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11 protocols using palmitoylcarnitine

1

Analytical Standards for Bile Acids

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Fenofibrate and bezafibrate was obtained from the National Institute for the Control of Pharmaceutical and Biological Products (Beijing, China). GW6471, ANIT, formic acid, chlorpropamide, lauroylcarnitine (12:0-carnitine), myristoylcarnitine (14:0-carnitine), palmitoylcarnitine (16:0-carnitine), stearoylcarnitine (18:0-carnitine), CA, UDCA, HDCA, CDCA, DCA, TCA, GCA, THDCA, TCDCA, TDCA, TLCA, glycochendeoxycholic acid (GCDCA), glycodeoxycholic acid (GDCA), dehydrocholic acid (DHCA), and glycolithocholic acid (GLCA) were purchased from Sigma-Aldrich (St. Louis, Missouri, USA). Hyocholic acid (HCA), TβMCA, and ωMCA were purchased from Santa Cruz Biotechnology, Inc. (Dallas, TX). TUDCA and LCA was purchased from Medchemexpress (Monmouth Junction, NJ, USA). TαMCA and βMCA were purchased from Steraloids (Newport, RI). All solvents and organic reagents were of the highest grade commercially available.
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2

Yeast Genetic Manipulation Protocol

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All strains are in the W303 background (leu2-3,112 ura3-1 can1-100 ade2-1 his3-11,15 trp1-1 GAL+ ssd1-d2), with the exception of strains DDY903, DDY2544, and JJTY0888 used in Figure 7C and Supplemental Figure S5E, which is in the S288C background (his3-∆200, ura3-52, lys2-801, leu2-3, 112). Table 1 shows additional genetic features. One-step PCR-based gene replacement was used for making deletions and adding epitope tags at the endogenous locus (Longtine, 1998 (link); Janke et al., 2004 (link)). Cells were grown in YP medium (1% yeast extract, 2% peptone, 40 mg/l adenine) supplemented with 2% dextrose (YPD), 2% glycerol/ethanol (YPG/E), or 2% galactose (YPGal). For nutrient shifts, cells were grown in YPD medium overnight to log phase. Cells were then washed three times with YPG/E medium and resuspended in YPG/E medium.
Myriocin (Sigma) was dissolved in 100% methanol to make a 500 µg/ml stock solution. The same volume of methanol was added in control experiments. We observed significant differences in the effective concentration of Myriocin in different batches from the same supplier. Palmitoylcarnitine (Sigma) was dissolved in 100% dimethyl sulfoxide (DMSO) to make a 5 mM stock solution.
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3

Carnitine Derivative Biosynthesis

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Triptolide was purchased from Vicket Biological Technology Inc. (Chengdu, China). Myristoyl-trimethyl D9 carnitine was obtained from Sigma-Aldrich (Burlington, MA, USA). Deceaniylcarnitine, lauroylcarnitine, myristoylcarnitine, palmitoylcarnitine, stearoylcarnitine, acylcarnitine, propionylcarnitine, buylcarnitine, pivaloycarnitine, and 2-methylcarnitine were obtained from Sigma-Aldrich (St. Louis, MO).
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4

Mitochondrial Bioenergetics Protocol

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Diamide, disulfiram (Dis), NAD+, thiamine pyrophosphate (TPP), coenzyme A (CoASH), superoxide dismutase (SOD), horseradish peroxidase (HRP), HEPES, EGTA, Triton X-100, MgCl2, ATP, subtilisin A, Bradford reagent, pyruvate, 2-oxoglutarate, succinate, palmitoyl-carnitine, carnitine, ADP, oligomycin, antimycin A, malate and fatty acid free bovine serum albumin (BSA) were purchased from Sigma. Amplex Ultra Red (AUR) was purchased from Invitrogen. 14C-pyruvate and 3H-carnitine were purchased from PerkinElmer. Ecolume scintillation fluid was purchased from Fisher.
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5

Metabolic Modulation Experiment Protocols

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Reagents used were as follows: adenosine 5′-diphosphate (Sigma-Aldrich, St. Louis, MO, USA), A-939572 (Cayman Chemical), CAY10566 (Cayman Chemical), Cell-Tak (Corning, Corning, NY, USA), CL-316,243 (Tocris, Minneapolis, MN, USA), C75 (Cayman Chemical), etomoxir (Cayman Chemical), forskolin (Tocris), MF-438 (Millipore Sigma, St. Louis, MO, USA), octanoic acid (Sigma-Aldrich), oleic acid (Sigma-Aldrich), rotenone (Tocris), palmitoleic acid (Sigma-Aldrich), palmitoyl carnitine (Sigma-Aldrich), pyruvate (Sigma-Aldrich), sodium palmitate (Sigma-Aldrich), and TOFA (Cayman Chemical). Additional information is available in S1 Table.
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6

Carnitine and Palmitoylcarnitine Administration

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Carnitine (100mg/kg body weight; Sigma) was administered by intraperitoneal injection with sterile PBS pH 7.5 used as a vehicle control. PalmitoylCarnitine (100µM; Sigma), palmitate conjugated to BSA (100µM; Sigma), or BSA solution was injected via tail vein. After administration of metabolites mice were placed at 4°C with no food, no bedding, but ready access to water.
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7

