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9 protocols using polypropylene tube

1

Tracing Vascular Connectivity in Sweet Pepper Leaves

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Rhodamine-B (Sigma-Aldrich, St Louis, MO, USA) was used to track the vascular connectivity of different leaves to leaf four of sweet pepper plants following the protocol described in Orians et al. (2000 (link)) (Supp Mat Methods). Briefly, leaf tissue of leaf four of six plants was removed, and the main vein and part of the petiole was inserted in a 15 ml polypropylene tube (Greiner Bio-One GmbH, Germany) filled with a solution of Rhodamine-B 0.1% (w/v). After 4 h, 24 h, 48 h, leaves 3, 5 and 6 were excised and the distribution of Rhodamine-B in each leaf was tracked using an UV transilluminator (Syngene, UK) with an exposure time of 1.84 s for all pictures.
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2

Isolation of Saprolegnia parasitica Protoplasts

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Mycelium from Saprolegnia parasitica strain CBS 223.65 was grown in Pea Broth (125 g of boiled and filtered peas per Litre) for 2 d at 24 °C, washed with sterile distilled water and collected in a 50 ml polypropylene tube (Greiner). For each 1 ml of mycelium a 3 ml solution of 10 mg ml−1 Cellulase (Sigma) and 5 mg ml−1 of Glucanase (Novozyme) diluted in 0.5 M sorbitol was prepared and added to the corresponding mycelium. The mixture was placed on a shaking platform for 90 min at room temperature (RT) to allow enzymatic cell wall degradation. The resulting protoplasts were filtrated using a 70 μm cell strainer (Fisherbrand) and washed three times with 5 ml sorbitol (0.5 M) by centrifugation (1200 g, 4 °C, 5 min) eliminating enzyme residues. The protoplasts were finally resuspended in 5 ml sorbitol (0.5 M) and two samples were counted two times each using a haemocytometer. To test protoplast regeneration ability ∼1000 protoplasts were inoculated into 20 ml Pea Broth and incubated at 18 °C for 24 h.
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3

Elemental stock and reference material preparation

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A multi-element stock standard (10 mg kg−1, IV71-A) and single-element standards (1000 mg kg−1) for Na, Ca, P, S, K and Fe were purchased from Inorganic Ventures, Christiansburg, VA, USA. Certified reference material (CRM) ERM-CE278k (mussel tissue) was purchased from European Reference materials and SLRS-6 river water CRM was purchased from National Research Council Canada. Nitric acid (65%, analytical grade) and hydrogen peroxide (30%, analytical grade) were purchased from Merck and Univar (Ajax Finechem Pty Ltd) respectively. Type 1 water was distilled and deionised using a Millipore Milli Q Reference water purification system (18.0 mΩ resistivity). Polypropylene tubes (15 mL) were purchased from Greiner. Minisart Syringe Filters (0.45 µm, cellulose acetate) were purchased from Sartrious, Germany. An Ohaus dry heat block was used for heating samples.
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4

Intramolecular and Intermolecular Disulfide Bond Formation in hLF Peptides

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For the intramolecular oxidation
of hLF peptides, peptides were dissolved to 5 mM in 50 mM 4-(2-hydroxyethyl)-1-piperazineethanesulfonic
acid (HEPES; Cat No. H4034, Sigma-Aldrich, St. Louis, MO, USA) buffer,
at pH 8.0. For intermolecular disulfide bond formation, peptides were
dissolved in 50 mM HEPES at pH 9.0 at a final peptide concentration
of 50 mM. After dissolution, the pH was adjusted with 0.1 M NaOH.
In either case, 30 μL of peptide solution was added to polypropylene
tubes (Greiner Bio-One, Kremsmünster, Austria, Cat No. 673210)
and incubated in a T300 thermocycler (Biometra, Göttingen,
Germany) for 2 h at 37 °C for the formation of intramolecular
disulfide bonds (mono-hLF), and for 24 h at 37 °C for the formation
of intermolecular disulfide bonds (poly hLF). Samples were diluted
in 20 mM citrate buffer at pH 5.0 or MQ water to stabilize the formed
disulfide bonds.
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5

Evolutionary adaptation of strain IMU048

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Sequential batch cultivation of strain IMU048 was performed in 10 mL SM (Verduyn et al.1992 (link)) with 20 g L−1 sucrose, in 50 mL polypropylene tubes (Greiner Bio-One, Frickenhausen, BW) in an Innova incubator shaker (New Brunswick Scientific), at 200 rpm and at 30°C. At the end of each cultivation cycle (OD660nm, 3–4.2), 0.1 mL of culture was transferred to fresh medium to start a next cycle. In total, 30 transfers were carried out in 70 days, which accounts for ∼180 generations. One single-colony isolate from each evolution line was obtained by restreaking three times on non-selective medium (YPD) plates.
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6

