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14 protocols using 6 n hcl

1

Protein Acid Hydrolysis and Amino Acid Analysis

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The protein acid hydrolysis was performed in vacuum hydrolysis tubes (10 × 150 mm, Thermo Scientific, Rockford, USA). Aliquots of 1 mg protein samples were hydrolysed for 23 h at 110 °C under vacuum in the presence of 6 N HCl (Sigma-Aldrich, St. Louis, USA), at a ratio of 2.5 μg of protein per 1 μL of 6 N HCl. The hydrolysed samples were centrifuged at 2,000 × g for 5 min and the supernatants were diluted with ultra-pure water to obtain a 3 N HCl final concentration. Aliquots of 400 μL were concentrated to dryness. The residues were dissolved in 300 μL of ultra-pure water and filtered through a 0.45 μm syringe-tip filter.
Samples of 100 μL were resolved using a Supelcosil LC-8 column (25 cm × 4.6 mm ID, 5 μm particles, Sigma-Aldrich, St. Louis, USA) at 24 °C and a flow rate of 2 mL/min using an isocratic elution with 60 mM sodium acetate, pH 4.3 and a detection wavelength of 280 nm45 . An external calibration curve in a concentration range from 0.1 to 30 μg/mL FUR HCl salt (PolyPeptide Laboratories, France) was used.
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2

Free and Total Amino Acid Analysis in Rice

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For free amino acid (FAA) analysis, 50mg of milled and dried rice power was thoroughly mixed in 500 μL Na-S™ buffer (2% sodium citrate, 1% HCl, 0.1% benzoic acid; Beckman, USA) for 30min in a mixer and extracted for 10min via ultrasonication. The mixture was then centrifuged at 16 000rpm for 10min at room temperature. The supernatant was collected and filtered through a 0.45-μm nylon membrane syringe filter (Pall Life Sciences, USA) for injection and analysis using an L8900 Amino Acid Analyzer (Hitachi, Japan).
For total amino acid (TAA) analysis, 10mg of dry rice power was hydrolysed with 1mL of 6 N HCl (Sigma, USA) in a 2-mL screw-cap tube, followed by the addition of 10 nmol L(+)-norleucine (Wako Pure Chemicals, Japan). The samples were heated at 110°C for 24h, and the HCl was then evaporated for 6h at 65°C. Dried samples were dissolved in 1mL Na-S™ buffer and filtered for amino acid analysis as described above. Data obtained from HPLC were normalized with the level of L(+)-norleucine per sample. For each sample, two technical replicates were carried out.
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3

Quantifying Iron in SPIONs

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Solutions containing SPIONs were dissolved in 0.5 ml of 6 N HCl (Sigma-Aldrich, St. Louis, MO) at 95 °C overnight in sealed tubes. Aliquots (0.1 ml) of the resulting solution were assayed for iron spectrophotometrically using the Ferrozine assay (Sigma-Aldrich, St. Louis, MO) and reading the absorbance at 562 nm. Standard curves (n = 7) prepared using 1.00 mM FeCl3 (Sigma-Aldrich, St. Louis, MO) gave an extinction coefficient of 27,300 ± 971 liters/mole-cm. Note that here we use the chemist's notation for the iron concentration as [Fe].
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4

Quantification of Iron in SPIONs

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SPIONs, gels containing SPIONs, and SPION-labeled cell suspensions were dissolved in 0.5 mL of 6 N HCl (Sigma-Aldrich, St Louis, MO, USA) at 95°C overnight in sealed tubes. Aliquots (0.1 mL) of the resulting solution were assayed for iron using the Prussian blue reaction by adding them to 0.9 mL of 10% K4Fe(CN)6 (Sigma-Aldrich), incubating at 60°C for 30 minutes, and reading the absorbance at 690 nm. Standard curves (n=7) prepared using 1.00 mM FeCl3 (Sigma-Aldrich) gave an extinction coefficient of 9,165±148 L/mol cm.
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5

Quantitative Analysis of Phenolic Compounds

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Quantitative and qualitative determination of phenolic compounds was analysed by HPLC method, as described by Hertog et al. [44 (link)] and modified by Remiszewski et al. [40 ]. For the determination of phenolic compounds, the extract obtained earlier was subjected to acid hydrolysis in the presence of 6 N HCl (Sigma-Aldrich, Munich, Germany); then, the mixture was incubated at 90 °C for 2 h. The samples prepared in this way were filtered through filters with a diameter of 0.45 µm (Millipore) and subjected to chromatographic analysis. Separation of the compound mixture was carried out on an X-Terra C18 RP column (150 × 3.9 mm i.d. 5 μm) from Waters at 30 °C. The injection volume was 10 µL, and the flow rate of the mobile phase was 1 mL/min. The eluted fractions were monitored by UV–VIS detector (Waters Alliance, Taunton, MA, USA). The measurement time was 50 min. Formic acid (>98%), methanol (99%), and water were used as mobile phase (Sigma-Aldrich, Munich, Germany). A linear concentration gradient from 5% to 60% methanol was applied with a constant concentration of 5% Formic acid. The recording of the chromatographic spectra was carried out in the wavelength range from 240–520 nm. Compounds were identified on the basis of spectra and retention times comparable to the standards (Sigma-Aldrich, Munich, Germany).
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6

