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9 protocols using h3bo3

1

Detailed Microbial Culture Protocol

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Chemicals were purchased from Sigma-Aldrich (Na2EDTA·2H2O, CaCl2·2H2O, KH2PO4, vitamin B12, ZnCl2, and spectinomycin sulfate), MP Biomedicals (FeCl3·6H2O, CuSO4·5H2O, and CoCl2·6H2O), Acros (Na2MoO4·2H2O), Amresco (NaOAc, 3M, pH 5.2), Fisher Chemical (MnCl2·4H2O and Na2S2O3), and Fisher BioReagents [NaCl, MgSO4·7H2O, KCl, NaNO3, Tris base, H3BO3, kanamycin monosulfate, SDS, chloroform, saturated phenol (pH 4.3), and absolute ethanol]. Enzymes, including Q5 DNA polymerase, Taq polymerase, DNA ligase, and restriction enzymes, were purchased from New England Biolabs. DNA isolations and purifications were performed using the Zyppy Plasmid Miniprep kit, DNA Clean & Concentrator, and Zymoclean Gel DNA Recovery kit from Zymo Research. Genomic DNA was isolated using the GenElute Bacterial Genomic DNA kit (Sigma-Aldrich). All other vendors are indicated in the subsequent methods sections.
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2

Optimized Production of Bacterial Esters

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Overnight cultures were grown in 5 ml Luria Broth (LB) (Fisher BioReagents) containing appropriate antibiotics. Antibiotic concentrations were as follows: kanamycin (50 µg/ml) (IBI Scientific), chloramphenicol (40 µg/ml) (Fisher BioReagents), ampicillin 250 (µg/ml) (Fisher BioReagents), tetracycline (20 µg/ml) (Fisher BioReagents). Production was carried out with M9 medium (33.7 mM Na2HPO4, 22 mM KH2PO4, 8.55 mM NaCl, 9.35 mM NH4Cl, 1 mM MgSO4, 0.1 mM CaCl2) (BD Bacto), 5 g l−1 yeast extract (BD Bacto), 50 g l−1 or 10 g l−1 glucose (Fisher BioReagents), and 1,000-fold dilution of A5 trace metal mix (2.86 g H3BO3 (Fisher Chemical), 1.81 g MnCl2·4H2O (MP Biomedicals), 0.222 g ZnSO4·7H2O (Sigma-Aldrich), 0.39 g Na2MoO4·2H2O (Alfa Aesar), 0.079 g CuSO4·5H2O (Sigma-Aldrich), 49.4 mg Co(NO3)2·6H2O (Sigma-Aldrich) per liter water). In this work, this media is referred to as M9P. 50 g l−1 glucose was used for C2–C10 acetate ester experiments and 10 g l−1 glucose was used for tetradecyl acetate, isobutyrate and butyrate ester experiments. Optical densities (D) were measured at 600 nm with a Synergy H1 Hybrid Plate Reader (BioTek Instruments, Inc.).
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3

Kjeldahl Method for Protein Quantification

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The total protein assay was performed according to Portuguese Standard NP 4488 (2009 ), applying the Kjeldahl method. Briefly, 0.5 g of sample (or distilled water in the blank assay) were mixed with 2 Kjeldahl tablets (Panreac) and 25 ml of H2SO4 (Honeywell, Fluka, MI) in digestion tubes. Samples were further digested in a Kjeldahl digestor (Foss, Digestor2006) at 400°C for 90 min. After samples were cooled down to room temperature, 80 ml of distilled water were added and the ammonia formed was distilled into 30 ml of a 4% H3BO3 (Panreac) solution containing bromocresol green (Alfa aesar) and methyl red (Panreac), under alkaline conditions (distillation with 40% NaOH, Fisher scientific), using a Kjeldahl distiller (Foss, Kjeltec2100). The distilled samples were titrated with HCl 0.5 M (VWR).
The crude protein content, represented by the sample's nitrogen content, is expressed as g/100 g of FW, and was calculated using the following equation: Protein content=6.25×0.014VaVb×NW×100
where 6.25 is the nitrogen‐to‐protein conversion factor (Jones, 1941 ), Va is the volume of HCl spent on sample titration, Vb is the volume of HCl spent on blank assay, N is the HCl normality, and W is the sample weight.
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4

Optimized Bacterial Culture and IBA Production

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Overnight cultures were grown in 5 ml Luria broth media containing appropriate antibiotics. Antibiotic concentrations were as follows: kanamycin (50 μg ml−1; IBI Scientific), ampicillin (200 μg ml−1; Fisher BioReagents), tetracycline (20 μg ml−1; Fisher BioReagents) and spectomycin (50 μg ml−1). IBA production was carried out with M9P medium, consisting of M9 medium (33.7 mM Na2HPO4, 22 mM KH2PO4, 8.55 mM NaCl, 9.35 mM NH4Cl, 1 mM MgSO4 and 0.1 mM CaCl2; BD Bacto); 5 g l−1 yeast extract (BD Bacto); 50 g l−1 glucose (Fisher BioReagents); and 1,000-fold dilution of A5 trace metal mix (2.86 g H3BO3 (Fisher Chemical), 1.81 g MnCl2·4H2O (Alfa Aesar), 0.079 g CuSO4·5H2O (Sigma-Aldrich) and 49.4 mg Co(NO3)2·6H2O (Sigma-Aldrich) per liter water). Optical densities (OD) were measured at 600 nm with a Synergy H1 hybrid plate reader (BioTek Instruments, Inc.).
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5

