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28 protocols using xf24 extracellular analyzer

1

T Cell Bioenergetics Profiling

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OCR and ECAR were measured following re-stimulation of T cells using anti-CD3/28 Dynabeads (Invitrogen) in a 0.8:1 ratio at 37°C using an XF24 extracellular analyzer (Seahorse Bioscience) as previously described37 (link) in the indicated conditions. Oxygen consumption rates (OCR) and extracellular acidification rates (ECAR) were measured in XF media (nonbuffered RPMI 1640 containing 25 mM glucose, 2 mM L-glutamine, and 1 mM sodium pyruvate) in a 1:1 mixture with tonicity controlled additive free standard RPMI 1640 with normal or elevated [K+] under basal conditions and in response to 1 μM oligomycin, 2 μM fluoro-carbonyl cyanide phenylhydrazone (FCCP), or 100 nM rotenone with 1 μM antimycin A (Sigma).
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2

Measuring Cellular Oxidative Metabolism

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Cells were seeded overnight in 24‐well culture plate (SeaHorse Bioscience, Billerica, MA) at a density of 5 × 105 cells/well, and incubated either under standard (n = 22 wells for control) or heat‐stressed conditions (n = 22 wells heat stress). Following the 24 h incubation, culture media was removed and replaced with XF Assay Media (SeaHorse Bioscience). Per manufacturers’ protocol, SeaHorse injection ports were loaded with oligomycin and carbonyl cyanide p‐[trifluoromethoxy]‐phenyl‐hydrazone (FCCP). Prior to any chemical treatment, basal oxidative metabolism (oxygen consumption rate, OCR) was measured. Then to reveal endogenous proton leak (mitochondrial uncoupling) cells were treated with oligomycin at a final concentration 1.0 μmol/L. Finally, FCCP, an uncoupler of electron transport at a concentration of 1.25 μmol/L was added to determine peak oxygen consumption (an indirect indicator of peak oxidative metabolism) (Giulivi et al. 2008; Wikstrom et al. 2012). SeaHorse XF24 Extracellular Analyzer was run using 8 min cyclic protocol commands (mix for 3 min, let stand 2 min, and measure for 3 min) in triplicate as previously performed (Vaughan et al. 2013).
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Quantifying Mitochondrial Respiration in HEK-1B1 Cells

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The oxygen consumption rate (OCR) was measured with an XF24 extracellular analyzer (Seahorse Bioscience, North Billerica, MA, USA). Briefly, 7.5 × 103 HEK-1B1 cells were seeded in poly-l lysine-coated XF24 culture plates and cultured in a DMEM with 10% TH-depleted serum for 4 days. The cells were treated with T3 (100 nM) or MGL-3196 (6 µM) 48 h before OCR measurement. Reagent concentration was optimized using a Mito Stress Test kit from Seahorse Bioscience (103015-100) according to the protocol and the XF24 program’s algorithm. Oligomycin, FCCP, antimycin A, and rotenone were all used at a concentration of 1 µM. On the day of measurement, the TH-depleted medium was replaced by 500 µL of the assay medium, and the plate was incubated at 37 °C for 1 h in a non-CO2 incubator.
Basal respiration was calculated as [baseline O2 consumption] − [OCR after rotenone and antimycin A]. ATP production corresponds to the OCR used for mitochondrial ATP synthesis via ATP synthetase, which is inhibited by oligomycin. The expression [OCR after FCCP] − [OCR after rotenone and antimycin A] determined the maximal respiration (respiratory capacity), and spare respiratory capacity was calculated as [OCR after FCCP] − [Basal OCR].
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4

Measuring Extracellular Acidification Rates

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Extracellular acidification rates (ECARs) were measured using an XF24 extracellular analyzer (Seahorse Bioscience, USA), as described previously 18 (link).
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5

Measuring Cellular Oxygen Consumption

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Oxygen consumption rate (OCR) was measured at 37°C using an XF24 extracellular analyzer (Seahorse Bioscience). Details provided in Supplementary Information.
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6

