User talk:Tindle Lisa/My sandbox O2k-Procedures

                  

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User talk:Tindle Lisa/My sandbox O2k-Procedures

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O₂ consumption

Protocol	View	Topic	Preparation	Tissue and cell	Mammal and model	Last update
Gnaiger 2020 BEC MitoPathways	published online 2020-12-30	Gnaiger E (2020) Mitochondrial pathways and respiratory control. An introduction to OXPHOS analysis. 5th ed. Bioenerg Commun 2020.2. https://doi.org/10.26124/bec:2020-0002	Permeabilized cells Permeabilized tissue Homogenate Isolated mitochondria Intact cells	Heart Skeletal muscle Fibroblast	Human Mouse	2020
MiPNet12.01 Suppl T-issue	»Versions	MitoPathways at the Q-junction: mouse skeletal muscle fibers.	Permeabilized tissue	Skeletal muscle	Mouse	2018-11-18
MiPNet21.14 Reference sample HRR	»Versions	Development of a reference sample for HRR.	Intact cells Permeabilized cells	HEK	Human	2016-10-19
MiPNet08.09 CellRespiration	»Versions	High-resolution respirometry and coupling-control protocol with living cells: ROUTINE, LEAK, ET-pathway, ROX.	Intact cells	Blood cells Lymphocyte	Human	2016-08-11
MiPNet17.03 Shredder vs Fibers	»Versions	Mitochondrial respiration in permeabilized fibers versus homogenate from fish liver and heart. An application study with the PBI-Shredder.	Homogenate	Heart Liver	Fishes	2015-06-18
MiPNet12.11 MitoRespiration	»Versions	Flux control ratios in isolated mitochondria. OXPHOS capacity and respiratory control.	Isolated mitochondria		Artemia Crustaceans	2014-02-20
Pesta 2012 Methods Mol Biol	PMID: 22057559	Pesta D, Gnaiger E (2012) High-resolution respirometry. OXPHOS protocols for human cells and permeabilized fibers from small biopsies of human muscle. Methods Mol Biol 810:25-58. https://doi.org/10.1007/978-1-61779-382-0_3	Permeabilized cells Permeabilized tissue Intact cells	Skeletal muscle Other cell lines HEK Fibroblast HUVEC	Human	2012
MiPNet08.12 IOC22		NO effect on mitochondrial oxygen kinetics at low oxygen. O2k workshop Report.	Isolated mitochondria	Liver	Rat	2011-12-11
Gnaiger 2008 POS		Gnaiger E (2008) Polarographic oxygen sensors, the oxygraph and high-resolution respirometry to assess mitochondrial function. In: Mitochondrial dysfunction in drug-induced toxicity (Dykens JA, Will Y, eds) John Wiley & Sons, Inc, Hoboken, NJ:327-52.	Permeabilized cells Permeabilized tissue Intact cells	Blood cells	Mouse	2008
MiPNet04.05 Titration-Injection		From step titration to ramp injection: Uncoupling by FCCP with TIP.	Intact cells	Endothelial;epithelial;mesothelial cell HUVEC	Human	1999-01

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Redox biology

Protocol	View	Topic	Preparation	Tissue and cell	Mammal and model	Last update
Komlodi 2021 BEC Q	Bioenerg Commun 2021.3. published online 2021-11-11	Komlódi T, Cardoso LHD, Doerrier C, Moore AL, Rich PR, Gnaiger E (2021) Coupling and pathway control of coenzyme Q redox state and respiration in isolated mitochondria. Bioenerg Commun 2021.3. https://doi.org/10.26124/bec:2021-0003	Isolated mitochondria	Heart Nervous system	Mouse	2021

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H₂O₂ production

Protocol	View	Topic	Preparation	Tissue and cell	Mammal and model	Last update
Komlodi 2021 BEC AmR-O2	Bioenerg Commun 2021.4. published online 2021-12-21	Komlódi T, Sobotka O, Gnaiger E (2021) Facts and artefacts on the oxygen dependence of hydrogen peroxide production using Amplex UltraRed. Bioenerg Commun 2021.4. https://doi.org/10.26124/bec:2021-0004	Intact cells	Other cell lines	Saccharomyces cerevisiae	2021
MiPNet18.06 Amplex-Yeast	»Versions	O2k-FluoRespirometry: Amplex UltraRed using freeze-dried baker’s yeast. » Update: Komlódi T, Sobotka O, Gnaiger E (2021) Facts and artefacts on the oxygen dependence of hydrogen peroxide production using Amplex UltraRed. MitoFit Preprints 2021.10. doi:10.26124/mitofit:2021-0010				2019-06-24
MiPNet20.14 AmplexRed H2O2-production	»Versions	O2k-FluoRespirometry: HRR and simultaneous determination of H2O2 production with Amplex UltraRed.	Isolated mitochondria	Heart	Mouse	2019-06-24
Komlodi 2018 Methods Mol Biol	PMID:29850998	Komlodi T, Sobotka O, Krumschnabel G, Bezuidenhout N, Hiller E, Doerrier C, Gnaiger E (2018) Comparison of mitochondrial incubation media for measurement of respiration and hydrogen peroxide production. Methods Mol Biol 1782:137-55.	Permeabilized cells Permeabilized tissue	Skeletal muscle HEK	Human Mouse	2018
Makrecka-Kuka 2015 Biomolecules	Biomolecules 5:1319-38. PMID: 26131977 Open Access	Makrecka-Kuka M, Krumschnabel G, Gnaiger E (2015) High-resolution respirometry for simultaneous measurement of oxygen and hydrogen peroxide fluxes in permeabilized cells, tissue homogenate and isolated mitochondria. https://doi.org/10.3390/biom5031319	Permeabilized cells Homogenate Isolated mitochondria Intact cells	Heart Nervous system HEK	Human Mouse	2015
Krumschnabel 2015 Methods Mol Biol	PMID: 25631019	Krumschnabel G, Fontana-Ayoub M, Sumbalova Z, Heidler J, Gauper K, Fasching M, Gnaiger E (2015) Simultaneous high-resolution measurement of mitochondrial respiration and hydrogen peroxide production. Methods Mol Biol 1264:245-61.	Isolated mitochondria	Nervous system	Mouse	2015

