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12 protocols using 5 13c glutamine

1

Isotopic Labeling for Metabolomic Analysis

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Chemicals were used without further purification form commercial vendors: 5-13C-glutamine (Cambridge Isotopes), U-13C6-glucose (Cambridge Isotopes), Doxycycline (Dox, Sigma), D2O (Sigma) and DSS-d6 (3-(trimethylsilyl)-1-propanesulfonic acid-d6 disodium salt, Sigma).
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2

Metabolite Analysis via GC-MS

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For metabolite analysis using gas chromatography/mass spectrometry, cells were cultured for ~72 h in in glucose- and glutamine-free DMEM-based MEF media with dialyzed FBS and the appropriate tracer added. [U-13C6]glucose, [U-13C5]glutamine, and [5-13C]glutamine were all from Cambridge Isotopes Laboratories, Inc.
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3

Metabolic Flux Analysis Reagents

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Glutamate pyruvate transaminase, glucose-6-phosphate dehydrogenase (G6PDH), lactate dehydrogenase, nicotinamide adenine dinucleotide phosphate (NADP(H)), nicotinamide adenine dinucleotide (NAD), adenosine triphosphate (ATP), and α-ketoglutarate were purchased from Calzyme (San Luis Obispo, CA). Hexokinase, microbial glutamate dehydrogenase, 3-nitrophenylhydrazine, N-(3-dimethylaminopropyl)-N’-ethylcarbodiimide, buthionine sulfoximine, C75, and CBR-5884 were purchased from Sigma (St. Louis, MO). Glutaminase was purchased from Megazyme (Chicago, IL). [5-13C] glutamine, [1,2-13C] glucose, and [3-13C] lactate were purchased from Cambridge Isotopes (Tewksbury, MA). 6-Aminoquinolyl-N-hydroxysuccinimidyl carbamate (AQC) was purchased from Toronto Research Chemicals (Toronto, Canada). Cell culture media, fetal bovine serum, and cell culture supplies were purchased from Fisher Scientific (Pittsburg, PA). Buffers and other general reagents were purchased from Sigma.
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4

Comparative Analysis of Metabolic Compounds

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Estradiol benzoate was purchased from Aladdin. Oxytocin injection and soybean oil was purchased from Maclean. Guizhi Fuling Capsules are provided by Kangyuan Pharmaceutical. 5-13C-glutamine (Cambridge Isotope Laboratories, Andover, MA, United States); PGF2α kit, PGE2 kit and β-EP kit were purchased from Nanjing Jiancheng Bioengineering Research Institute.
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5

Metabolite Profiling using Stable Isotope Standards

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Stable isotope internal standard 5-13C-glutamine was purchased from Cambridge Isotope Laboratories (Andover, MA, USA). Myristic-1,2-13C2 acid, methoxamine hydrochloride (purity 98%), and pyridine (≥99.8% GC) were purchased from Sigma-Aldrich (St. Louis, MO, USA). N-methyl-trimethylsilyl-trifluoroacetamide (MSTFA) and 1% trimethylchlorosilane (TMCS) were provided by Pierce Chemical (Rockford, IL, USA). Methanol, acetonitrile, and n-heptane were of HPLC grade and obtained from Merck (Darmstadt, Germany). Purified water was produced by a Milli-Q system (Millipore, Bedford, MA, USA). Ammonium acetate (purity 98.0%) and ammonia solution (25%, w/w) were purchased from Aladdin (Shanghai, China) and Nanjing Chemical Reagent (Nanjing, China), respectively.
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6

Metabolic Tracing with Isotopic Substrates

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Culture materials were purchased from Sigma-Aldrich (St. Louis, MO). The IDH1 inhibitor GSK864 was obtained from The Structural Genomics Consortium organization (www.thesgc.org). [U-13C]glucose, [U-13C]glutamine, [5-13C]glutamine, [3,4-13C]glucose and [3-2H]glucose tracers were purchased from Cambridge Isotope Laboratories (Andover, MA).
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7

Metabolic Profiling of Immune Cells

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RPMI 1640 medium was purchased from Gibco. Fetal Bovine Serum (FBS), penicillin, and streptomycin were purchased from HyClone. GM-CSF was purchased from PeproTech. Ammonium acetate, LPS, oligomycin, carbonyl cyanide p-trifluoromethoxyphenylhydrazone (FCCP), rotenone, and antimycin A were purchased from Sigma. BBL™ Thioglycollate Medium was purchased from BD Biosciences, US. [5-13C]glutamine was obtained from Cambridge Isotope Laboratories. HPLC grade ammonium hydroxide, acetonitrile, and methanol were purchased from Fisher Scientific. Deionized water was produced by a Milli-Q system.
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8

Metabolomics Analysis of Liver Samples

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Livers isolated from each group were homogenized and mixed with 80% (v/v) methanol solution containing 15 μg/mL of 5‐13C‐glutamine (Cambridge Isotope Laboratories) as the internal standard. After centrifugation at 16 000 g for 10 minutes, the supernatant was collected and evaporated to dryness. The residue was dissolved, centrifuged and prepared for liquid chromatography‐quadrupole/time‐of‐flight mass spectrometry (LC‐Q/TOF‐MS)‐based metabolomics. Subsequent metabonomic analysis was performed as previously described.15 MultiQuant 2.0 analytical software (AB SCIEX, USA) was used for data analysis, and the quantification of samples was carried out with the peak area under protein concentration correction. The overall difference between groups was investigated with partial least squares discriminant analysis using SIMCA‐P software (Sweden). Furthermore, 3D sparse partial least squares discriminant analysis and heatmaps were generated at MetaboAnalyst (http://www.metaboanalyst.ca).
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9

Synthesis of Isotopically Labeled Amino Acids

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[5-13C]-glutamine and [6-13C]-arginine were purchased from Cambridge Isotope Laboratories (USA), while [13C]-urea and [13C,15N2]-urea were purchased from Sigma-Aldrich (USA). [5-13C,15N]-glutamine and [6-13C,15N3]-arginine were synthesized in-house and the synthetic scheme was adapted from previously reported methods.14 (link),22
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10

Isotopic Profiling of Cellular Metabolism

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The following reagents were used at the doses indicated and as described in the text/figure legends: [1,2-13C2]glucose, [3-13C]glucose, [U-13C5]glutamine, [
3C]glutamine, and [5-13C]glutamine (all from Cambridge Isotope Laboratories); IDH-C277 (Xcessbio); HIF1α antibody (610958, BD Bioscinces). Synthesis of IDH1i A is described in Supplementary Methods.
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