Mitochondrial Respiration and Fatty Acid Oxidation

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Mitochondrial respiration was evaluated as O2 consumption in isolated liver as previously described (28 (link)). Mitochondria were supplemented with substrates 10 mM glutamate/2 mM malate (Sigma-Aldrich) and 10 mM succinate/0.5 mM rotenone (Sigma-Aldrich), to measure adenosine diphosphate (ADP)–independent respiration activity (state 4). After addition of 1 mM ADP (Sigma-Aldrich), state 3 respiration activity was measured. Respiration was uncoupled by successive addition of carbonyl cyanide p-trifluoro-methoxyphenylhydrazone (FCCP) up to 3 mM to reach maximal respiration.
Fatty acid oxidation was measured from isolated liver mitochondria from mice fasted for 5 hours before sacrifice using the Oxygraph 2K respirometer (Oroboros Oxygraph-2K, Oroboros Instruments) as described in (51 (link)) and reviewed in (52 ). State 4 respiration was measured using 5 mM malate (Sigma-Aldrich) and 1 mM palmitoyl carnitine (Sigma-Aldrich), and state 3 respiration was measured using 1 mM K-ADP (Sigma-Aldrich) and 10 mM K-succinate (Sigma-Aldrich). Inhibitors used included 0.5 mM oligomycin (Sigma-Aldrich) and 2.5 μM antimycin. FCCP was used as a measure of uncoupling and maximal respiration rate in titrations up to 3 μM.
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8

Mitochondrial Respiration Profiling

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Tissue respiration was performed using an O2K high-resolution respirometer (Oroboros, Austria). Freshly isolated tissues were rapidly weighed (BAT 2–5 mg), minced, and homogenized using a PBI-shredder PBI set (Oroboros, Austria). Homogenized tissue was further re-suspended in 2 mL of MiR05 medium (0.5 mM of EGTA, 3 mM of MgCl2, 60 mM of K-lactobionate, 20 mM of Taurine, 10 mM of KH2PO4, 20 mM of HEPES, 110 mM of Sucrose, and 1 g/L of BSA (essentially fatty acid free)). Respiratory oxygen flux was measured in real time and expressed as picomoles of O2 per second per mg of tissue. 5 mM of pyruvate (Sigma), 2 mM of malate (Sigma), and 1 mM of ADP (Sigma) were added to stimulate complex I respiration. 1 µM of rotenone (Sigma) and 5 mM of succinate (Sigma) were added to test complex II respiration. 2 mM of ascorbate and 0.5 mM of N, N, N, N-tetramethyl-p-phenylenediamine (TMPD) (Sigma) were used to test complex IV respiration. To measure uncoupled respiration, succinate (Sigma) was used as the substrate, and 1 μM of oligomycin (Sigma) was added to determine the coupled respiration. Uncoupled respiration was calculated using the respiration rate after oligomycin deducted by respiration rate after antimycin A (1 μM) (Sigma) inhibition. To measure mitochondrial β-oxidation, palmitoyl-carnitine (5 μM) (Sigma) was added to the chamber.
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9

Lipidomics Standards for Analysis

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1-Naphthyl isothiocyanate (N4525–10G), oleoylcarnitine and palmitoylcarnitine were purchased from Sigma-Aldrich (St. Louis, MO). The standards of PC16:0, 20:4, PC16:0, 22:6, PC16:0, 18:2, LPC18:2, PC18:2, SM18:1, 16:0, PC18:1, 14:0 were purchased from Avanti Polar Lipids (Alabaster, AL).
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10

Targeted Metabolomics Workflow for Dried Blood Spots

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Gradient grade water and LC-MS grade methanol for liquid chromatography plus the non LC-MS grade rinsing solvents 2-propanol and acetonitrile as well as formic acid (puriss.) and ammonia fluoride (puriss.) were purchased from Carl Roth (Carl Roth, Rothenfels, Germany). A collection of all l-amino acids and carnitine, acetylcarnitine, propionylcarnitine, butyrylcarnitine, valerylcarnitine, hexanoylcarnitine, octanoylcarnitine, decanoylcarnitine, lauroylcarnitine, myristoylcarnitine, palmitoylcarnitine and stearoylcarnitine, were purchased from Sigma-Aldrich (St. Louis, MO, USA).
The deuterated internal standards (IS) Cortisol 2H4, Progesterone 2H9, 17-Hydroxyprogesterone 2H8, 11-Deoxycortisol 2H5, 21-Deoxycortisol 2H8, Androstenedione 13C3, Corticosterone 2H4, 11-Deoxycorticosterone 13C3 were also products of Sigma-Aldrich (St. Louis, MO, USA). The deuterated amino acids and acylcarnitines were obtained from the MassChrom® Amino Acids and Acylcarnitines from Dried Blood kit from Chromsystems (Munich, Germany). Dried blood spot cards (TFN filter paper) were provided by CAMAG (Muttenz, Switzerland). Fresh whole blood was obtained from the local blood donation center (Basel, Switzerland).
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