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171 protocols using gf f filter

1

Quantification of Seawater Nutrients and Biomass

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Seawater for nutrients (NO3, NO2, NH4, PO4, and SiO4) was filtered through GF/F filters (Whatman, United States) and frozen at −20°C until analyzed by an AA3 auto-analyzer (SEAL, Germany). Dissolved inorganic nitrogen (DIN) concentrations were the sum of NO3, NO2, and NH4 concentrations (Grasshoff et al., 1999 ).
For Chl a samples, 1 L seawater was filtered onto the GF/F filters (Whatman, United States) and then the filters were kept at −20°C. Chl a concentrations were measured with a fluorometer (Turner Designs Trilogy, United States) after acetone extraction at 4°C for 24 h (Parsons, 1985 ).
Water samples for Dissolved organic carbon (DOC) were filtered through pre-combusted (450°C for 4 h) GF/F filters (Whatman, United States) and stored in pre-combusted glass vials at −20°C. DOC concentrations were analyzed with an auto-analyzer (Shimadzu TOC-VCPH, Japan) (Alvarez-Salgado and Miller, 1998 (link)).
Bioavailable dissolved organic carbon at the end of the incubation in mesocosm experiments was determined by the declined DOC concentrations over the 30-day incubation at room temperature.
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2

Multiparameter Analysis of Aquatic Environments

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The physical and chemical parameters of these sites (i.e., temperature, conductivity and pH) were measured in situ with a Thermo Scientific Orion Star multiparameter device (model A329). To determine nitrate, nitrite, phosphate and silicic acid, water samples (60 mL) were taken in triplicate, filtered through a GF/F filter (Whatman®, Buckinghamshire, UK) and stored at −20°C. These nutrient samples were analyzed using colorimetric methods (Strickland and Parsons, 1972 ) with an automatic nutrient analyzer (Atlas et al., 1971 ). To determine chlorophyll-a concentration, 200 mL water samples were filtered through a GF/F filter (Whatman®, Buckinghamshire, UK). The filters were stored at −20°C to then be analyzed using the fluorometric method (Caspers, 1970 (link)) in a Turner A10 fluorometer.
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3

Quantification of Particulate and Dissolved Organic Carbon

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Particulate carbon was collected on pre-combusted GF/F filters (25 mm, Whatman Nuclepore), which were stored at -20°C until analysis. The filtration volume (80–380 mL) was adjusted to the particle loading of the seawater. Filters were treated with 200 μL of carbon-free HCl (0.2 N) to remove inorganic carbon and dried at 60°C for approximately 48 h. After drying, filters were packed into small Zn-cartridges and analyzed using an elemental analyzer (Euro EA 3000, EuroVector Instruments & Software, Italy).
For analysis of DOC concentration, seawater was filtered through combusted (400°C, 4 h) GF/F filters (0.7 μm, Whatman), and 15 mL was sealed in combusted glass ampoules. Samples were stored at -80°C in the dark. Some of the ampoules were damaged during transport to the mainland, resulting in reduced temporal resolution. Acidified samples (pH 2, HCl) were analyzed using high-temperature catalytic oxidation (Sugimura and Suzuki, 1988 (link)) on a Shimadzu total organic carbon (TOC)-VCPH instrument with analytical precision better than 5% for three replicate samples. Accuracy was tested in each run against deep Atlantic seawater reference material (D.A. Hansell, University of Miami, FL, USA) and was better than 5%.
Total organic carbon (TOC) was calculated as the sum of particulate organic carbon (POC) and DOC.
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4

Phosphorus Analysis in Lake Water

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Samples of approximately 10 L of lake water were filtered using pre-combusted 0.7 μm GF/F filters (Whatman) for PP analysis. The filtrates were mainly used for dissolved P analysis. Samples of approximately 1 L of lake water were collected and filtered using pre-combusted and weighed 0.7 μm GF/F filters (Whatman, Meterstone, Britain) for suspended particulate matter (SPM) and particulate organic matter (POM) analysis. The subsamples without filtration were measured for total P (TP).
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5

Melt Pond Water Analysis Protocol

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To extract Chl a, 500 mL of melt pond water was filtered onto GF/F filters (Whatman) and the filters were placed in test tubes containing 10 mL ethanol (96%). The samples were stored in darkness at −18 °C until analysis using a fluorometer (Turner TD-700 fluorometer, Turner Designs, California, USA). For POC determination, an additional 500 ml was filtered through separate pre-combusted GF/F filters (Whatman). These filters were stored frozen (−18 °C) in pre-combusted aluminum foil packages. For analysis, the filters were acidified to remove inorganic carbon and thereafter packed into tin capsules for determination of the organic carbon content using a solid phase elemental analyzer (CHN EA1108-Elemental analyzer, CARLO ERBA). For determination of PO43−, NO3 and Br concentrations, 50 mL of the filtrate was stored frozen (−18 °C). PO43− and NO3 concentrations were measured by standard procedures as described in Grasshoff et al. (1983 ) and García-Robledo et al. (2014 (link)), respectively, while Br concentrations were measured using ion chromatography (IC, Dionex IC S-1500; Forster et al. 1999 (link)).
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6

