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12 protocols using a6283

1

MALDI-TOF MS Sample Preparation Protocol

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Reserpine (metil-11,17α-dimetoxi-18β-((3,4,5-trimetobenzoilo)oxy)-3β,20α-yohimban-16β-carboxylate)
(R0875, Sigma Aldrich, USA) was dissolved in glacial acetic acid (A6283;
Sigma-Aldrich, USA) and diluted to a final concentration of 0.25%
acetic acid with distilled water.54 (link) Sterile
saline solution was mixed with the acid (A6283; Sigma-Aldrich, USA)
until pH = 4 was reached.54 (link) Sinapinic acid
(3,5-Dimethoxy-4-hydroxycinnamic acid) (D7927, Sigma-Aldrich, Germany)
was used as the matrix for MALDI-TOF MS analysis. Acetonitrile (ACN)
(271004, Merck, Germany) and trifluoroacetic acid (TFA) (T6508, Sigma-Aldrich,
Germany) were used for matrix preparation. Micro-90 concentrated cleaning
solution (Z281506, Sigma-Aldrich, Germany) was used for MALDI-TOF
MS target cleaning between different analyses.38 (link) Red phosphorus (04004H, Riedel de Haën, Germany)
was used for MALDI-TOF MS calibration.68 (link)
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2

Oxidative Stress Measurement in Insect Larvae

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Haemolymph collected from larvae in their third
instar was utilized to measure oxidative stress. Briefly, 25 numbers
of third instar larvae were collected. The larvae were cooled in a
box and pricked near the thorax to stop melanization. Centrifugation
of larvae was performed at 4 °C for 10 min at 4500 rpm (Eppendorf-centrifugation
5430/5430R, Germany). 5 μL of hemolymph was taken in an Eppendorf
tube of 1.5 mL, and 10 μL of 1X phosphate-buffered saline (PBS)
was added to the tube. An equal volume of 1.6 mM nitroblue tetrazolium
(NBT) solution (11383213001, Sigma-Aldrich, Merck, Germany) was added
to the mixture and left for 1 h in the dark. NBT (11383213001, Sigma-Aldrich,
Merck, Germany) assay was performed on the hemolymph according to
the protocols of Nayak et al. 2020 and Bag et al. 2020.26 (link),27 NBT (11383213001, Sigma-Aldrich, Merck, Germany) (1.6 M) solution
was given to the hemolymph and left for 1 h in the dark. The reaction
was stopped after 1 h by adding an equivalent amount of 100% glacial
acetic acid (GAA) (A6283, Sigma-Aldrich, Merck, Germany) and incubating
for 5 min. Then, 150 μL of 50% GAA (A6283, Sigma-Aldrich, Merck,
Germany) was mixed, and 200 μL of the solution was poured in
the well of a 96-well plate, and the absorbance was taken at 595 nm
with the help of a microplate reader (Elisa Biobase, EL10A).
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3

Cell Proliferation Assay with Crystal Violet

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Cell lines were dissociated, counted, and 1 mL media with 1000 cells per well was seeded into four 12-well plates per sample. The four plates were marked as day 0, day 2, day 4, and day 6. Then, 6–8 h after seeding, media was aspirated and cells in the day 0 plate were fixed with 10% neutral-buffered formalin for 30 min RT. After removal of formalin, the plates were washed with water 2–3 times, air-dried and inverted. The same procedures were followed on day 2, day 4 and day 6 plates. After day 6, all the four plates were stained with 400 µL crystal violet solution (1 g crystal violet (0.5%, VWR #97061-850), 150 mL ddH20, 50 mL methanol) for at least 30 min. Then the crystal violet solution was removed, and the plates were washed with water three times, dried and inverted. The stained crystal violet was then released into solution with 400 µL 10% glacial acetic acid (in water, Sigma #A-6283). In total, 100 µL of the dissolved crystal violet solution was aliquoted into a 96-well plate and OD595 absorbance was obtained with a Cytation5 (Biotek).
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4

