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12 protocols using na2po4

1

Synthesis and Characterization of Inorganic Compounds

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Tb4O7 (99.99%), NH4F (99%), 3,5-DHBA (97%), Na2WO4·2H2O (99%), NaIO3 (99%) NH4VO3·2H2O (99%), NaNO3 (99%), Na2EDTA (99%), Na2PO4 (99%),
NaClO4 (98%), CH3COONa (99%), Na2SO4 (99%), K2Cr2O7 (99%),
Na2MoO4·2H2O (99.5%), KSCN (99%),
Pb(NO3)2 (99%), and D2O (99.9 atom
% D) were purchased from Sigma-Aldrich (www.sigmaaldrich.com). Ca(NO3)2 (98.5%), KMnO4 (99%), NaNO2 (97.5%), trisodium citrate·2H2O (99%), Zn(NO3)2·6H2O (99%), Cd(NO3)2·4H2O (97%), Hg(NO3)2·H2O (97%), KCN (97%), HNO3 (65%),
HCl (35–38%), and NaOH (98.8%) were purchased from POCH (Poland)
(www.poch.com.pl). Deionized
water was used for synthesis and experiments. All chemicals were of
analytical grade and used without further purification.
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2

Surface Functionalization Using PEG-Lipoamide

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Silicon substrate was obtained from Ted Pella Inc. (Redding, CA, USA). Chemicals, including NaCl, Na2PO4, EDC, NHS-sulfo and human serum albumin (30% in 0.85% sodium chloride) were purchased from Sigma Aldrich (Oakville, Ontario, CA). The ligands carboxy-PEG12-lipoamide (PEG12-CL), were purchased from Fisher Scientific (Rockford, IL, USA). Deionized (DI) water with resistivity of 18 MΩ·cm from Milli-Q-water purification system (EMD Millipore, Billerica, MA, USA) was used in all the experiments.
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3

X-Gal Staining Assay for FS Cells

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FS cell lines were plated in two well slide chambers. Following irradiation or treatment with rWnt5A cells were washed with PBS and fixed using a fixative solution (Biovision, San Francisco, CA). The cells were incubated at room temperature for 5 min and washed 3 × 5 min in PBS. The slides were then incubated in staining solution at 37° C over-night. The staining solution contained 150 mM NaCl (Sigma, St. Louis, MO), 2 mM MgCl2 (Sigma), 5 mM K3Fe(CN)6 (Millipore), 5 mM K4Fe(CN)6 (Millipore), 40 mM Na2PO4 (Sigma) pH 5.5, 20 mg/ml X-gal (Applichem, Darmstadt, Germany) in ddH2O.
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4

Cytosol-Mimicking Solution for Nickel Binding

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A solution mimicking cytosol was prepared in 20 mM ammonium acetate (AA) (Sigma-Aldrich) pH 6.5 containing (final concentrations) 2 mM Na(citrate) (Fisher Chemical)13 (link), 5 mM GSH (Sigma-Aldrich)14 , 500 μM GSSG (Sigma-Aldrich)15 (link), 5 mM Na2ATP (Sigma-Aldrich)16 (link), 500 μM NaADP (Sigma-Aldrich)16 (link), 200 μM Na2AMP (Sigma-Aldrich)16 (link), 100 μM cysteine (Sigma-Aldrich)17 (link), 50 mM Na(glutamate) (Sigma-Aldrich)13 (link), 5 mM aspartate (MP Biomedicals)13 (link), 70 μM histidine13 (link), 5 mM Na2PO4 (Sigma-Aldrich)18 , and 3 kDa-filtered Na(polyphosphate) (Sigma-Aldrich)18 . The composition of the pFTS was designed to mimic the potential Ni-binding ligands in the cytosol and near to cytosolic concentrations. The pFTS had lower salt concentration and lacked species that were considered unlikely ligands to Ni. Individual standard nickel complexes were prepared by mixing NiSO4 and stock solutions of individual ligands (previously described in ref. 10 (link)) to a final concentration of 2 μM Ni and various desired, final concentrations of the ligand. Standards were prepared fresh on the day of analysis and stored anaerobically at 5 – 10 °C prior to injecting them onto columns.
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5

Immunocytochemistry of Podocyte Proteins

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Human differentiated podocytes were cultured on glass coverslips in 6‐well plates, were fixed by acetone for 5 min. at room temperature, and permeabilized by 0.6% Triton‐X‐100 (Sigma‐Aldrich) in PBS (115 mM NaCl, 20 mM Na2PO4, pH 7.4; all from Sigma‐Aldrich) for 10 min. Following 30 min. incubation in blocking solution [0.6% Triton‐X‐100 and 1% bovine serum albumin (BSA) containing PBS; Sigma‐Aldrich] at room temperature, cells were probed with the previously mentioned primary antibodies raised against TRPC6 (1:50), podocin (1:100) and synaptopodin (1:100) overnight at 4°C. Following appropriate washing in PBS, coverslips were incubated with Alexa‐488®‐conjugated goat anti‐mouse and goat anti‐rabbit secondary antibodies (1:200, Invitrogen) for 1 hr at room temperature. Nuclei were counterstained with propidium‐iodide (Vector Laboratories, Peterborough, UK). Negative control cells were stained omitting the primary antibodies. Visualization of the proteins was performed using Zeiss LSM 510 Meta Confocal Microscope (Zeiss, Oberkochen, Germany). The exposure time and all other settings (gain, gamma and intensity of the excitation) were exactly the same in all cases, including the negative controls.
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6

