The largest database of trusted experimental protocols

15 protocols using isocitrate

1

Mitochondrial Aconitase Activity Assay

Check if the same lab product or an alternative is used in the 5 most similar protocols
Aconitase activity was measured in isolated mitochondria as the formation of cis-aconitate from isocitrate at 240 nm in Tris-HCl buffer, pH 7.4 in a medium containing isocitrate (Sigma-Aldrich, St. Louis, MO, USA) and MnCl2 (Sigma-Aldrich, St. Louis, MO, USA). One unit was defined as the amount of enzyme necessary to produce 1 µmol of cis-aconitate/min [23 (link)].
+ Open protocol
+ Expand
2

Determination of IDH Enzymatic Activities

Check if the same lab product or an alternative is used in the 5 most similar protocols
The determinations of IDH1 and IDH2, and IDH3 activity were based on the productions of NADPH and NADH, respectively41 (link). Briefly, cytosolic fraction for IDH1 activity and mitochondrial fraction for IDH2 activity were incubated in the reaction buffers containing 40 mM Tris (pH 7.4), 100 mM NADP+, 100 mM MgCl2, and 200 mM isocitrate (Sigma), respectively. Their activities were defined as the changes in absorbance at 340 nm over 1 min at 37 °C. For the determination of IDH3 activity, mitochondrial fraction was incubated in the reaction buffer containing 40 mM Tris (pH 7.4), 100 mM NAD+, 100 mM MgCl2, and 200 mM isocitrate. Activity was defined as the change in absorbance at 340 nm over 1 min at 37 °C.
+ Open protocol
+ Expand
3

Detailed Reagent Acquisition Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
PrimeSTAR HS DNA Polymerase was purchased from TaKaRa; Restriction endonucleases and T4 DNA ligase were obtained from Fermentas; and the nucleotides NADPH, NADH, NAD+, and NADP+ were purchased from Roche and prepared just before use, ATP, ADP, AMP, diamide, glucose, oxamate, dehydroepiandrosterone, carmustine, dorsomorphin, malate, isocitrate, 2-deoxy-d-glucose, MTT, glucose-6-phosphate, 6-phosphogluconate, phenazine methosulfate, yeast G6PD, NAM, thiazolylblue, phenazine ethosulfate and lipopolysaccharides (LPS) were all obtained from Sigma-Aldrich. Glutamine and pyruvate were provided from Invitrogen. Digitonin and H2O2 were obtained from Calbiochem (Merck, Germany), and KP372-1 was purchased from Echelon Biosciences, Inc. Recombinant murine interferon-γ (IFN-γ) was obtained from Absin. Other reagents were of analytical grade and obtained from local suppliers.
+ Open protocol
+ Expand
4

Metabolite Quantification Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
Acetonitrile (HPLC grade), formic acid (LC/MS grade), and water
(LC/MS grade) were purchased from Fisher Scientific (Fisher Scientific,
Pittsburgh, PA, USA); the standard compounds of NAD+, NADH, NADP,
NADPH, AMP, ADP, ATP, ribulose 5-phosphate (R 5-P), xylulose 5-phosphate
(X 5-P), fructose 6-phosphate (F 6-P), glyceraldehyde 3-phosphate
(G 3-P), phosphoenolpyruvate (PEP), lactate, pyruvate, citrate, (iso)citrate,
alpha-ketoglutarate (alpha-KG), succinate, malate, oxaloacetate (OAA),
aspartate, glutaminate, glutamine, reduced glutathione (GSH), oxidized
glutathione (GSSG), (iso)leucine, leucine, alanine, arginine, cysteine,
methionine, proline, serine, threonine, tyrosine, phenylalanine, valine,
histidine, N-acetylcysteine, and hydroxybutyric acid
were purchased from Sigma (Sigma-Aldrich Corp., Saint Louis, MO, USA).
All other reagents were ACS grade.
+ Open protocol
+ Expand
5

Quantitative Analysis of Novel Psychoactive Substances

Check if the same lab product or an alternative is used in the 5 most similar protocols
alpha-PBP and alpha-PEP were provided by the Bavarian State Criminal Police Office (Munich, Germany). NADP-Na2, acetonitrile (LC-MS grade), and methanol (LC-MS grade) were obtained from VWR (Darmstadt, Germany), MgCl2, K2HPO4, K3PO4, superoxide dismutase, isocitrate dehydrogenase, isocitrate, ammonium formate, ammonium acetate, and formic acid from Sigma (Taufkirchen, Germany). Water was purified with a Millipore filtration unit (18.2 Ω × cm water resistance). pHLM (pool of 25 donors, 20 mg microsomal protein/mL) were obtained from Corning (Amsterdam, The Netherlands). After delivery, the pHLM were thawed at 37 °C, aliquoted, snap-frozen in liquid nitrogen, and stored at −80 °C until use.
+ Open protocol
+ Expand
6