Measuring Mitochondrial Respiration in C2C12 Myotubes

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C2C12 myotubes were plated onto XF24 cell culture microplates and differentiated for 3 days in differentiation medium, after which the C2C12 myotubes were either treated or not treated with drugs, depending on the experimental condition. Following treatment, the C2C12 myotubes were pre-washed with Krebs-Ringer bicarbonate (KRB) buffer and equilibrated with XF assay medium supplemented with 2.5 mM glucose/50 mM carnitine/0.2 mM PA (for PA OCR) at 37°C in a CO2-free incubator for 1 h. The OCR of PA as a carbon substrate was measured using a XF24 extracellular analyzer (Seahorse Bioscience, North Billerica, MA, United States).
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Astrocyte Metabolic Profiling Using Seahorse

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Oxygen consumption rates and extracellular acidification rate were measured at 37 °C using an XF24 extracellular analyzer (Seahorse Bioscience). Astrocytes were plated in 24-well plates for 24 h (50,000 cells per well) in DMEM 10% FBS containing 100 U ml−1 penicillin and 100 mg ml−1 streptomycin. Cells were changed to unbuffered DMEM (DMEM supplemented either 25 mM glucose, 1 mM sodium pyruvate, 31 mM NaCl, 2 mM GlutaMax, pH 7.4) and incubated at 37 °C in a non-CO2 incubator for 60 min. Four baseline measurements were taken before sequential injection of mitochondrial inhibitors. Four measurements were taken following the addition of 1.0 μM oligomycin, 1.0 μM FCCP, 1.0 μM rotenone/antimycin A. Oxygen consumption rate and extracellular acidification rate were automatically calculated by Seahorse XF-24 software. Every point represents an average of n = 3.
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8

Extracellular Acidification Rate Measurement

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ECARs were measured using an XF24 extracellular analyzer (Seahorse Bioscience, North Billerica, MA, USA) [32 (link)]. Briefly, 20,000 Eca109 cells/well were cultured in the XF24 cell culture plate with medium at 48 h after siRNA transfection. Cells were washed with PBS, the respective XF assay medium with 2 mM glutamine was added to each well, and the plate was incubated at 37 °C for approximately 45 min. After analyzer calibration, sequential compound injections, including glucose, oligomycin A and 2-DG (AmyJet Scientific, Wuhan, China), were applied to test glycolytic activity.
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9

Mitochondrial and Glycolytic Activity

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Oxygen consumption rates (OCR) and extracellular acidification rates (ECAR) were measured using an XF24 extracellular analyzer (Seahorse Bioscience). A 24-well cell culture microplate was coated with Corning® Cell-Tak™ Cell and Tissue Adhesive (Corning Incorporated) to allow adhesion of suspended cells. After calibration of the analyzer, sequential compound injections, including oligomycin A, carbonyl-cyanide p-trifluoromethoxyphenylhydrazone (FCCP), antimycin A and rotenone, were applied on the microplate to test mitochondrial respiration. Sequential compound injections, including glucose, oligomycin A and 2-DG, were applied to test glycolytic activity.
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10

Mitochondrial Respiration and Glycolytic Analysis

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Oxygen consumption rate (OCR) and extracellular acidification rate (ECAR) were detected utilizing XF24 extracellular analyzer (Seahorse Bioscience, USA). The 24-well cell culture microplate coated with Corning® Cell-Tak™ Cell as well as tissue adhesive was used for allowing adhesion of suspended cells. Thereafter, sequential compounds containing 1 μM oligomycin, 0.5 μM carbonyl-cyanide p-trifluoromethoxy phenylhydrazone (FCCP), and 0.5 μM antimycin A (antiA)/rotenone (Rot), were added to the microplate for testing mitochondrial respiration. Furthermore, sequential compounds containing 10 mM glucose, 1 μM oligomycin, and 50 mM 2-deoxyglucose (2-DG), were added for testing glycolytic activity.
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