Perfusion-Based Tissue Harvesting Protocol

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Tissue was harvested using our well-established two-stage perfusion protocol allowing for the harvest of both live tissue and fixed tissue (Amatrudo et al., 2012 (link)) for parallel experiments not in the present study. After sedation with ketamine hydrochloride (10 mg/kg) the monkeys were deeply anesthetized with sodium pentobarbital (to effect, 15 mg/kg, i.v), and then perfused through the ascending aorta with ice-cold Krebs–Henseleit buffer containing (in mM): 6.4 Na2HPO4, 1.4 Na2PO4, 137 NaCl, 2.7 KCl, 5 glucose, 0.3 CaCl2, and 1 MgCl2, pH 7.4 (Sigma-Aldrich). Fresh tissues were collected from the left hemisphere for parallel biochemical and electrophysiological studies not in the present study. Once the fresh tissue harvest was complete, the perfusate was switched to 4% paraformaldehyde in 0.1M phosphate buffer (PB, ph 7.4, at 37°C) to fix the remaining whole brain. The fixed brain sample was blocked, in situ, in the coronal plane, removed from the skull, cryoprotected in a series of glycerol solutions, and flash-frozen in −70°C isopentane (Rosene et al., 1986 (link)). The brain was cut on a freezing microtome in the coronal plane at 30 or 60 μm and stored in cryoprotectant (15% glycerol, in 0.1M PB, pH 7.4) at −80°C (Estrada et al., 2017 (link)).
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7

Osteogenic Induction and Calcium Quantification

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Osteogenic induction medium was composed of 10% FBS-αMEM supplemented with 0.1 μM dexamethasone (Sigma-Aldrich, St. Louis, MO, United States), 10 mM β-glycerophosphate (Sigma-Aldrich) and 50 μM L-ascorbic acid 2-phosphate (Sigma-Aldrich) (Jaiswal et al., 1997 (link)). For each sample, 5 × 104 cells per cm2 were seeded into a 6-well plate. After reaching confluence in 2 days, the cells were incubated with osteogenic induction medium. The medium was changed every 3 days, and analyses were performed after 14 days of induction. To assess calcium precipitation, the induction medium was removed, and the cells were washed once with PBS. Next, the cells were fixed with 10% formaldehyde (Sigma-Aldrich) for 10 min with gentle shaking, and after another wash with PBS, the cells were stained with 500 μL of 2% ARS (pH 4.1–4.3) (Sigma-Aldrich) for 15 min. After extensive PBS irrigation, the precipitate was dissolved in 500 μL of 10% cetylpyridinium chloride (Sigma-Aldrich) in 8 mM Na2PO4 (Sigma-Aldrich) and 1.5 mM KH2PO4 (Sigma-Aldrich). The absorbance at 550 nm was recorded, and quantification of calcium was determined using an optimal ARS standard curve. The optimal dilution was performed to ensure that the sample absorbance fell within the standard curve.
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8

Senescent Fibroblast Staining Protocol

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Fibroblasts were plated into 12-well dishes, incubated for 48 h, washed with PBS and fixed in 2% formaldehyde/0.2% glutaraldehyde. Cells were then incubated in staining solution (150mM NaCl, Sigma, St. Louis, MO), 2mM MgCl2 (Sigma), 5mM K3Fe(CN)6 (Millipore), 5mM K4Fe(CN)6 (Millipore), 40mM Na2PO4 (Sigma) pH5.5, 20mg/ml X-gal (Applichem, Darmstadt, Germany) at 37°C overnight. Stain was removed and cells were stored in 70% glycerol before being imaged.
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9

Senescent Fibroblast Staining Protocol

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Fibroblasts were plated into 12-well dishes, incubated for 48 h, washed with PBS and fixed in 2% formaldehyde/0.2% glutaraldehyde. Cells were then incubated in staining solution (150mM NaCl, Sigma, St. Louis, MO), 2mM MgCl2 (Sigma), 5mM K3Fe(CN)6 (Millipore), 5mM K4Fe(CN)6 (Millipore), 40mM Na2PO4 (Sigma) pH5.5, 20mg/ml X-gal (Applichem, Darmstadt, Germany) at 37°C overnight. Stain was removed and cells were stored in 70% glycerol before being imaged.
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10

Phosphopeptide Enrichment and Purification

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The protocol for CPP was performed as previously reported [28] . A total of four solutions were prepared: solution 1 (0.5M Na2PO4 (Sigma-Aldrich), solution 2 (2M NH4OH), solution 3 (2M CaCl2 (Sigma-Aldrich) and wash solution (80mM CaCl2). For each replicate, 200 µg of peptides were dissolved to 400 µL with mQH2O and the pH was adjusted to 9-10 using solution 2, then added 32 µL of solution 1 and solution 2 and mixed. 32 µL of precipitation solution 3 were added and the mixture was vortexed for 1 min before centrifugation at 20,000g for 10 min at room temperature. The supernatant was discarded (containing non-phosphorylated peptides) and 480 µL of wash solution were added to the pellet, mixing up and down with the pipette until suspended, then centrifuged again at 20,000g for 5 min. The washing and centrifugation steps were repeated once more, and the liquid was once again discarded. The pellet was dissolved in 160 µL of ice-cold 5% FA. The phosphopeptides were de-salted using tC18 Sep-Pak cartridges (Waters) as described previously.
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