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Deuterated water

Manufactured by Merck Group
Sourced in United States, Italy, United Kingdom, Germany

Deuterated water, also known as heavy water, is a form of water in which the hydrogen atoms have been replaced with the hydrogen isotope deuterium. It is a colorless, odorless, and tasteless liquid that is denser than regular water. Deuterated water is used as a tool in various scientific and research applications, such as nuclear magnetic resonance (NMR) spectroscopy, isotope labeling, and the study of chemical and biological processes.

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46 protocols using deuterated water

1

Synthesis and Characterization of PEG-NH2 Hydrogels

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Eight-arm PEG-NH2HCl (Mn = 10,000 g mol−1) was purchased from JenKem Technology USA. 5-Norbornene-2-carboxylic acid, 1-[bis(dimethylamino)methylene]-1H-1,2,3-triazolo[4,5-b]pyridinium 3-oxid hexafluorophosphate (HATU), N,N-diisopropylethylamine (DIPEA), N,N-dimethylformamide (DMF), diethyl ether (DEE), deuterated water (D2O), dl-dithiothreitol (DTT), lithium phenyl-2,4,6-trimethylbenzoylphosphinate (LAP), dextran sulfate sodium salt (Mn = 500,000 g mol−1), light mineral oil, and Amicon Ultra-0.5 centrifugal filter unit (3-kDa MWCO) were purchased from Merck. Regenerated cellulose dialysis tubing (1-kDa MWCO) was purchased from Spectrum Labs. Phosphate-buffered saline (PBS; pH 7.4) was manufactured by Gibco. Droplet generation oil for probes was purchased from Bio-Rad Laboratories Inc.
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2

Enzymatic Synthesis of Sialic Acid Derivatives

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d-Glucosamine·hydrochloride and 5-bromo-4-chloro-3-indolyl-β-d-galactopyranoside (X-Gal, compound 8) were purchased from Aladdin (Shanghai, China); Pedobacter heparinus GlcNAc-2-Epimerase (PhGn2E), E. coli Sialic Acid Aldolase (EcNeuAld), Neisseria meningitidis CMP-Sialic Acid Synthase (NmCTT), Campylobacter jejuni Sialyltransferase (CjSiaT3), and E. coli β-Galactosidase were obtained from Qlyco Ltd. (Nanjing, China). Acetonitrile and methanol used for HPLC-ESI-MS analysis, and deuterated water and methanol were purchased from Merck (Nanjing, China). All other chemicals used were of the highest grade available.
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3

Metabolic Profiling of Mouse Fecal Samples

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Fecal samples were homogenized in 1:12 w/v of saline phosphate buffer (1.9 mM Na2HPO4, 8.1 mM NaH2PO4, 150 mM NaCl) with 1 mM sodium 3-trimethysilyl-propionate-d4 (TSP-d4) mixed 1:1 v/v with deuterated water (Merck) using ceramic bead beating (Lysing Matrix E, MP Biomedicals), followed by centrifugation at 15,000g, 5 min, and filtration of supernatants at 0.2 μm. 1H NMR spectra were recorded using a 600-MHz Bruker Avance spectrometer fitted with a 5-mm TCI proton-optimized triple resonance NMR inverse cryoprobe and autosampler (Bruker). Sample temperature was controlled at 300 K. Spectra were transformed with a 0.3-Hz line broadening and zero filling, manually phased, baseline corrected, and referenced by setting the TSP–d4 signal to 0 ppm. Metabolites were identified by comparison with existing literature, an in-house database of mouse fecal metabolite spectra, the Human Metabolome Database (http://www.hmdb.ca/), and by use of 2-dimensional NMR 1H–1H correlation spectroscopy, 1H–13C heteronuclear single quantum correlation, and 1H–13C heteronuclear multiple bond correlation spectroscopy [67 (link), 68 (link), 121 (link)]. Concentrations were calculated using Chenomx NMR Suite 7.0, centered (CLR), and log-transformed.
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4

Metabolic Profiling of Fungal Biomass

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The strains were grown in liquid SCM (24 h, 28°C, 200 rpm, in the dark) or in liquid VM (16 h, 28°C, 200 rpm, in the dark). The mycelium was collected and processed as described previously in Nižnanský et al. (2013) (link). Dry mycelium was extracted in 50% methanol at 4°C for 8 h. The final
extract was concentrated in vacuum concentrator (Eppendorf, Germany) and solubilized in deuterated water (Merck, Germany) containing sodium salt of trimethylsilylpropionic acid-2,2,3,3-d4 (TSP) (Merck, Germany) and 0.02% NaN 3 to prevent bacterial contamination. Spectra were measured in 5 mm NMR tubes on a Varian/Agilent VNMRS NMR spectrometer operating at 599.75 MHz using tnnoesy pulse sequence with water pre-saturation during relaxation (1 s), 100 ms mixing time and 4 s acquisition time (Saude et al. 2006 (link)) accumulating 128 scans. The spectra were analysed and concentrations determined in Chenomx NMR Suite software v8.3.
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5