Ruminal Fluid VFA Analysis by GC

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The analysis of VFA (acetic, propionic, butyric, isobutyric, valeric, and isovaleric) of the samples of ruminal fluid was performed by gas chromatography using a flame ionization detector. A volume of 4 mL of diluted ruminal fluid mixed with 1 mL of a solution of 20 g/L of 4-methylvaleric acid as an internal standard, in 0.5 N HCl, was centrifuged (15,000× g for 15 min at 4 °C) to separate the liquid phase from the feed residuals. After, the liquid phase was microfiltered (premium syringe filter regenerated cellulose, 0.45 µm, 4 mm, Agilent Technologies, Madrid, Spain), and 0.5 µL of liquid phase was directly injected in the chromatograph (Agilent 6890 N) using a capillary column (30 m × 530 um; 1-µm particle size; HP- FFAP, Agilent, Spain) and kept at 300 °C in the injector with a hydrogen flow 40 mL/min, air flow 400 mL/min, and make up (nitrogen) 25 mL/min flow. The injection loop was 20 µL. The individual VFA were identified using a standard solution of 4.50 mg/mL of acetic acid, 5.76 mg/mL of propionic acid, 7.02 mg/mL of butyric acid and isobutyric acid, 8.28 mg/mL of valeric acid, and isovaleric acid in 0.1N H2SO4 (A6283, P1386, B103500, I1754, 240370, 129542, respectively; Sigma-Aldrich, Madrid, Spain). The quantification was performed using an external calibration curve based on the standards described above. Data were expressed in mmol/100 mmol.
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5

Sulforhodamine B Assay for Cell Viability

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A total of 12,000 cells per well were seeded in a 96-wells plate. Two days after seeding, media was replaced and cells were treated with increasing concentrations of a specific LPP for 72h. Then, cells were fixed with 1% trichloroacetic acid (#T9159-100G; Sigma-Aldrich) at 4⍰°C for 30 min, washed 3 times with distilled water and stained with 0.057% SRB (#S1402-5G; Sigma-Aldrich) in 1% acetic acid (#A6283, Sigma-Aldrich) solution at RT for 30 min. Following staining, cells were washed 3 times with 1% acetic acid and air-dried overnight. The protein bound dye was dissolved in 10⍰mM Tris base solution and the absorbance was measured at 565⍰nm using a microplate reader (SpectraMax i3x).
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6

Quantifying Bacterial Biofilm on K-Wire

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After euthanasia, the K-wire was removed in a sterile technique and sonicated in 3 ml phosphate-buffered saline (PBS; Thermo Fisher Scientific) to detach the biofilm.32 (link)
The bacterial load on K-wire was determined by agar plating and CFU counting.28 (link)
For the quantification of biofilm, it was stained with 0.01% crystal violet (C0775; Sigma-Aldrich). Adherent crystal violet was solubilized in 33% glacial acetic acid (A6283; Sigma-Aldrich) and the optical density at 590 nm was determined by the microplate reader. The K-wire was cut into three pieces and processed with Glutaraldehyde solution, air-dried, mounted, sputter-coated with gold/palladium, and then assessed for biofilm formation by scanning electron microscopy (SEM).28 (link)
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7

Histopathological Analysis of Nasal Mucosa

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For observing the histopathological changes in nasal mucosa after CGA or Dex intervention, a 4-cm-thick mouse nasal mucosa was fixed in 4% paraformaldehyde (P6148, Sigma–Aldrich, U.S.A.), dehydrated by ethanol (E7023, Sigma–Aldrich, U.S.A.), blocked in paraffin (327204, Sigma–Aldrich, U.S.A.), and sliced. Then, the sliced mouse nasal mucosa was soaked in xylene (95670, Sigma–Aldrich, U.S.A.) for dewaxation. Gradient ethanol 100, 90, 80, and 70% was used to rehydrate mouse nasal mucosa slices. Mouse nasal mucosa slices were stained by Hematoxylin (H3136, Sigma–Aldrich, U.S.A.) for 15 min, differentiated by being soaked in 5% acetic acid (A6283, Sigma–Aldrich, U.S.A.), and immersed in distilled water for developing blue. Next, mouse nasal mucosa slices were stained by Eosin (E4009, Sigma–Aldrich, U.S.A.) for 10 min. Gradient ethanol 70, 80, 90, and 100% was used to dehydrate mouse nasal mucosa slices. After soaking in xylene twice, mouse nasal mucosa slices were sealed by Canada balsam (60610, Sigma–Aldrich, U.S.A.) and observed using an optical microscope (M3800, Fisher Scientific, Waltham, MA, U.S.A.).
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8

