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23 protocols using acetoin

1

Colorimetric Assay for Microbial Metabolites

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The metabolite contents of lactate, pyruvate, oxaloacetate, citrate, acetate, formate and ethanol in the deproteinized culture supernatants were measured by colorimetric assay kits (Sigma Aldrich) according to the protocols of the manufacturer. The content of acetoin in the supernatants was detected based on the assay method described by Romick and Fleming [9]. The acetoin standard curve series contained 0, 0.25, 0.5, 0.75, 1.0, 1.25, 1.5, 1.75, 2.0, 2.25, 2.5, 2.75 and 3.0 mM acetoin (Sigma Aldrich). In order to detect the acetoin content by a colorimetric reaction, 5 µl of O’Meara’s Reagent (Sigma Aldrich), 5 µl of 1% L-arginine solution (Carl Roth) and 3 µl Barritt’s Reagent A (Sigma Aldrich) were added to 50 µl of each deproteinized supernatant sample and to 50 µl of acetoin standard curve series. After incubation at 37°C for 30 min, the absorbance was measured at 490 nm. Measurements of the absorbance were performed with the 96 well plate spectrophotometer Multiskan Go (Thermo Scientific, Schwerte, Germany). As the CLM contained 72.2 mM acetate and 0.9 mM citrate, and no other metabolites, changes in metabolite concentration were determinable.
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2

Acetoin and Plant Root Development

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1-N-naphthylphthalamic acid (NPA) and yucasin were dissolved in DMSO to make a 50 mM stock solution. For treatment, the required amount of the stock solutions was added into MS salts agar and mixed in uniform before being poured into Petri dishes. Acetoin ([?] 98%, Sigma-Aldrich) was dissolved in DDW to make a 250 mM stock solution and was supplied at different doses (0, 10, 30, 100, 300 and 1000 μM) to the plant growth medium. Petri dishes containing 5 plants under different treatments were placed in growth chamber for 8 d to estimate root development. For investigating the effects of Acetoin on CYCB1 expression pattern, prebranch sites formation and LRPs development stage, 3-day-old seedlings were grown with 30 μM Acetoin for 6 d.
To test the effects of other VCs from SQR9 on root development, the pure compounds (dodecane, tetradecane, 2-dodecanone, 2-nonanone, pentadecane, 2-undecanone, 2-heptanone) were purchased from Sigma. Arabidopsisseedlings were exposed to a filter paper added with 0, 1, 10 and 100 μl pure compound in a bi-compartmented Petri dish for 8 d to estimate root development.
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3

Acetoin Impact on P. aeruginosa Growth

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Based on NMR results, acetoin was the main component that differentiated between the S. aureus supernatant supplemented with and without 1% glucose. The effect of acetoin was therefore tested on P. aeruginosa growth. Serial dilutions of acetoin were performed in pH-adjusted (pH = 4.8) TSB in cell-culture tubes (Thermo Fisher Scientific, Altrincham, UK). P. aeruginosa ON cultures were adjusted to OD600 0.01, inoculated into pH-adjusted TSB with decreasing concentrations of acetoin (Sigma-Aldrich), and incubated for 18 to 24 h at 37°C. The relative growth of P. aeruginosa was determined by optical density (OD600), and viability was determined by spotting aliquots from liquid cultures on LB plates (growth or no growth). Plates were incubated ON at 37°C.
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4

Volatile Compounds Analysis Protocol

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2-Pentanone, diacetyl, acetoin, 2-undecanone, butyl acetate, methyl hexanoate, methyl caprate, ethyl caprate, ethyl butyrate, ethyl hexanoate, 3-methylbutanal, benzaldehyde, pentanal, nonanal, octanal, acetic acid, propionic acid, isobutyric acid, butyric acid, isovaleric acid, hexanoic acid, octanoic acid, decanoic acid, valeric acid, δ-dodecalactone, (Z)-dairy lactone, δ-caprinolactone, γ-dodecalactone, dichloromethane and n-alkane standards (C6–C30) were purchased from Sigma-Aldrich (St. Louis, MO, USA). 2-Octanol (internal standard, IS) was purchased from Dr Ehrenstorfer GmbH, Augsburg, Germany. All of the chemicals were of chromatographic grade and had a purity>98 %.
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5

Molecular Cloning and Protein Purification

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Restriction enzymes and the Gibson Assembly kit were from New England BioLabs (Ipswich, MA, USA). Taq polymerase was from KAPA Biosystems (Wilmington, MA, USA). Phusion polymerase was from ThermoFisher Scientific (Waltham, MA, USA). Oligonucleotides were from Integrated DNA Technologies (Coralville, IA, USA). Bugbuster reagent and reduced NADH were from Merck Millipore (Billerica, MA, USA). Phenazine methosulfate (PMS) was from J. T. Baker Chemical Co. (Centre Valley, PA, USA). l-Arabinose and ampicillin were from Gold Biotechnology (St. Louis, MO, USA). Dithiothreitol (DTT) was from Melford Laboratories (Ipswich, UK). Acetone, butanone, acetoin, protease inhibitor cocktail and reduced NADPH were from Sigma Chemical Co. (St. Louis, MO, USA). 4-Nitroblue tetrazolium (NBT) chloride was from Boehringer Mannheim (Stuttgart, Germany). The QuikChange II Site-Directed Mutagenesis Kit, including Escherichia coli strain XL1-Blue, was from Agilent (Santa Clara, CA, USA). Talon metal affinity resin was from ClonTech (Mountain View, CA, USA).
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6