NMR Characterization of Perphenazine

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FaSSIF powder was purchased from Biorelevant.com (London, UK). Deionized, purified water (Millipore water) was generated by a Millipore purification system from Merck (Darmstadt, Germany). Perphenazine (99%), deuterated water (D 2 O, 99.9% D) containing 0.05% 3-(trimethylsilyl)propionic-2,2,3,3-d 4 sodium salt (TSP-d 4 ), 40% sodium deuteroxide in deuterated water (NaOD, 99% D), 35% deuterium chloride in deuterated water (DCl, 99% D), sodium chloride (99%), and monobasic sodium phosphate monohydrate (99%) were purchased from Merck. Hexadeuteriodimethyl sulfoxide (DMSO-d 6 , 99.8% D) was purchased from Euriso-top (Saarbrücken, Germany) and deuterated water (D 2 O, 99.9% D) from Deutero (Kastellaun, Germany). All other standard chemicals and laboratory consumables, if not otherwise stated, were purchased from either VWR International GmbH (Ismaning, Germany) or Merck.
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6

NMR Metabolomic Analysis of Frozen Tissues

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All samples were stored at −80 °C until metabolomic analysis with NMR spectroscopy was performed. All tissues were homogenized before the analyses. In brief, the frozen tissue pieces were weighed and placed into pre-cooled (dry ice) homogenization tubes. Ice-cold extraction solvent (10 volumes of ethanolic solution (EtOH:H2O, 77:23, v/v) was added to each tube in dry ice and the tissues were then homogenized by homogenizator (Ika Homogenizer T10, Sigma-Aldrich, Milan, Italy) three times over 30 s with 30 s pause intervals to ensure constant temperatures during homogenization. Then, the samples were ultra-sonicated at 20 kHz using a ultrasonic disintegrator MK2 (exponential probe, 8 µm peak-to-peak; MSE Scientific Instruments, Crawley, UK) and centrifuged at 14,000× g for 30 min. This method has been proven to have the same efficiency as the more common perchloric extract method, with the added benefit of a simpler experimental procedure [16 (link)]. The supernatant was then freeze-dried two times in a Savant RTV 4104 freeze dryer (Mildford, ME), and the residue resuspended in 0.7 mL of deuterated water (Sigma-Aldrich, Milan, Italy) containing 0.1 mM of 3 (trimethylsilyl)-propionic-2,2,3,3-d4 acid sodium salt (TSP) as an internal standard.
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7

Synthesis of Amino Acid Derivatives

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l-Tyrosine methyl ester hydrochloride (TyrMe), l-tryptophan methyl ester hydrochloride (TrpMe), acetonitrile, 2-propanol (all spectroscopic grade), phenol, 4-cyanophenol, 4-methoxyphenol, indole, methylviologen and deuterated water were purchased from Sigma Aldrich or Tedia. Water was Milli-Q grade. N-Acetyl l-tryptophan methyl ester (NATrpME)66 (link) and N-acetyl l-tyrosine methyl ester (NATyrME)67 (link) were prepared by literature procedures. The naphthoquinone derivatives were prepared as described in the literature.60,61,68 (link)
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8

Preparation of Benzoic Acid and β-Cyclodextrin Solutions

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The following chemical reagents were used in this work:

Benzoic acid (C6H5COOH) (“chemically pure” grade), used without additional purification. The purity of reagents was declared by the manufacturer >99% by weight.

β-cyclodextrin (C42H70O35) from Sigma-Aldrich Saint (Louis, MO, USA) with a CD content of ≥99% was used without additional purification;

Dimethylsulfoxide (C2H6OS) was purified by distillation according to the method [75 ] before use. The DMSO content was 99.4 wt.%. The residual water content in the organic solvents used was taken into account when preparing the solutions.

Deuterated water and dimethylsulphoxide (atomic fraction of deuterium more than 99.9%) were purchased from Sigma-Aldrich USA. Ethyl alcohol (C2H5OH) (96% by vol.) was purified by distillation at the atmospheric pressure.

The solutions were prepared by the weight method according to exact weights. The analytical scales of the brand AUW220D (SHIMADZU) were used. For the preparation of solutions, fresh bidistillate water was used.
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9

Synthesis and Characterization of PLGA Polymers

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All materials were used as received. PLGA 502H (50:50 lactic to glycolic acid ratio and an Mn of ~10 kDa) and PLGA 506H (50:50 lactic to glycolic acid ratio and an Mn of ~45 kDa) were purchased from Boehringer Ingelheim. PLGA 503H (50:50 lactic to glycolic acid ratio and an Mn of ~25 kDa) was purchased from Polysciences. The H signifies the PLGA has a carboxylic acid end group. Phosphate buffered saline (PBS) was purchased from Fisher Scientific. Dimethyl sulfoxide (DMSO), methylene chloride (DCM), dueterated chloroform, deuterated water, and poly(vinyl alcohol) (PVA) were purchased from Sigma Aldrich. QAQ and DENAQ were custom synthesized and purchased from Jubilant Chemsys, Bangalore, India) following procedures described in Banghart et al. (7 (link)).
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10

Analyzing Fatty Acid Synthesis in Mice

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Mice were fed ad libitum and ip. injected with deuterated water (Sigma) (20 μl per gram body weight). Mice were killed 6 h later and liver tissue and whole blood collected. Palmitate content was analyzed using gas chromatography-mass spectrometry. We determined the percentage contribution of newly made fatty acid using the equation: percentage of newly made fatty acid = (total 2H-labeled fatty acid/(2H-labeled body water × n)) × 100, where n is the number of exchangeable hydrogens, assumed to equal 22 for palmitate. We determined the absolute amount of newly synthesized fatty acids by multiplying the percentage of newly made fatty acids by the concentration of the total fatty acids53 (link).
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