Synthesis and Characterization of Carbohydrate Derivatives

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All chemicals used are commercially available and were used without further purification: glycerol (≥99.5%, Sigma-Aldrich), KOH (≥85%, Sigma-Aldrich), Ni(NO3)2•6H2O (Sigma-Aldrich), KNO3 (99%, Alfa Aesar), H3BO3 (99.8%, Alfa Aesar), K2SO4 (≥99.0%, Sigma-Aldrich), 1,3-dihydroxyacetone (Sigma-Aldrich, pharmaceutical standard), DL-glyceraldehyde (≥90%, Sigma-Aldrich), DL-glyceric acid (20% in water, TCI), glycolic acid (99%, Sigma-Aldrich), glycolaldehyde dimer (Sigma-Aldrich), oxalic acid (99.999%, Sigma-Aldrich), tartronic acid (97%, Thermo Scientific), sodium β-hydroxypyruvate hydrate (≥97.0%, Sigma-Aldrich), sodium mesoxalate monohydrate (≥98.0%, Sigma-Aldrich), sodium formate (≥99.0%, Sigma-Aldrich). Deionized water (Barnstead E-pure water purification system, resistivity >18 MΩ cm) was used to prepare all solutions.
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6

Aqueous Chemical Reagents Preparation

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H3PO4 (85 wt %, Fisher Scientific), NaNO2 (>99 wt %, Fisher
Scientific), UO2(CH3COO)2·2H2O (Merck KGaA), HCl (37 wt %, VWR Chemicals), H2O2 (35 wt %, Carl Roth GmbH), KMnO4 (>99
wt
%, Fisher Scientific), NaOH (97 wt %, VWR Chemicals), NaNO3 (99.5 wt %, Grüssing GmbH), HF (40 wt %, Merck KGaA), H3BO3 (99.9 wt %, Alfa Aesar), Na2CO3 (99.5 wt %, Grüssing GmbH), NaHCO3 (99
wt %, Grüssing GmbH), and HNO3 (super quality 69
wt %, Carl Roth GmbH) were applied as purchased. Ultrapure water (18.2
MΩ cm, arium pro, Sartorius) was used in all experiments.
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7

Synthesis of N/S- and B-Doped Graphene

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N/S- and B-doped graphene were prepared with a GO suspension (1.0 g L−1) and thiourea, CH4N2S (99%, Alfa Aesar, Haverhill, MA, USA) [46 (link)], or boric acid, H3BO3 (Acros Organics, Geel, Belgium) [40 (link)], as N/S or B precursors, respectively by hydrothermal reduction [47 (link)]. The GO: Precursor ratio was selected as 1:10, in agreement with the optimized value in a previous study [46 (link)]. In a typical synthesis, an appropriate amount of thiourea or H3BO3 was dissolved into 60 mL of GO suspension and stirred for 10 min followed by sonication for 15 min. The above mixture was placed into a 100 mL Teflon vessel and sealed in a stainless-steel autoclave (Parr Instruments, Moline, IL, USA, Mod. 4748) to perform a hydrothermal treatment in an oven at 180 °C for 12 h. The resultant materials were washed with distilled water and exchanged with tert-butanol for 48 h. Finally, the freeze-drying process was used to remove the solvent (20 h). The materials were labelled as rGONS or rGOB when using thiourea or boric acid as precursors, respectively. The rGO material was also synthetized with comparative purposes, following the same procedure but without the addition of thiourea or boric acid.
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8

Gravimetric Analysis of Borates

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All solutions were prepared
by mass, using an analytical balance with an uncertainty of ±1
× 10–4 g (Denver Instrument Co. Model AA-200).
The reagents used were H3BO3 (Acros Organics,
99.99%), Na2SO4 (Sigma-Aldrich, ≥99.0%),
and Li2SO4·H2O (Sigma-Aldrich,
99.0% dry basis). Boric acid, sodium sulfate, and lithium sulfate
were dried to constant weight in an oven at 60, 100, and 120 °C,
respectively. Distilled and deionized water produced with a Milli-Q
Plus apparatus (Millipore Bedford, MA, USA) was used in all procedures.
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9

Phage Stability Evaluation Protocol

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The sensitivity to heat was determined by incubating phage suspension (108 pfu/ml) in phage buffer at various temperatures (40, 50, 60, 70, and 80°C) for 5, 15, 30, 45 and 60 min. Chloroform sensitivity was determined by the incubation of equal volumes of phage suspension (108 pfu/ml) and chloroform for 1 and 24 h at 4°C with intermittent shaking. The pH stability was tested by incubation of 100 μl of phage suspension (108 pfu/ml) in 900 μl of universal buffer at pH range 2–12 (150 mM KCl, Janssen Chimica, Geel, Belgium; 10mM KH2PO4, VWR International, Leuven, Belgium; 10mM sodium citrate, Acros Organics; 10mM H3BO3, Acros Organics; adjusted to pH 1 to 13 with NaOH, or HCl). Phage titer was assessed after 1h incubation at room temperature. After incubation at the different conditions, the phage titer was assessed as previously described.
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