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12 protocols using power masher 2

1

Protein Extraction from Frozen Specimens

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Each frozen specimen was transferred to a 1.5 mL tube supplied for use with a PowerMasher 2 (Nippi, Tokyo, Japan) and mixed with phase transfer surfactant (PTS) buffer supplemented with cOmplete™ protease inhibitor and PhosStop™ phosphatase inhibitor57 (link). Each specimen was homogenized for 30 s, and subjected to boiling at 95 °C for 5 min. The cell lysates were further sonicated twice (15 min per set) with a Bioruptor sonicator (Cosmo Bio, Tokyo, Japan). The cell lysates were centrifuged at 20,000 rcf at 4 °C for 3 min and the supernatants of the corresponding three specimens were transferred to a new tube. After centrifugation, the protein concentration was measured with a detergent compatible (DC) protein assay kit.
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2

Tissue Lysis and Protein Extraction

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Each frozen sample was transferred to a 1.5-mL tube and mixed with phase transfer surfactant (PTS) buffer (50 mM ammonium bicarbonate, 12 mM sodium deoxycholate, 12 mM sodium lauroyl sarcosinate) supplemented with cOmplete™ protease inhibitor and PhosStop™ phosphatase inhibitor 20 (link). Each biopsy was homogenized in a PowerMasher 2 (Nippi, Tokyo, Japan) for 30 seconds and subsequently boiled at 95°C for 5 min. The lysates were further sonicated three times (15 min per cycle) with a Bioruptor sonicator (Cosmo Bio, Tokyo, Japan). After sonication, the protein concentration was measured with DC protein assay kit.
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3

Intranasal IAV Infection in Mice

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Mice were anesthetized with isoflurane and intranasally injected with 1 × 103 fluorescence-forming units of IAV in 30 μL PBS. For viral titration, mice were euthanized on day 3 after infection, and their lungs and nasal mucosae were isolated and homogenized using a PowerMasher II homogenizer (891300; Nippi) at room temperature, stored at −80°C, and subjected to TCID50 titration assays.
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4

Intestinal Tissue Homogenization for Analysis

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The intestines were collected from experimental animals immediately after culling, washed with phosphate-buffered saline (PBS), sliced into three 4–5 mm fragments, placed into microcentrifuge tubes, and kept on ice. Portions of the intestinal tissue were then transferred to microcentrifuge tubes for homogenization (BioMasher II, Laboratory & Medical Supplies Co. Ltd., Tokyo, Japan), and placed on ice after the addition of 580 μL of PBS. Homogenization was performed for approximately 10 min using a homogenizer and a battery-powered motor (Power Masher II, Nippi. Inc., Tokyo, Japan). The samples were then centrifuged at 100,000 × g for 10 min at 4 °C. The supernatant was removed and stored at −80 °C for later use.
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5

Protein Extraction and Detection

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Cells and CAM tumors were lysed in a 2× Cell lysis buffer (Cell signaling technology, Danvers, MA, USA) and then an equal amount of 2× sample buffer was added. CAM tumor was homogenized by Power masherII (Nippi, Inc., Tokyo, Japan) before adding the lysis buffer. After sonication, the lysate was denatured at 100 °C for 5 min. Target proteins were separated and detected with the JessTM Simple Western system (Protein Simple, San Jose, CA, USA).
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6

Gene Expression Analysis in Synchronized Worms

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Synchronised worms were cultured on OP or BL plates (0•5 or 5•0 mg/ml) for 96 h. For mRNA extraction, the worms were crushed using the Power Masher II and Bio Masher II (Nippi, Inc.). The PrimeScript RT Reagent Kit with gDNA Eraser (Takara Bio Inc.) was used for the complementary DNA synthesis. Subsequently, quantitative PCR (qPCR) was performed using the Thunderbird SYBR qPCR Mix (Toyobo) and gene-specific primers (Table 1) in a Thermal Cycler Dice Real Time System Lite (Takara Bio Inc.) instrument. Actin was used as the reference gene, and each qPCR reaction was performed in triplicate wells.
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7