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mt-Membrane potential

Protocol	View	Topic	Preparation	Tissue and cell	Mammal and model	Last update
MiPNet20.13 Safranin mt-membranepotential	»Versions	O2k-FluoRespirometry: HRR and simultaneous determination of mt-membrane potential with safranin or TMRM.	Homogenate	Nervous system	Mouse	2019-06-24
MiPNet14.05 TPP-mtMembranePotential	»Versions	TPP+ and mt-membrane potential.				2016-04-01
Krumschnabel 2014 Methods Enzymol	PMID: 24862266 »	Krumschnabel G, Eigentler A, Fasching M, Gnaiger E (2014) Use of safranin for the assessment of mitochondrial membrane potential by high-resolution respirometry and fluorometry. Methods Enzymol 542:163-81. https://doi.org/10.1016/B978-0-12-416618-9.00009-1	Homogenate	Nervous system	Mouse	2014
MiPNet15.08 TPP electrode	»Versions	Ion selective electrode for TPP+ and high-resolution respirometry.				2011-12-11

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ATP production

Protocol	View	Topic	Preparation	Tissue and cell	Mammal and model	Last update
Cardoso 2021 BEC MgG	Bioenerg Commun 2021.1. published online 2021-06-30	Cardoso LHD, Doerrier C, Gnaiger E (2021) Magnesium Green for fluorometric measurement of ATP production does not interfere with mitochondrial respiration. Bioenerg Commun 2021.1. https://doi.org/10.26124/bec:2021-0001	Isolated mitochondria	Heart	Mouse	2021
Chinopoulos 2014 Methods Enzymol	PMID: 24862274 Open Access»	Chinopoulos C, Kiss G, Kawamata H, Starkov AA (2014) Measurement of ADP-ATP exchange in relation to mitochondrial transmembrane potential and oxygen consumption. Methods Enzymol 542:333-48. doi:10.1016/B978-0-12-416618-9.00017-0	Permeabilized cells	HEK	Human	2014

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Calcium

Protocol	View	Topic	Preparation	Tissue and cell	Mammal and model	Last update
Naszai 2019 Sci Rep	PMID: 31848391 Open Access	Nászai A, Terhes E, Kaszaki J, Boros M, Juhász L (2019) Ca(2+)N it be measured? Detection of extramitochondrial calcium movement with high-resolution FluoRespirometry. Sci Rep 9:19229.	Isolated mitochondria	Liver	Rat	2019
Elustondo 2014 Biochim Biophys Acta	PMID: 25448536	Elustondo PA, Negoda A, Kane CL, Kane DA, Pavlov EV (2014) Spermine selectively inhibits high-conductance, but not low-conductance calcium-induced permeability transition pore. Biochim Biophys Acta 1847:231–40.	Isolated mitochondria	Liver	Rat	2014

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Plant physiology

Protocol	View	Topic	Preparation	Tissue and cell	Mammal and model	Last update
Went 2021 MitoFit PB	MitoFit Preprints 2021.05.	Went N, Di Marcello M, Gnaiger E (2021) Oxygen dependence of photosynthesis and light-enhanced dark respiration studied by High-Resolution PhotoRespirometry. MitoFit Preprints 2021.05. https://doi.org/10.26124/mitofit:2021-0005	Intact cells		Algae	2021

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NO concentration

Protocol	View	Topic	Preparation	Tissue and cell	Mammal and model	Last update
Aguirre 2010 Biochim Biophys Acta	PMID: 20144583 Open Access	Aguirre E, Rodríguez-Juárez F, Bellelli A, Gnaiger E, Cadenas S (2010) Kinetic model of the inhibition of respiration by endogenous nitric oxide in intact cells. Biochim Biophys Acta 1797:557-65. https://doi.org/10.1016/j.bbabio.2010.01.033	Intact cells Enzyme Oxidase;biochemical oxidation	HEK		2010

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