Macro Elemental Analysis via AAS

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The macro elements (Ca, K, Mg) were detected using atomic absorption spectroscopy (AAS) after the acidic dissolution of the organic matrix. In this regard, 3 g of sample was dissolved in 6 N HCl (Sigma-Aldrich Chemie GmbH, München, Germany), and kept overnight in an acidic solution. After filtration, the solution was brought to a volume of 50 mL, with distilled water. The metal content was determined by atomic absorption spectrometry technique, using a Varian Spectra 240 FS spectrophotometer (Palo Alto, CA, USA), using the following protocol: an air:acetylene ratio of 13.50:2, nebuliser uptake rate of 5 L/min, and working solutions with concentrations ranging from 0.3 to 3 μg/L, prepared from multi-element ICP standard solution 1000 mg/L.
The samples were divided into equal parts to establish a relationship between the remineralisation protocols and the macro elemental composition. To better evaluate the mineral content in the region submitted to the different remineralisation protocols, we submerged the entire sample surface according to protocol, therefore, not having lesions smaller than the entire surface taken into analysis. Using AAS, the entire sample was analysed, and the data were used for statistical analysis. The results were expressed as the value obtained divided by the mass taken into analysis before acid immersion, so the values obtained were easily extrapolated.
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7

Heme Preparation and Dosing in Mice

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Heme (Sigma-Aldrich, 52180) was prepared by adjusting the pH to 6.9–7.2 using 1N NaOH (Sigma-Aldrich) and 6N HCl (Sigma-Aldrich) solutions in PBS and then to a final concentration of 5 mg/mL in PBS. Mice were dosed at 50 mg/kg, i.p.
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8

Total Amino Acid Analysis of Rice Powder

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For total amino acid analysis, 10 mg of rice power of each sample was hydrolyzed with 1 mL of 6 N HCl (Sigma, USA) in a 2 mL screw-cap tube before adding 10 nmol l-(+)-norleucine (Wako Pure Chemicals, Japan). The samples were then heated at 110 °C for 24 h, followed by the treatment of 6 h at 65 °C in order to evaporate HCl completely. The residue was then dissolved in 1 mL Na-S™ buffer and centrifuged at 1600 × g for 10 min at room temperature. The supernatant was filtered with a 0.45 μm nylon membrane syringe filter (Pall Life Sciences, USA) and transferred to an autosampler bottle for amino acid analysis. HPLC data were normalized with the level of l-(+)-norleucine per sample. Three biological replicates were designed for each sample. Seventeen amino acids were measured, including alanine (Ala), arginine (Arg), aspartic acid (Asp), cysteine (Cys), glutamic acid + glutamine (Glu), glycine (Gly), histidine (His), isoleucine (Ile), leucine (Leu), lysine (Lys), methionine (Met), phenylalanine (Phe), proline (Pro), serine (Ser), threonine (Thr), tyrosine (Tyr), and valine (Val).
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9

Quantifying Extracellular Matrix Components

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AF and NP tissues were isolated from IVDs and immediately frozen at -80°C and lyophilized to determine dry weight. Lyophilized samples were then digested in papain solution (100mM Na2PO4, 5mM N-Acetyl-L-Cysteine, 5mM EDTA, 3.875 U/mL papain (Sigma-Aldrich)) at 65°C overnight. Digestate was then assayed for sulfated-GAG content using 1,9-Dimethyl-Methylene Blue assay with a chondroitin sulfate standard (2.5-25 µg/mL; Sigma-Aldrich). (34) To quantify collagen content, digestates were hydrolyzed for 1 hour at 121°C and 15 psi in 6N HCl (Sigma-Aldrich). Hydrolyzed digestates then underwent hydroxyproline assay as described by Cissell et al, (35) in conjunction with a hydroxyproline standard curve (5-35µg/ml; Sigma-Aldrich). Collagen content was inferred from hydroxyproline quantity using hydroxyproline : collagen percentage of 13.5%. (36) Sulfated-GAG and collagen content were respectively normalized to dry weight and were additionally expressed as the ratio of sulfated-GAG to hydroxyproline (GAG:HyPro).
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10

Quantitative Amino Acid Analysis

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The flag leaf blades at the heading stage and the mature seeds from transgenic plants, as well as WT, were harvested from the main tiller of each plant. For total amino acid analysis, 10mg of rice power of each sample was hydrolyzed with 1mL of 6N HCl (Sigma, United States) in a 2mL screw-cap tube before adding 10nmol L-(+)-norleucine (Wako Pure Chemicals, Japan). The samples were then heated at 110°C for 24h, followed by the treatment of 6h at 65°C in order to evaporate HCl completely. The residue was then dissolved in 1mL Na-STM buffer and centrifuged at 1,600 × g for 10min at room temperature. The supernatant was filtered with a 0.45μm nylon membrane syringe filter (Pall Life Sciences, United States) and transferred to an autosampler bottle for amino acid analysis. HPLC data were normalized with the level of L-(+)-norleucine per sample. Three biological replicates were designed for each sample. Seventeen amino acids were measured, including alanine (Ala), arginine (Arg), aspartic acid (Asp), cysteine (Cys), glutamic acid+glutamine (Glu), glycine (Gly), histidine (His), isoleucine (Ile), leucine (Leu), lysine (Lys), methionine (Met), phenylalanine (Phe), proline (Pro), serine (Ser), threonine (Thr), tyrosine (Tyr), and valine (Val) (Yang et al., 2018 (link)).
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