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8 protocols using kz 3 f

1

RNA Extraction and Real-Time PCR Analysis

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Posterior intestine tissue (20 mg) was homogenized in RNA extract solution (Servicebio: G3013) using a tissue grinder (KZ-III-F, Servicebio, Wuhan, China) in a 2 mL centrifugal tube. The supernatant after centrifugation was extracted with chloroform and the RNA was precipitated with isopropanol. Finally, the product was washed with anhydrous ethanol (Cat. No. 10006818, 80109218, 10009218, Sinopharm Chemical Reagent Co., Ltd.). The concentration and purity of RNA were measured with a Nanodrop 2000 spectrophotometer (IMPLEN). cDNA was synthesized with the SweScript RT I First Strand cDNA Synthesis Kit (Servicebio, Wuhan, China) and placed at −80 °C for subsequent detection. All primers were designed in NCBI and synthesized by Shenggong Bioengineering Co., Ltd. (Shanghai, China) (Table 5). Quantitative real time-PCR (RT-qPCR) analysis was conducted using the QuantStudioTM 6 Flex System (Life technologies, Grand Island, USA) according to 2×SYBR Green qPCR Master Mix (None ROX) (Servicebio, Wuhan, China) instructions. Every sample was tested in triplication. Values were quantified using the 2–ΔΔCT method [67 (link)] and a statistical analysis was carried out.
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2

Pancreatic Protein Extraction and Analysis

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500 μl RAPA buffer containing cocktail inhibitors was added to lyse 50 mg pancreatic tissues, and its proteins was extracted by using the freeze grinder from Servicebio (KZ-III-F, Wuhan, China) following the manufacturer’s parameters. And then the lysate was placed on ice for 1 h, centrifuged at 12,000 g for 15 min and under 4 ℃, collected the supernatant and quantified with BCA assay kit (Beyotime, China). Next, SDS–polyacrylamide gel was used to load and separate 20 μg proteins, which next was electrophoretically transferred onto a PVDF membrane and blocked in 5% (w/v) nonfat dry milk for 1 h at 37 ℃. The membrane was incubated in the primary antibodies for overnight at 4 ℃. The secondary antibody was added to incubate membrane at 37 ℃ for 1 h, ECL test kits (Beyotime, China) was used to detect protein bands and be pictured or analyzed by Image Lab analysis software (Bio-Rad, California, USA).
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3

Cytokine Quantification in Colon Tissue

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Colon tissues were lysed in PBS using a tissuelyzer (Servicebio, KZ-III F, China), then centrifuged and supernatants collected. TNF-α, IL-1β and IL-6 in supernatants were assessed using enzyme-linked immunosorbent assay (ELISA) kits (Multi Science, China), following the manufactures instruction. Absorbance was measured at 450 nm.
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4

Inflammatory and Intestinal Barrier Assays

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Intestinal tissues and peripheral blood from aforementioned rats in the qRT-PCR experiment were harvested for detection of inflammatory responses and intestinal barrier permeability using ELISA. Tissues were ground using a homogenizer (KZ-III-F, Servicebio, Wuhan, China) and reconstituted in PBS. The samples were centrifuged at 12,000 × g and 4 °C for 10 min, and the supernatant was collected for ELISA. Peripheral blood was centrifuged at 2000 × g and 4 °C for 10 min to prepare plasma samples. ELISA kits for rat tumor necrosis factor-α (TNF-α, Abbkine, Wuhan, China), interleukin-6 (IL-6, Abbkine), diamine oxidase (DAO, Enzyme-linked Biotechnology, Shanghai, China), D-lactate (Nanjing Jiancheng, Jiangsu, China) and endotoxin (Enzyme-linked Biotechnology) were used to detect the levels of the corresponding indicators according to the manufacturer’s protocols. The absorbances were measured with a microplate reader (Biotek, VT, USA). The linear standard curves were determined using standards provided by the kits. The actual concentrations of these indicators were calculated based on standard curves.
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5