Picrosirius Red Staining of Collagen

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Sirius red is a polyazo dye which is specifically used for staining collagen. The stain dyes collagen bright red, leaving muscle fibers, cytoplasm, and red blood cells a lighter yellow/red color. Picrosirius red differs from sirius red staining with the addition of picric acid which prevents the indiscriminate staining of noncollagenous structures by sirius red.
Sections were fixed in neutral buffered formalin for 30 minutes. Slides were rinsed in dH2O and stained with Weigert's hematoxylin for 8 minutes. Sections were washed in 3 changes of water followed by staining with picrosirius solution for one hour. Picrosirius solution was made up of 0.5 g sirius red F3B (CI35780, Sigma-Aldrich, USA) in 500 ml saturated aqueous picric acid (197378, Sigma-Aldrich, USA). Sections were washed in 0.5% acetic acid (A6283, Sigma-Aldrich, USA) in dH2O twice for 5 minutes each. Sections were then dehydrated in changes of ethanol (70%, 95%, and 100%) and then cleared in xylene (296325, Sigma-Aldrich, USA), and cover slips were mounted with mounting media (DPX, 06522, Sigma-Aldrich, USA).
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9

ROS Measurement and Cytotoxicity Assay

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Cells were seeded at a density of 104 per well in 96 well plates overnight and incubated with cell‐permeant 1 μM 2′,7′‐dichlorodihydrofluorescein diacetate (H2DCFDA; D399, Thermo Fisher Scientific). Microplates were analyzed with a BMG Polarstar fluorescence spectrometer (ex 485‐12/em 520). Cell cultures were normalized to cellular protein as previously described.24 Cell cultures were fixed with cold 10% (w/v) trichloroacetic acid (T4885‐1KG, Sigma‐Aldrich) and 0.004% (w/v) Sulforhodamine B (230162‐5G, Sigma‐Aldrich) solution, washed twice with 1% (w/v) acetic acid (A6283, Sigma‐Aldrich) and analyzed by fluorescence spectrometry (ex 544/em 590).
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10

Cytogenetic Analysis of Mesenchymal Stem Cells

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The AD-MSC cultures at the late passages were treated with 5.5 μg/mL Colcemid for 20 minutes in 37°C to stop cell divisions. The next step was hypotonization in 0.075 M solution of KCl (MERCK, 1.04936.1000) for 20–40 minutes, in 37°C. Then cells were fixated with Carnoy's mixture precooled to −20°C (methanol (MERCK, 106009.2511) with acetic acid (SIGMA, A6283) in proportions 3 : 1). Fixated cells were scraped and in small volume of fixation buffer (20 μL) delocalized on slides. The slides were stained according to modified Wang and Fedoroff's method (GTG: G-bands by Trypsin using Giemsa-stain) for bands visualization. This method embraced digestion with 0.1 M HCl (SIGMA, 115752837) for 2-3 seconds, incubation in 2x SSC solution (Standard Sodium Citrate, SIGMA, S4641) at pH 7, for 15 minutes, in 60°C, and staining with 0.25% Wrights solution (SIGMA, 861375) dissolved in phosphate buffer (SIGMA) at pH 6.8, in proportions 1 : 3 for 2-3 minutes. After every group of steps of staining, slides were washed under tap water and dried by warm airflow.
The stained slides were digitalized then observed metaphases were photographed and analyzed in 250x enlargement by IKAROS software of Meta Systems, system for picture analysis.
Karyotyping was done according to International System for Human Cytogenetic Nomenclature's guidelines (ISCN, 2013).
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