IOC recommended reading

                

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IOC recommended reading

MitoEAGLE 'Mitochondrial physiology' BEC 2020.1

• Gnaiger Erich et al ― MitoEAGLE Task Group (2020) Mitochondrial physiology. Bioenerg Commun 2020.1. doi:10.26124/bec:2020-0001.v1. - »Bioblast link«

Workshop material

• Gnaiger Erich et al ― MitoEAGLE Task Group (2020) Mitochondrial physiology. Bioenerg Commun 2020.1. doi:10.26124/bec:2020-0001.v1. - »Bioblast link«
• Gnaiger E (2020) Mitochondrial pathways and respiratory control. An introduction to OXPHOS analysis. 5th ed. Bioenerg Commun 2020.2. - »Bioblast link« - A new edition with updated terminology and more ..
• Baglivo E, Cardoso LHD, Cecatto C, Gnaiger E (2022) Statistical analysis of instrumental reproducibility as internal quality control in high-resolution respirometry. Bioenerg Commun 2022.8. »Bioblast link«
• Doerrier C, Garcia-Souza LF, Krumschnabel G, Wohlfarter Y, Mészáros AT, Gnaiger E (2018) High-Resolution FluoRespirometry and OXPHOS protocols for human cells, permeabilized fibres from small biopsies of muscle, and isolated mitochondria. Methods Mol Biol 1782 (Palmeira CM, Moreno AJ, eds): Mitochondrial Bioenergetics, 978-1-4939-7830-4. - »Bioblast link«
• 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 »Bioblast pdf«

HRR: high-resolution respirometry and SUIT protocols

• Doerrier C, Garcia-Souza LF, Krumschnabel G, Wohlfarter Y, Mészáros AT, Gnaiger E (2018) High-Resolution FluoRespirometry and OXPHOS protocols for human cells, permeabilized fibres from small biopsies of muscle, and isolated mitochondria. Methods Mol Biol 1782 (Palmeira CM, Moreno AJ, eds): Mitochondrial Bioenergetics, 978-1-4939-7830-4. - »Bioblast link«

» Introduction to harmonized reference protocols 1 and 2 (SUIT-001 and 002) for mitochondrial preparation.

» Introduction to SUIT protocols with living cells (SUIT-003).

» Optimum digitonin concentration test (SUIT-010).

» Complex IV activity and chemical background correction.

» Introduction to O₂ kinetics.

• Lemieux H, Blier PU, Gnaiger E (2017) Remodeling pathway control of mitochondrial respiratory capacity by temperature in mouse heart: electron flow through the Q-junction in permeabilized fibers. Sci Rep 7:2840, DOI:10.1038/s41598-017-02789-8. - »Bioblast link«

» Updated terminology with SUIT protocols.

» NADH-linked or N-pathways (CI-entry into Q); succinate-linked or S-pathway (CII-entry into Q); NS-pathway (convergent CI&II-entry into Q).

• Gnaiger E (2020) Mitochondrial pathways and respiratory control. An introduction to OXPHOS analysis. 5th ed. BEC 2020.2. - »Bioblast link«

» A hard copy of this monograph on mitochondrial physiology will be included in the workshop material. The Blue Book is available online free of charge and provides a background on OXPHOS analysis:

» From oxygen concentration to oxygen flux •• Membrane potential: electric and chemical forces •• Coupling and efficiency •• Biochemical thresholds

» Respiratory states

» MitoPathways - the electron transfer-pathway

» Normalization of mitochondrial respiration: coupling control and pathway control.

• 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:327-52. - »Bioblast link«

» Methodological introduction, comparison of HRR with traditional oxygraphy.

» Dramatically different: high-resolution respirometry - the Oroboros O2k.

» Calibration of polarographic oxygen sensors and oxygen concentration in respiration media at air saturation.

» From Oxygraph slopes to respiratory flux corrected for background effects.

» Phosphorylation or coupling control protocol (PCP, CCP) with intact cells.

» Titration steps of the CCP.

» Experimental example.

» Flux control ratios from the CCP.

» Living cells, permeabilized cells and tissue, or isolated mitochondria?

• MitoPedia: SUIT

• MitoPedia: Respiratory states

O2k-FluoRespirometry

• 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 »Bioblast pdf«

• 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 »Bioblast pdf«

• 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. »Bioblast pdf«

• 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. Biomolecules 5:1319-38. »Bioblast pdf«

• 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. - »Bioblast link«

• 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. - »Bioblast link«

• Eigentler A, Fontana-Ayoub M, Gnaiger E (2013) O2k-Fluorometry: HRR and H₂O₂ production in mouse cardiac tissue homogenate. Mitochondr Physiol Network 18.05(01):1-6. - »Bioblast link«

• O2k-Publications: O2k-Fluorometry

TPP/ISE

• O2k-MultiSensor System with ion selective electrodes (ISE) MiPNet15.03

• Determination of membrane potential using TPP+ and an ion selective electrode (ISE) MiPNet14.05

• