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11 protocols using high speed centrifuge

1

ApoE Knockout Mice Nanoparticle Study

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Thirty 6-week-old male ApoE knockout mice (ApoE-/-) without specific pathogens were provided by Beijing Huafukang Biotechnology Co., Ltd. (body weight 20.0 ± 0.5 g). Cetrimonium Bromide (CTAB) solution was provided by Dingguo Biotechnology Co., Ltd. The chloroauric acid solution was provided by the American Sigma Company. The sodium borohydride solution, sodium chloride solution, and chloroauric acid solution were all provided by Sinopharm Chemical Reagent Co., Ltd. Ascorbic acid was provided by Shanghai Macleans Biochemical Co., Ltd. Polyethylene glycol was provided by Ma Yinglong Pharmaceutical Group Co., Ltd. Micro-CT is provided by Siemens, Germany. The high-speed centrifuge is provided by Thermo Fisher Scientific Co., Ltd. Transmission electron microscopy and laser particle size analyzer were provided by Delong Company of the United States and Malvern Company of the United Kingdom, respectively.
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2

Quantitative Mass Spectrometry Protocol

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UPLC-Q-Exactive Orbitrap-MS (Thermo Fisher Scientific, Waltham, MA, USA); automatic biochemical analyzer (Beckman Coulter, Indianapolis, IN, USA); electronic balance (Sartorius, Gottingen, Germany); high-speed centrifuge (Thermo Fisher Scientific); vortex mixer (Dragon Laboratory Instruments Limited, Beijing, China); electrophoresis apparatus (Beijing Kaiyuan Xinrui Instrument Co., Ltd., Beijing, China).
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3

Exosome Isolation from Tissues and Leucorrhea

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We used differential centrifugation to extract exosomes from tissues and leucorrhea. Briefly: ectopic tissue was disaggregated into a single cell suspension with type IV collagenase (Solarbio, China). Leucorrhea was diluted with PBS to make a mixed solution. The supernatant and leucorrhea solution were centrifuged at 4 °C with a high-speed centrifuge (Thermo, USA) at 500 g for 10 min to remove living cells, 2000 g for 10 min to remove dead cells, and 10,000 g for 20 min to eliminate the cell debris. Every step was repeated twice. The supernatant was then centrifuged at 100,000 g twice with ultracentrifuge (Beckman, USA) for 70 min each time. The exosomes were resuspended or lysed with different reagents for subsequent experiments.
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4

Isolation and Culture of Murine Bone Marrow Mesenchymal Stem Cells

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After the successful establishment of the elderly female mouse model of T2DM + OP, mouse bone marrow mesenchymal stem cells (BMSCs) were extracted according to a previous study (18 (link)). First, the mice were anesthetized by an i.p. injection of sodium barbiturate (Sigma-Aldrich; Merck KGaA), and then the mice were sacrificed by cervical dislocation. The bilateral femur and tibia were isolated under sterile conditions; muscle tissue was removed, and the femur and tibia were exposed. Then BMSCs were cultured in high-glucose DMEM (Corning) containing 10% fetal bovine serum (FBS) (Cyagen), 100 U/ml penicillin (Beyotime) and 100 µg/ml streptomycin (Beyotime). The medullary cavity was rinsed repeatedly, the cells were extracted out of the marrow cavity, centrifuged with a high-speed centrifuge (Thermo Fisher Scientific, Inc.) for 5 min at 200 x g, and the cell pellet was placed in cell bottles. Then the cell pellet was placed in an incubator (Thermo Fisher Scientific, Inc.) with 5% CO2 at 37˚C. BMSCs were purified by differential adherence method; culture medium was replaced every three days, and non-adherent cells were removed; the splitting ratio was 1:3. The above steps were repeated and passed to the third generation for subsequent experiments. The study was approved by the Animal Ethics Care Committee of Qiqihar Medical University (QMU-AECC-2019-51).
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5

Sow Reproductive Performance and Milk Composition

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Sow body weight and backfat thickness was measured at d 85 and d 107 of gestation and again at weaning (d 28 of lactation). Backfat thickness was measured using ultrasound equipment (Renco Lean-Meatier; Renco Corporation, Manchester, MA, USA) at 65 mm right of the dorsal midline of the last rib. At farrowing, the total number of piglets born, the number of piglets born alive, and the number of piglets born dead were recorded for each sow. The piglets were weighed within 24 h after farrowing and again at weaning (d 28 of lactation).
A 10 mL sample of the first colostrum of each sow was gathered from all the active mammary glands on the right side of the sow within one hour during farrowing. On d 14 of lactation, 20 mL samples of milk from each sow were collected approximately 30 s after sows were injected with 2 mL (equal to 10 units) of oxytocin intramuscularly in the hip (Ningbo Sansheng Biotech, Ningbo, China). The milk samples were collected into sterile tubes and immediately stored at −20 °C until further analysis. On d 0 and 28 of lactation, 10 mL of blood was collected from the ear vein of each sow, placed in heparin tubes, and centrifuged at 3000 rpm for 20 min by high-speed centrifuge (Thermo Fisher, Karlsruhe, Germany). The plasma was obtained, and samples were stored at −20 °C for later analysis.
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6