Enzymatic Conversion of Biomass to Fuels

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Sodium pyruvate,
citric acid, sodium citrate, thiamine pyrophosphate (TPP), and magnesium
chloride were obtained from Sigma Chemical Co. (St. Louis, USA) for
the determination of enzyme activity and reaction media. Ethanol,
potassium phosphate, sodium acetate, and sodium bicarbonate were obtained
from Scharlab, S.L. (Barcelona, Spain) for the determination of enzyme
activity and reaction media. Acetoin and lactic acid standards were
obtained from Sigma Chemical Co. (St. Louis, USA) and used as analytical
standards for gas chromatography and LC–MS analysis, respectively.
NADH and NAD+ were obtained from Bontac Bioengineering
Co. (Shenzhen, China) as reaction cofactors. Carbon dioxide gas as
well as gas mixture mimicking real blast furnace off-gases composition
[24.5% CO2, 46.6% N2, 23.9% CO, 1.2% O2, and 3.8% H2] was obtained from Carburos Metalicos (Barcelona,
Spain). PDC from Zymobacter palmae (ZpPDC) was produced
according to Alcover et al.27 (link) PDC from Saccharomyces cerevisiae (ScPDC), ADH
from Saccharomyces cerevisiae (ScADH) and Thermotoga maritima LDH
(TmLDH) were produced according to Benito et al. (see Supporting Information).28 (link)
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7

Enzymatic Synthesis of Butanediols

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(2S,3S)-2,3-Butanediol (99.0%) and meso-2,3-butanediol (98.0%) were obtained from ACROS (Geel, Belgium). (2R,3R)-2,3-Butanediol (97.0%), acetoin (99.0%), NADH, and NAD+ were obtained from Sigma (St Louis, USA). Diacetyl (99.0%) was obtained from Aladdin (Shanghai, China). PCR primers were synthesized by Sangon (Shanghai, China) and DNA sequencing was performed by Genscript (Nanjing, China). Yeast extract and peptone were obtained from Oxoid (Hampshire, UK).
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8

Analytical Standardization of Volatile Compounds

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Analytical grade reagents NaCl and NaOH were obtained from Guangnuo Chemical Technology (Shanghai, China); chromatographic grade reagents including ethanol, methanol, dichloromethane; polyvinylpolypyrrolidone (PVPP) and d-gluconic acid lactone with ≥99% purity were purchased from Aladdin Reagent (Shanghai, China); standards of C8–C40 n-alkanes, IBMP, Isopropyl-methoxypyrazine (IPMP), sec-butyl-methoxypyrazine (SBMP) with ≥99% purity and nonanal, acetoin, 1-octanol, isopentyl acetate, linalool with ≥98% purity were from Sigma-Aldrich (St. Louis, MO, USA); standard of 4-methyl-2-pentanol with ≥98% purity from Tokyo Chemical Industry (Tokyo, Japan). Cleanert PEP-SPE columns (200 mg/6 mL) were from Bonna-Agela Technologies (Tianjin, China). Rapidase AR 2000 glucosidase was supplied by Creative Enzymes (New York, NY, USA).
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9

HPLC Analysis of Volatile Compounds

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Sulfuric acid for HPLC analysis was employed (30,743 Honeywell Fluka 95–97%). MEthanol for RP-HPLC was purchased from Merck (34,860, ≥99.9%).
Standard solutions for HPLC (TraceCERT®, 1,000 mg/L in water) were purchased from Sigma-Aldrich (Milan, Italy). Analyte stock solutions were prepared by dissolving a weighed amount of the pure compound in deionized water and stored at 4°C up to 1 month. Ethanol, 13C-labeled Ethanol, acetoin, acetone, butanal, 2-methylbutanal, 3-methylbutanal, butanedione, butanol, 2-methyl-butanol, 3-methyl-butanol, butanone, hexanal, mEthanol, methylacetate, 2-pentanol, propanal, 2-methylpropanal, propanol, 2-methyl-propanol, and sec-butanol were purchased from Sigma-Aldrich (Italy). All chemicals, having purity higher than 99%, were used without any further purification.
Solid-phase microextraction fiber based on 85 um carboxen/polydimethylsiloxane (CAR/PDMS) was employed for the preconcentration of volatile compounds in the HS.
Helium 5.6 IP was purchased from SOL Group Spa (Italy) and was further purified with a super clean filter purchased from Agilent Technologies (United States) to remove water, oxygen, and hydrocarbon contaminants.
Preparation/dilution of samples and solutions was performed gravimetrically using ultrapure water (Milli-Q; 18.2 MΩ cm−1 at 25°C, Millipore, Bedford, MA, United States).
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10

Metabolic Pathway Analysis with Isotopic Labeling

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The following reagents were obtained from Sigma-Aldrich: glucose, 1,3-propanediol, phenylboronic acid, cycloheximide, 23BD, acetoin, pyruvate, PEP, 6PG, G6P, F6P, Ru5P, R15P, ATP, dithiothreitol (DTT), NADH, NADPH, NADP+, phosphocreatine, RuBisCO, pyruvate kinase, lactate dehydrogenase, G6P dehydrogenase, 3PGA kinase, GAPDH and creatine kinase. U-13C glucose and 13C-NaHCO3 were obtained from Cambridge Isotope Laboratories. IPTG and chloramphenicol were obtained from Fischer Scientific. Gentamycin was purchased from Teknova. Spectinomycin was purchased from MP Biomedicals. Kanamycin was purchased from IBI Scientific. Phusion polymerase was purchased from New England Biolabs. All oligonucleotide synthesis and DNA sequencing were performed by Eurofins MWG Operon Inc.
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