Extraction and Quantification of Endotoxin from Cloacal Swabs

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An aliquot from pyrogen-free water and Tween was used to elute cloacal swabs (N = 144) collected for the analysis on the fecal microbiome, and a small volume (1 mL) was also used for the analysis of endotoxins. Samples were thawed at room temperature and then transferred to 15-mL polypropylene tubes (Greiner Bio-One B.V., Etten Leur, Netherlands) and agitated for 1 h at an end-over-end roller at room temperature. The samples were then centrifuged for 15 min at 1,000 × g, and the supernatant was aliquoted and stored frozen at −20°C. Analyses were conducted in glass tubes, rendered pyrogen-free by heating for 4 h at 200°C. Endotoxin content in the samples was analyzed by testing the samples in a 1:1,000 dilution with pyrogen-free water (B. Braun medical B.V., Oss, Netherlands) in a kinetic chromogenic Limulus amebocyte lysate (LAL) assay (Lonza, Verviers, Belgium), as described previously and in accordance with recommendations by Spaan et al. (2008) (link). Endotoxin content was expressed as endotoxin units per ml (EU/mL).
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7

ICP-MS Determination of Zn and Ag

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Elements were determined in the samples after mineralization with nitric acid using ICP-MS. Briefly, the liquid samples (∼500 mg weighed to 0.1 mg) were placed in 12 ml quartz vessels, 1 ml subboiled nitric acid was added and the samples were placed in the autoclave (UltraCLAVE IV, EMLS, Leutkirch, Germany). Then the autoclave was pressurized with argon to 40 bars and the samples heated in 45 min to a temperature of 250 °C and kept at this temperature for 45 min. After cooling the samples were transferred into 15 ml polypropylene tubes (Greiner Bio-One). Zn (determined at m/z 66) and Ag (determined at m/z 107) were determined with ICP-MS (Agilent 7500ce, Agilent Technologies, Waldbronn, Germany) after appropriate dilution. The accuracy of the results was validated with the certified reference material 1640a (trace elements in water, NIST, Gaithersburg, ML, USA).
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8

EV Production from LPS-Stimulated THP-1 Cells

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For EV production and harvest, THP-1 cells were collected in 50 ml polypropylene tubes (Greiner Bio One, Frickenhausen, Germany, #227261) by 10 minutes of centrifugation at 200 rcf and 20°C in a swinging bucket Rotanta 460 R centrifuge (Hettich, Tuttlingen, Germany). Next, they were seeded at a density of 1×106 cells/ml in a T75 cm2 tissue culture treated cell culture flask (Greiner Bio One, #658170) in 15 ml of RPMI 1460 medium with GlutaMAX supplemented with 2% EV-depleted FBS (Gibco, #A2720801), and stimulated with 100 ng/ml lipopolysaccharide (LPS) from E. coli serotype 055:B5 (Sigma-Aldrich, St. Louis, USA, #L2880). After 24 hours of incubation at 37°C, 5% CO2 and 95% humidity, cells and the conditioned cell medium were collected.
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9

In Vitro Release of Ophthalmic Inserts

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The in vitro VHCl release test I has been used to investigate the release properties of inserts (prepared by means of a syringe of 2 mm in diameter and 4 mm in length) in the freshly prepared simulated tear fluid (NaHCO3 0.218 g/100.0 mL, NaCl 0.678 g/100.0 mL, CaCl2 × 2H2O 0.0084 g/100.0 mL, KCl 0.138 g/100.0 mL, Milli-Q® water up to 100.0 mL; pH = 7.4) [39 (link)], simulating the administration in the eye topically. The trials have been done in triplicate, at 32 ± 0.5 °C, using 1.5 mL polypropylene tubes (Greiner Bio One GmbH, Frickenhausen, Germany) filled with 1 mL of the release medium and an insert (10–20 mg), shaken at 300 rpm by the Eppendorf Comfort thermomixer (Eppendorf AG, Hamburg, Germany).
The release pattern was investigated at the time point: 0, 5, 10, 30, 60, 120, 180, 360, 600, 1440, 2880 min, centrifuged (Centrifuge Eppendorf 5804R, at 24 °C, 14,000 rpm, 10 min) and analyzed using the later described HPLC method.
The Higuchi diffusion equation was used to check if the release pattern could be described by diffusion:
where Q is the amount of the drug released in time t per unit area A, D is the diffusion coefficient of the drug molecules, C is the initial concentration of the drug, and Cs is the solubility of the drug in the matrix media [40 (link)].
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