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64 protocols using vario el

1

Soil Physicochemical Characterization

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Physicochemical analyses of soil pH, conductivity, water content, and concentrations of soil organic carbon (SOC) and total nitrogen (TN) were performed as previously described [38 (link)]. In brief, the soil moisture was determined as the differences in mass of fresh soil dried at 105°C for 24 h. Air-dried soils were passed through a 100-mesh screen, then concentrations of SOC and TN were determined using the CHNS-analyzer system (Elementar Vario EL, Elementar Analysensysteme GmbH, Hanau, Germany) with the burning method at 450 and 1250°C, respectively. Soil pH was measured using 1M KCl (5 g soil in a 25mL solution), and soil conductivity was determined in 1:2 soil/deionized water slurry.
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2

Soil Nutrient Dynamics in Agricultural Research

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Within each plot, three soil samples at 0–30 cm depth were obtained at sowing, heading and maturity stages over the two growing seasons. To evaluate the differences of soil nutrient dynamics between treatments, each soil sample was collected by mixing the soil cores from three representative positions around each plant (Fig. 9). Each soil sample was air-dried at the time of the measurement and any visible extraneous material (e.g., residues, roots, and stones) was removed before the sample was ground, passed through a 2-mm sieve, and weighed. Soil organic carbon (SOC) and total nitrogen (STN) were measured using the dry combustion (450 °C) method with a CHNS analyzer (Elementar Vario El, Elementar Analysen Systeme GmbH, Hanau, Germany). Soil available phosphorus (SAP) was determined by extracting with 0.5 M NaHCO3 and analyzed using a UV-vis spectrophotometer37 (link). The C/N ratio was then calculated as the ratio of SOC to STN for each sample. Soil pH was determined by a pH electrode in a 5: 1 water:soil ratio slurry.
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Characterization of Organic Compounds

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All chemicals were purchased from commercial sources and used without further purification. Solvents were dried and distilled using conventional methods. Melting points were measured on Heiztisch Mikroskop—Polytherm A (Wagner & Munz, Germany). NMR spectra were performed on Agilent 400-MR DDR2 (1H: 400 MHz, 13C: 100 MHz). Deuterated solvents used are indicated in each case. Chemical shifts (δ) are expressed in ppm and refer to the residual peak of the solvent or TMS as an internal standard; coupling constants (J) are in Hz. The mass analyses were performed using the ESI technique on a Q–TOF (Micromass) spectrometer. Elemental analyses were carried out on Perkin–Elmer 240, Elementar vario EL (Elementar, Germany) or Mitsubishi TOX–100 instruments. All samples were dried in the desiccator over P2O5 under vacuum (1 Torr) at 80 °C for 8 h. The IR spectra were measured on an FT–IR spectrometer Nicolet 740 or Bruker IFS66 spectrometers equipped with a heated Golden Gate Diamante ATR–Unit (SPECAC) in KBr. A total of 100 Scans for one spectrum were co–added at a spectral resolution of 4 cm−1. The courses of the reactions were monitored using TLC aluminium sheets with Silica gel 60 F254 (Merck). The column chromatography was performed on Silica gel 60 (Merck). HPLC was performed on Büchi Pure 850 FlashPrep chromatography instrument using Prontosil, 150 × 20 mm, 5 μm column.
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Leaf Nitrogen Concentration Analysis

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To determine the nitrogen concentration of the two leaf fractions, the samples of the second and final biomass cut were homogenized per fraction and plant with a GRINDOMIX GM 200 (Retsch GmbH, Haan, Germany) and then analyzed according to [64 ] with a thermal conductivity detector Elementar Vario EL (Elementar, Langenselbold, Germany).
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5

Determination of Soil Organic Carbon

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To quantify the TOC (Fig. 4, Supplementary Table 1 and Supplementary Figs. 2, 3 and 5), soil samples from each layer were dried at 60 °C until the weight remained constant. The dry soils were then ground and acidified with 16% HCl to remove the inorganic carbon. After washing with deionized water and subsequent drying, the TOC content was analyzed by an Elementar vario El (Elementar Analysensysteme GmbH, Germany). The TOC content goes in line with previously reported values69 (link)–71 (link). For the TOC analysis, the calibration curves were r2 > 0.998 and the standard deviations of the triplicate analysis were <1%.
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6