Quantifying Size-Fractionated Chlorophyll a

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Seawater samples for total chlorophyll a (Chl-a) concentration were filtered onto 25 mm GF/F filters (Whatman, nominal 0.7 μm pore size). For size-fractionated Chl-a, the samples were passed sequentially through 20 μm and 2 μm membrane filters and then 47 μm GF/F filters (Whatman, nominal 0.7 μm) with gentle pressure. Chl-a was extracted in 90% acetone for 24 h at 4°C following Parsons et al. (1984) and quantified using a Trilogy fluorometer (Turner Designs, United States), which had been calibrated with commercially purified Chl-a preparations.
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7

Determination of Dissolved Nutrients and Chlorophyll a

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Dissolved inorganic nutrients were determined from the depthintegrated water samples, filtered over pre-washed GF/F filters (Whatman, Maidstone, UK), and the filtrate was stored at -20 °C. Concentrations of dissolved nutrients (NH 4 + , NO 3 -, NO 2 -, and PO 4 3-) of thawed samples were determined on a QuAAtro39 Auto-Analyzer (SEAL Analytical Ltd.).
2.6. Biological measurements 2.6.1. Chlorophyll a concentrations Chlorophyll a (Chl a) in the water column was determined from filtered material retained after filtering 10-200 mL of the depth-integrated water subsamples on GF/F filters (Whatman, Maidstone, UK) and stored at -20 °C. The Chl a samples were measured within one month after sampling. After thawing, the filters were extracted with 80% ethanol in an 80 °C water bath, thereafter a further filtration through Milipore Milles FG 0.2 μm membrance filters, Chl a concentrations were measured by High Performance Liquid Chromatography (HPLC, UltiMate 3000 (Thermo Scientific)) equipped with a Hypersil ODS column (25 cm, 5 μm, 4.6 × 250 mm; Agilent) and a RF 2000 fluorescence detector (Dionex/ Thermo Scientific).
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8

Algal DNA Extraction from Surface Water

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Depending on the turbidity, 100–150 mL of surface water was filtered through a 47-mm Whatman GF/F filter to collect an algal sample for DNA extraction. The filter was immediately sprayed with 75% ethanol to preserve DNA, wrapped in aluminum foil, and refrigerated during transportation to the laboratory, where it was stored at –80°C until extraction. DNA was extracted from microorganisms using the Extrap Soil DNA Kit Plus ver. 2 (Nippon Steel & Sumikin Eco-Tech Corp., Tokyo, Japan) according to the manufacturer’s instructions. In brief, each filter was cut into small pieces and placed in a bead-beating tube, to which 950 μL of extraction buffer and 50 μL of lysis solution were added. Algal cells were disrupted using a homogenizer (FastPrep; MP Biomedicals, LLC, Santa Ana, CA, USA) at a speed of 6.0 m/s for 40 s, after which DNA was purified by using magnetic beads to produce 100 μL of DNA extract.
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9

Measuring Intracellular DMSP and Growth Rates

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Chlorophyll a (Chla) was measured by gently vacuum filtering 5–10 ml of culture onto a 25 mm Whatman GF/F filter. Filters were stored at −20°C until extraction in 2.5 ml of 90% HPLC‐grade acetone within 36 h of collection. Samples were analysed using a Turner Trilogy fluorometer (Welschemeyer, 1994). Cell counts were quantified using 1.5 ml of culture preserved with 20 µl of 37% formaldehyde (final concentration = 0.5%). Cell counts were then enumerated with light microscopy (Zeiss) using a 0.1 mm Neubauer haemacytometer (Hausser Scientific, Horsham, PA, USA). Cell images were taken using a Zeiss AxioCam MRc 5 at ×400 magnification and dimensions were measured using Matlab software (diameter for E. huxleyi and diameter and height for T. oceanica). Numbers of pixels along a straight line were converted to µm using an image of a stage micrometer for calibration. Cell biovolumes were calculated using the geometric volume formula of a sphere for E. huxleyi and a cylinder for T. oceanica. Cellular biovolumes for each species were used to calculate intracellular DMSP (Supporting Information Table S1). Finally, growth rates were calculated as: μ=logeXf-logeXit, where Xf is cell concentration at the final time point, Xi is cell concentration at the initial time point, and t is the interval between the measurements in days.
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10

Elemental Analysis of Avicennia marina Leaves

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Oven-dried (40°C for 48 h) matured leaves of A. marina were ground into powder using an agate mortar and pestle, then sieved the remains with a 53 μm sieve. We digested 0.2 g of the ground leaf in HNO3 and H2O2 (3:1) at 180°C for 45 min. We weighed 0.4 g of dried sediments and placed these samples into a 50 ml digestion vessel, then added 8 ml of HNO3: HCl (1:1). The vessel was placed inside Anton-Paar PE Multiwave 3000 microwave oven and digested at 200°C for about 1 hr [33 ]. The vessel was filled by adding Ultrapure Millipore Q water and placed on a shaker for 24 h. A GF/F filter (Whatman) was used to filter the solution, and later total phosphorus (TP) concentration was analyzed in the filtrate using a Varian 720-ES (ICP-OES) inductively coupled plasma-optical emission spectrometer.
A FLASH 2000 CHNS analyzer was used to determine total organic carbon (TOC) and total nitrogen (TN) after 2 mg of ground leaves were weighed and loaded into a tin capsule [34 ]. The Semimicro-Kjeldahl and K2Cr2O7/H2SO4 oxidation methodological protocol were followed to analyze nitrogen and carbon contents in sediments [35 ].
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