Quantification of 5-HT by HPLC

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A high speed centrifuge (Thermo Fisher Scientific Inc. USA) was used to centrifuge the medium and cell samples. Analytical balance (Mettler-Toledo, Switzerland), the Agilent HPLC instrument (Agilent Technologies, USA) equipped with an on-line Degasser Agilent 1260 Infinity, Agilent 1260 Bin pump, 1260 ALS automatic sample introduction system and an Agilent 1290 Thermostat temperature controller was used for the HPLC experiment. For detection of 5-HT, the equipment was connected to an Agilent 1260 DAD VL UV diode array detector. We actualized the chromatographic separation of 5-HT with an Agilent Zorbax Extend C18 Column (4.6 × 250 mm, 5 μm) under isocratic elution. The mobile phase is 0.05 mol/L KH2PO4 (apparent pH = 5)/acetonitrile (90:10, V/V), and the wavelength of the UV detector was set at 280 nm.
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7

Isolation and Characterization of Extracellular Vesicles

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MSCs culture-supernatant containing the EVs was collected every 72 h starting at passage 2 up until passage 8, at an optical cell confluency higher than 90 %. The EVs were isolated using differential (ultra)-centrifugation steps as previously described [29 (link)] (Supplementary Fig. 1). Briefly, cell culture supernatant was centrifuged at 500 x g for 10 min to remove cells and cell debris (Hettich centrifuge, MA). To deplete large vesicles, samples were centrifuged again at 10,000 x g during 30 min and the final concentration of EVs was achieved by centrifuging the supernatant at 70,000 x g during 90 min (Thermo Scientific High-Speed centrifuge, Germany). All centrifugation steps were performed at 4 °C. The supernatant was discarded via aspiration. EV pellet was resuspended in 0.9 % NaCl or BV-2 cell culture medium and stored at -80 °C, depending on the application. Quantification of EVs was performed by flow cytometry or NanoSight nanoparticle tracking analysis (NTA).
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8

Isolation of Peripheral Blood Lymphocytes

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We collected peripheral blood samples from 10 DN patients and 10 healthy volunteers (the inclusion criteria of all participants were the same as before) from the Second Hospital Affiliated of Kunming Medical University and anticoagulated them with EDTA to ensure the stability of RNA in the blood samples. Any healthy volunteers had no known disease. Fresh anticoagulated whole blood was added in 3 mL to a 15 mL centrifuge tube containing 3 mL of human peripheral blood lymphocyte isolate (Solarbio, Beijing, China), and the mixed fluid was centrifuged using a high-speed centrifuge (Thermo Fisher Scientific, Waltham, MA, USA) based on 450 g × 30 min at room temperature. After centrifugation, the mixture would be clearly stratified: the top layer is the diluted plasma layer, the middle layer is the clear isolate layer, the white film layer between the plasma and the isolate is the lymphocyte layer, and the bottom of the centrifuge tube is the red blood cells and granulocytes. Subsequently, the cells of the white membrane layer were carefully aspirated into a 15mL clean centrifuge tube and washed with 10mL PBS. The supernatant was discarded and the cells were resuspended in 5 mL of PBS, centrifuged at 250 g for 10 min, and the supernatant was discarded after two repetitions.
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9

Ultrahigh-Performance LC-MS Metabolomics

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The main instruments and reagents used in this study were listed as follows: Xevo G2-XS QTOF mass spectrometer (produced by Waters, UK), 2777C UPLC system liquid chromatograph (produced by Waters, UK), high speed centrifuge (produced by Thermo, USA), ultrapure water preparation system (produced by Milipore, USA), ACQUITY UPLC CSH C18 chromatographic column (100 mm*2.1 mm, 1.7 μm, produced by Waters, UK), isopropanol (produced by Biotech Engineering Co., Ltd.), ammonium formate (chromatographically pure, produced by DIKMA, USA), acetonitrile (chromatographically pure, produced by Yucheng Chemical Plant of Shandong Yuwang Industrial Co., Ltd.), formic acid (chromatographically pure, produced by TEDIA).
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10

Genomic DNA Extraction from Tibetan Citizen

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We sampled blood from 131 healthy and unrelated citizens (63 males and 68 females) of the Ngawa Tibetan in the Ruoergai county of NTQAP while observing the principle of informed consent. The FTA card and Chelex-100 were used to extract genomic DNA [22 ]. A blood spot sample measuring 1 mm in diameter was taken from each using a puncher. It was subsequently put in a 600 μl centrifuge tube. 400 μl of double distilled water (ddH2O) was then poured into the centrifuge tube shaken for 5 s, and waited for 30 min at room temperature. A high-speed centrifuge (Thermo Fisher, USA) was applied to centrifuge the tubes for 3 min at 12,000 rpm. After removing the supernatant, 35 μl of 5 % Chelex-100 was supplemented, and the tube was kept in a water bath at 56 °C for 30 min. Then it was shook for 5 s and placed in a bath of boiling water for 8 min, and finally, centrifuged at top speed for 3 min. The 20 μl of supernatant was transferred into a fresh 600 μl tube and then amplified using PCR. The sample was stored in the refrigerator at −20 °C for use.
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