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25 protocols using deionised water

1

Explosives Detection in Soil Samples

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Standard protocols described by Baruah and Barthakur [27 ] and AOAC 990.08 [28 ] specifications were used to determine the physicochemical parameters of only two samples with highest concentration of explosives contamination (NS2 sample for SITE1 and PS2 sample for SITE2). The concentration of explosives in all samples was detected as per U.S, EPA, 8330 methods [29 ]. Briefly, the soil samples were analyzed using LC-20, HPLC system (Shimadzu, Kyoto, Japan) equipped with Restek ultra C18 column (25 cm × 4.6 mm) (Restek, Bellefonte, PA, USA) and a UV-photodiode array detector (9926). The mobile phase consisted of 46% methanol (Merck, Darmstadt, Germany) and 54% deionised water (Merck, Germany) at 1 mL/min flow rate. The sample injection volume used was 10 µL with absorption detection at 254 nm. Samples quantification was performed using EPA certified RDX/HMX standards (Cat 31450; Restek, Bellefonte, PA, USA,) and known concentrations of RDX and HMX.
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2

Atomic Force Microscopy of Amyloid

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AFM analysis was performed as described previously [82 (link)]. Shortly, amyloid samples were prepared by applying a drop of 10 μL medium on freshly cleaved mica, V1 grade (NanoAndMore GmbH, Germany). After incubation for 10 min, the sample was rinsed with deionised water (Merck Millipore Inc., Burlington, MA, USA) and dried under a gentle stream of argon. A Multimode 8 Nanoscope atomic force microscope (AFM, Bruker, Billerica, MA, USA) was used to image the surfaces of the mica substrate and the deposited amyloid structures.
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3

Characterizing DC Bead Drug Delivery

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DC Bead ® (300-500 μm in diameter) was provided by Biocompatibles UK Ltd (Farnham, UK).
Physiological buffered saline solution (PBS) and doxorubicin hydrochloride were purchased from Sigma-Aldrich Co. (Gillingham, UK). 1 μm diameter polystyrene microspheres conjugated with fluorescein isothiocyanate were purchased from Polysciences Inc. (Warrington, US).
Deionised water was purchased from EMD Millipore (Billerica, US).
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4

Preparation of Specific Inhibitor Solutions

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TRAF6‐specific inhibitor 6877002 (IC50 15.9 μm),88 NF‐κB‐specific inhibitor JSH‐23 (IC50 7.1 μm)89 and JAK3‐specific inhibitor PF‐06651600 (IC50 33.1 nm)90 were dissolved in DMSO and deionised water (all from Sigma‐Aldrich), respectively, and sterile filtered using a 0.22 μm mixed cellulose ester membrane filter (Merck, Burlington, VT, USA). Final DMSO concentrations did not exceed 0.3% (v/v) in cell culture experiments.
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5

Sustainable Green Tea Extract Production

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Olive oil was purchased from a local supermarket in Izmir, Turkey. Poly (vinyl) alcohol and deionised water were obtained from Sigma Aldrich, Turkey. Green tea leaf (Camellia sinensis) were obtained from Faculty of Agriculture, Ege University, Izmir, Turkey. Permission and proper guidance was done by Dean, Prof. Dr. Nedim KOŞUM, Faculty of Agriculture, Ege University, Turkey, the taxonomic position of these plant samples were identified and authenticated. This study complies with relevant institutional, national, and international guidelines and legislation. Other chemicals used were of analytical grade.
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6

Droplet digital PCR protocol

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Droplet digital PCR (ddPCR) assays, Supermix for probes, DG8TM cartridges and Droplet Generation Oil were obtained from BioRad Laboratories Ltd., UK. Deionised water, sodium chloride, phosphate buffered saline (PBS), sodium nitrate, 4-aminobenzoic acid, hydrochloric acid, ethanolamine, 2-(N-morpholino) ethanesulfonic acid (MES), 1-ethyl-3-(3-dimethylaminopropyl) carbodiimide hydrochloride (EDC), N-hydroxysuccinimide (NHS), potassium ferricyanide, potassium chloride and potassium ferrocyanide were all purchased from Sigma-Aldrich (Dorset, UK). 250 units HotStarTaq Plus and dNTP Mix, PCR Grade (200 μL) were purchased from Qiagen, (Manchester, UK). Phusion direct PCR kit was purchased from thermo scientific, (Renfrew, UK).
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7

Antimicrobial Potential of Natural Compounds

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Methanol (American Chemical Society [ACS] grade), chloroform (ACS grade), linoleic acid, ascorbic acid, β-carotene, 2,2-diphenyl-1-picrylhydrazyl (DPPH, 95%), dimethyl sulphoxide (DMSO), anhydrous sodium sulphate, sodium carbonate, Folin-Ciocalteu reagent, gallic acid, Tween 40, deionised water (DI) and Whatman filter paper no. 3, 6-mm diameter were purchased from Sigma-Aldrich, Oakville, Ontario, Canada. The microbes including, Staphylococcus aureus (ATCC 25923), Bacillus subtilis (ATCC 6633), Escherichia coli (ATCC 25922), Pseudomonas aeruginosa (ATCC 2785), C. albicans (ATCC 90028) were all obtained from the Department of Botany at JKUAT, Juja, Kenya.
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8

Evaluating PBGs Disc Degradation

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PBGs discs (n=3) were placed in 25 mL Sterilin Polypropylene Universal Container (Sterilin Ltd, Newport, UK), filled with 10 mL deionised water (Sigma-Aldrich, Dorset, UK) (pH 7.0 ± 0.5) and incubated at 37 °C. At various time points (24, 48, 72 and 120 h), the discs were removed, blot dried, weighed and placed into a fresh solution. The mass loss (Ml) was calculated from (M0-Mt)/A, where M0 is the initial weight (mg), Mt is the weight at time (t) and A is the surface area (mm 2 ). Ml was plotted against t and the degradation rate (mg.mm -2 h -1 ) was determined from the slope of the plot. The solution collected from the mass loss study was used for ion release and pH measurement.
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9

Surface Hydrophobicity Analysis of Endospores

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The static contact angles of deionised water (Sigma Aldrich, Ireland) were measured by sessile drop technique using contact angle meter (Theta Lite Optical Tensiometer, Biolin Scientific, UK). The surface hydrophobicity of uninoculated untreated glass slides, PE coupons and untreated glass slides was examined in addition to B. atrophaeus endospores inoculated on glass slides which were treated directly/
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10

Functionalized Nanoparticle Synthesis Protocol

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Citric acid, thiourea, urea, hexadecylamine, 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDC), N-hydroxysuccinimide (NHS), anhydrous dimethylformamide (DMF), and 0.22 μm pore size syringe filters containing a hydrophilic polyethersulfone (PES) membrane were purchased from Merck. Ethanol (EtOH), sodium hydroxide, ammonia, hydrochloric acid, and calcium chloride were purchased from Associated Chemical Enterprises (South Africa). Phenanthrene (PHE) standard (≥98% purity) was purchased from Supelco. Deionised water (DI, 9.2 μS cm−3) from a Milli-Q water purification system (Millipore, Bedford, MA, USA) was employed to prepare all the solutions. SnakeSkin™ 3.5 kDa MCOW dialysis tubing was purchased from Thermo Fisher Scientific (South Africa).
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