the oestrous cycle, vaginal smears were collected between 8 am and 11 am daily for 10 consecutive days and assessed using a DM500 light microscope (Leica, Wetzlar, Germany). For the evaluation of regular oestrous cycles, we used criteria established by Goldman et al. [22 ]. The length of each phase in the cycle of 4–5 d was considered: pro‐oestrus: 1 d; oestrus: 1‐2 d; dioestrus: 2‐3 d. Additionally, we considered the determination of the time span for each phase of the oestrous cycle according to Paccola et al. [23 ], namely pro‐oestrus and oestrus last for 12 hours each, and dioestrus lasts for 78 hours. Female rats that have the same phase of the oestrous cycle for 3 d or more were considered as those with irregular cycles and were excluded from the experiment.
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