Elemental Analysis of Plant Tissues

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Total phosphorus (P), nitrogen (N), carbon (C), sodium (Na) and potassium (K) contents were determined in plants (Gericke and Kurmies, 1952 (link)). Shortly, 200–300 mg of dried powder of shoots were digested in 5 mL 65% HNO3 and 2 mL of 30% H2O2 at 200°C for 15 min in a microwave (MARSXpress 250/50; CEM Corporation, North Carolina, United States). Distilled water was added to the digested samples to reach a volume of 25 mL. After filtration, P concentrations were obtained using a colorimetric spectrophotometer (EPOS 5060 analyzer, Eppendorf, Germany) at the wavelength 436 nm (Gericke and Kurmies, 1952 (link)). For N and C quantification, the filtrate was analyzed in an elemental analyzer (Elementar Vario EL, Elementar, Germany) according to DUMAS method (Dumas, 1831 ). Na and K concentrations were determined in the filtrate by emission spectroscopy with an emission spectrophotometer (ICP-OES, Thermo Fisher Dreieich, Germany) by using wavelengths of 589 and 592 nm for Na and 766 and 490 nm for K (Gericke and Kurmies, 1952 (link)). Inocula preparation, plant experiments and post-harvest analyses were carried out in laboratories and phytochambers of Leibniz Institute of Vegetable and Ornamental Crops (IGZ), Germany.
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7

Soil Methane Uptake and Nutrient Analysis

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Headspace methane was determined using gas chromatography (GC) coupled to a thermal conductivity and pulsed discharge helium ionization detector (7890B, Agilent Technologies, JAS GC systems, Moers, Germany). The rate of methane uptake was determined by linear regression from the slope of methane depletion. Total carbon and nitrogen concentrations were determined using an elemental analyzer (Vario EL, Elementar Analysen-Systeme, Hanau, Germany) from oven-dried (40 °C) and sieved (0.4 mm) soil. Total inorganic nitrogen (ammonium and nitrate) contents in the soil were determined in 2 M KCl (1:2 dilution) using standard colorimetric methods as described before [30 (link)]. Gravimetric water content (%) was determined after drying the soil in the 60 °C oven until constant weight. Soil pH and EC were determined using a pH meter (Mettler-Toledo, GmbH, Giessen, Germany) and an EC probe (Hanna Instruments, Langnau bei Reiden, Switzerland), respectively.
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8

Soil Physicochemical Analysis Protocol

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The soil water content (WC) was determined gravimetrically after drying in an oven at 105 °C for 24 h. Soil pH values were measured after making 1:5 soil: water slurry with a pH meter (Göttingen, PT-10, Sartorius, Germany), and the electric conductivity (EC) of the soil was analyzed using a conductivity meter. Total nitrogen (TN) and total organic carbon (TOC) of soil samples were quantified using an automatic element analyzer (Elementar Vario-EL, Langenselbold, Germany) [27 (link)]. The total dissolved solids (TDS) were measured by a conventional conductivity meter.
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9

Characterization of RBBF-C9 Polysaccharide

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The general properties of RBBF-C9 were determined according to a previous study [16 (link)]. The content of polysaccharides in RBBF-C9 was analyzed by using the phenol–sulfuric acid method using glucose as the standard [68 ]. The Bradford method was performed to determine the protein content with bovine serum albumin as the standard [69 (link)]. Gel permeation chromatography was carried out to identify the molecular weight of RBBF-C9 using a Hitachi L-6200 system controller [42 (link)]. Elemental analysis was performed using an elemental analyzer (Elementar vario EL, Germany). The functional groups of RBBF-C9 were analyzed by using a fourier transform infrared (FTIR) spectroscopy (Bruker Tensor 27, Germany) in a wavelength range from 600 to 4000 cm−1.
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10

Determining Cellular Phosphorus and Chlorophyll

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The phosphorus content of cells was determined as the total phosphorus concentration in the fresh medium divided by the biovolume concentration of the culture at sampling, assuming that, under P-limitation and axenic conditions, all phosphorus was incorporated into the cells. Biovolume was measured with a cell counter (CASY, Modell TTC, Schärfe System, Germany). Carbon content was measured with a C/N analyser (Vario EL, Elementar Analysensysteme, Hanau, Germany) after collecting cells on pre-rinsed, pre-fired and pre-weighed filters (Munktell 25 mm). Chlorophyll a was measured for each culture at each dilution rate and experimental treatment with a Waters Alliance (Milford, USA) high performance liquid chromatography (HPLC) system with photodiode array detector, according to the method of Shatwell et al. [38] . In addition, each time a culture was sampled, chlorophyll content was measured using the chlorophyll fluorescence, Fo, calibrated against the HPLC measurements. Chlorophyll content for each culture was then taken as the mean of the HPLC and fluorescence measurements.
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