Quantification of Metabolic Markers in Biological Samples

Check if the same lab product or an alternative is used in the 5 most similar protocols
d-2-Hydroxyglutarate (d-2-HG), l-2-hydroxyglutarate (l-2-HG), d-lactate, l-lactate, d-malate, l-malate, d-tartrate, glutarate, 2-ketoglutarate (2-KG), d-glycerate, l-glycerate, succinate, pyruvate, oxaloacetate, cis-aconitate, citrate, isocitrate, dichlorophenol-indophenol (DCPIP), 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT), phenazine methosulfate (PMS), NADH, NAD+, SYPRO orange, bovine serum albumin (BSA), GSK864, and AGI-6780 used in this study were purchased from Sigma-Aldrich (USA). AlphaScreen donor and acceptor beads were purchased from PerkinElmer (USA). Fumarate and human serum were purchased from Beijing Solarbio Science & Technology Co., Ltd (China). Urine samples were collected from a healthy volunteer; informed consent was provided. d,l-2-Hydroxyglutarate disodium salt (2,3,3-D3) was purchased from Cambridge Isotope Laboratories, Inc. (USA). All other chemicals were of analytical reagent grade.
+ Open protocol
+ Expand
7

Quantifying Mutant IDH Enzyme Activity

Check if the same lab product or an alternative is used in the 5 most similar protocols
Compounds of CP-17 and AGI-6780 were purchased from TargetMol (Shanghai, China) and MedChemExpress (Shanghai, China) respectively. The human recombinant C-terminal FLAG-tag IDH enzymes including IDH2/R140Q, IDH2/WT, IDH1/R132H and IDH1/WT homodimer were purchased from BPS Bioscience (San Diego, USA). Antibodies of Hemoglobin γ (HBG) (catalog number: 39386S), H3K9me3 (catalog number: 5327S), H3K27me3 (catalog number: 9733S), H3K4me3 (catalog number: 9725S), and H3 (catalog number: 4499S) were purchased from Cell Signaling Technology (Massachusetts, USA). Recombinant human granulocyte-macrophage colony-stimulating factor (GM-CSF) and erythropoietin (EPO) were obtained from Peprotech (New jersey, USA). NADPH, NADP, α-KG, isocitrate, D-2-HG acid disodium, DMSO, diaphorase and resazurin were purchased from Sigma-Aldrich (Missouri, USA).
+ Open protocol
+ Expand
8

In Vitro Metabolism of Novel Opioids

Check if the same lab product or an alternative is used in the 5 most similar protocols
Methoxyacetylfentanyl hydrochloride (purity ≥ 98%), U-51754 hydrochloride (purity 98%), and U-47931E were purchased from LGC Standards (Wesel, Germany). Isocitrate, Isocitrate dehydrogenase, superoxide dismutase, 3′-phosphoadenosine-5′-phosphosulfate (PAPS), S-(5′-adenosyl)-L-methionine (SAM), dithiothreitol (DTT), reduced glutathione (GSH), acetyl carnitine, and acetyl coenzyme A (AcCoA) were all purchased from Sigma (Taufkirchen, Germany), NADP+ from Biomol (Hamburg, Germany), and acetonitrile (LC-MS grade), ammonium formate (analytical grade), formic acid (LC-MS grade), methanol (LC-MS grade), glucuronidase (EC No. 3.2.1.32)/arylsulfatase (EC No. 3.1.6.1) from Helix pomatia L, and all other chemicals and reagents (analytical grade) from VWR (Darmstadt, Germany). phS9 (20 mg protein/mL, from 30 individual donors), UGT reaction mix solution A (25 mM UDP-glucuronic acid), and UGT reaction mix solution B (250 mM Tris–HCl, 40 mM MgCl2, and 0.125 mg/mL alamethicin) were obtained from Corning (Amsterdam, The Netherlands). After delivery, the enzyme preparations were thawed at 37 °C, aliquoted, snap-frozen in liquid nitrogen, and stored at −80 °C until use.
+ Open protocol
+ Expand
9

Analytical Verification of A-CHMINACA

Check if the same lab product or an alternative is used in the 5 most similar protocols
A-CHMINACA was provided by the EU project ADEBAR/State Bureau of Criminal Investigation Schleswig-Holstein (Kiel, Germany) for research purpose. The chemical purity and identity of the compound were verified by MS and nuclear magnetic resonance analysis. Ammonium formate, ammonium acetate, formic acid, isocitrate dehydrogenase, isocitrate, dipotassium phosphate, tripotassium phosphate, magnesium chloride, and superoxide dismutase were obtained from Sigma (Taufkirchen, Germany). Acetonitrile (LC-MS grade), methanol (LC-MS grade), and NADP-Na2 were from VWR (Darmstadt, Germany). pHLM (20 mg microsomal protein mL−1) was obtained from Corning (Amsterdam, The Netherlands). After delivery, pHLM were thawed at 37 °C, aliquoted, snap-frozen in liquid nitrogen, and stored at −80 °C until use.
+ Open protocol
+ Expand
10

Citrate and Iron Transport Assays

Check if the same lab product or an alternative is used in the 5 most similar protocols
Ferric ammonium citrate (FAC), citrate, isocitrate, succinate, malate, lactate, pyruvate, deferiprone, and deferoxamine were purchased from Sigma-Aldrich (St. Louis, MO). The antibody for ferroportin was obtained from Abcam, Inc. (Cambridge, MA), which was raised against a peptide in human ferroportin. Radiolabeled citrate (1,5-[14C]-citrate; specific radioactivity, 116.4 mCi/mmol) and radiolabeled Fe3+ (59FeCl3; specific radioactivity, >5 mCi/mg) were obtained from PerkinElmer (Waltham, MA). The sequences of the primers used in mRNA analysis and quantification for different citrate and iron/zinc transporters are listed in Supplemental Table 1.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!