Angiogenesis Signaling Pathway Regulation

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The reagents used for study included RIPA buffer (high) (R0010, Solarbio, Beijing, China), BCA protein assay kit (P0010, Beyotime Biotechnology, Shanghai, China), phosphatase inhibitor (M7528, AbMole, Shanghai, China), anti-CD34 antibody (GB121693, Servicebio, Wuhan, China), anti-PI3K antibody (4249, Cell Signaling Technology (CST), USA), anti-AKT antibody (4691, CST, USA), anti-pAKT antibody (4060, CST, USA), anti-VEGF antibody (A5708, ABclonal, Wuhan, China), GAPDH antibody (AC033, ABclonal, Wuhan, China), goat anti-rabbit IgG (AS014, ABclonal, Wuhan, China) and goat anti-mouse IgG (AS003, ABclonal, Wuhan, China).
The instruments employed used included a light microscope (AxioScope.A1, Zeiss, Germany), photomicroscope (AxioVert.A1, Zeiss, Germany), slice scanner (KF-PRO-005-EX, Ningbo, China), high-speed low-temperature tissue grinding instrument (KZ-III-F, Servicebio, Wuhan, China) and electrophoresis system (Mini-Protean system, BioRad, USA).
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6

Quantifying Pseudomonas in Lung Tissue

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Whole lung tissue, which BALF was not acquired from, was removed surgically and placed into 2 mL tubes which contained 3 3 mm metal beads with 1 mL of PBS and stored on ice. Tubes were placed in the KZ-III-F (Servicebio, 70 Hz, homogenization time: 70 sec). Lung homogenate were plated on Pseudomonas isolation agar plates and grown at 37°C overnight. Colonies were counted, and the total CFU/mL recovered from the homogenized tissue samples was calculated.
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7

Isolation of Mitochondrial Genomes from Cone Snails

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Four different species of cone snails (C. imperialis, C. litteratus, C. virgo, and C. marmoreus) were collected in the South Sea of China. The mitochondrial genome of cone snails was extracted by an improved high-salt precipitation method. In brief, approximately 0.15 g of muscle tissue of the gastrofoot was weighed, and 1ml of Buffer I (2 mmol/L EDTA, 5 mmol/L Tris, 7 mmol/L sucrose, and 220 mmol/L dulcitol) was added to it, and the pH was adjusted to 7. Next, the tissue was homogenized in an ice-cold tissue grinder (ServiceBio, KZ-III-F, Wuhan, China) then centrifuged at 800× g for 10 min at 4 °C, and the supernatant was collected. This procedure was repeated twice, then the supernatant was centrifuged at 12,000× g for 10 min at 4 °C. The supernatant was discarded, and the precipitation was the isolated mitochondria. Then, 400 µL of Buffer Ⅱ (100 mmol/L Tris, 40 mmol/L Nacl, and 2 mmol/L EDTA), 16 µL of 20% SDS, and 16 µL of proteinase K (20 mg/mL) were added, after which the mitochondria was resuspended and incubated in a 60 °C water bath for at least 8 h until the solution was clear. Next, 300 of µL NaCl solution (40 mmol/L) was added and centrifuged at 8000× g for 10 min at 4 °C. The precipitation was discarded, and supernatant was collected. Then, isopropanol was added and centrifuged at 12,000× g for 15 min at 4 °C to precipitate the isolated mitochondrial DNA.
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8

Differentiation of Rabbit Corneal rASCs

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To investigate the differentiation potential of implanted rASCs in the rabbit cornea, at 28 days post-surgery, 50 mg of wounded cornea was put into 1 mL Trizol (ThermoFisher Scientific) and homogenized thoroughly in a tissue grinder (KZ-III-F, Servicebio). Then, RNA from the samples was isolated by adding chloroform and centrifugation. The upper phase was collected and isopropanol was added, followed by centrifugation. The supernatant was discarded, and the RNA pellet was eluted into 75% ethanol, and then centrifugated. After removing the supernatant, the remaining pellet was air-dried, eluted, and quantitated using a Nanodrop 2000 (ThermoFisher Scientific). Enough RNA was obtained and transcribed to cDNA by using a quantitative reverse transcription kit (Takara) according to the manufacturer's protocol. The primers for the studied gene (Table S5) were added to sample cDNA and a real-time quantitative polymerase chain reaction (PCR) instrument (QuantStudio 1, ThermoFisher Scientific) was used with 40 amplification cycles. Normal cornea was defined as a reference for comparison. The relative fold change of gene expression was analyzed using the 2−ΔΔCt method [10 ,16 ].
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