Western Blot Analysis of Liver Antioxidant Enzymes

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The frozen liver samples were thawed and a RIPA buffer containing HaltTM Protease Inhibitor Cocktail was added to the samples at a volume of 4 mL per 1 g wet tissue weight. The tissue samples were homogenized using a Power Masher II and Bio Masher SP (Nippi, Tokyo, Japan). The homogenates were centrifuged at 13,000 g for 5 min at 4 °C and the supernatants were obtained for western blotting. The protein concentration of each sample was measured using a DC protein assay kit (Bio-Rad, Hercules, CA, USA). The samples of the supernatants mixed with EzApply (ATTO, Tokyo, Japan) were heated at 95 °C for 5 min and applied to 10% SDS polyacrylamide gels, and then the separated proteins were transferred to nitrocellulose membranes (Bio-Rad). After blocking for 30 min at room temperature with 3% skim milk in phosphate-buffered saline containing 0.05% Tween 20, the membranes were incubated overnight at 4 °C with rabbit antibodies against GPx-1, GPx-4 (1:1000, Abcam, Cambridge, UK) and β-actin (1:1000, Cell Signaling, Danvers, MA, USA) diluted by Can Get Signal I (TOYOBO Co. Ltd., Osaka, Japan). The membranes were subsequently incubated for 1 h at room temperature with peroxidase-conjugated anti-rabbit IgG antibody (1:5000, Cell Signaling) diluted by Can Get Signal II (TOYOBO Co. Ltd.). Immune complexes were visualized by an enhanced Immobilon™ Western (Merck Millipore, Bedford, MA, USA).
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8

Extraction and Characterization of Liriomyza trifolii Genomic DNA

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Liriomyza trifolii were provided by Applied Entomology Laboratory, Faculty of Agriculture, Shizuoka University. The flies were isolated in Hamamatsu, Shizuoka, Japan in 1991, and maintained on the leaves of kidney bean plants in a 34 cm (width) × 35 cm (length) × 34 cm (height) cage with light–dark regime (16:8) at 23°C (Tagami et al., 2006a (link); Hidayanti et al., 2022 (link)).
Total genomic DNA was extracted from L. trifolii using Qiagen DNeasy Blood and Tissue Kit, following the manufacturer’s instruction (Qiagen, Hilden, Germany), with slight modifications. Adults insects (n = 30–50) were crushed in 50 μL ATL buffer with a motorized pestle (Power Masher II; Nippi, Tokyo, Japan); 130 μL of ATL buffer, and 20 μL proteinase-K (20 mg/mL) were added to the homogenate and incubated in a 56°C dry bath incubator (Major Science, Taiwan) for 2–3 h; 200 μL of buffer AL and 200 μL of 99.5% ethanol were added following incubation at 56°C; to maximize DNA yield, the DNA was eluted in 50 μL of buffer AE. DNA yield and purity were verified with a Nanodrop 1000 spectrophotometer (Thermo Fisher Scientific, Waltham, MA, United States). The extracted DNA was aliquoted for sequencing and cloning of 16S rRNA gene and the Wolbachia surface protein (wsp) gene, and metagenomic library construction for next-generation sequencing (NGS).
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9

Quantifying Lung Collagen in Mice

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For quantitatively measuring collagen in the left lungs of mice, the Hydroxyproline assay was performed according to the manufacturer's instructions (Chondrex, 6017). Mouse left lung tissues (10 mg) were homogenized in 100 μl of distilled water using PowerMasher II (Nippi, 891300) with BioMasherII (Nippi, 320103).
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10

Indole Concentration Determination in Gut Content

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HIA was performed according to a previous paper describing the determination of indole concentration (21 (link)). Briefly, gut content samples were diluted with 70% ethanol to 100 mg/ml and disrupted by a Power Masher II (Nippi, Tokyo, Japan). After centrifugation, supernatants were filtered using a Millipore Ultrafree MC PLHCC centrifugal filter (Merck Millipore, Billerica, MA, USA). Samples were incubated for 15 min at room temperature with 5M NaOH (Wako, Osaka, Japan) and 50 μl of 0.3 M hydroxylamine hydrochloride (Wako) in a microtiter plate. Following incubation, 125 μl of 2.5 M H2SO4 (Wako) was added and incubated at room temperature for 30 min. The plates were immediately read at 530 nm using optical density readings by a microplate reader.
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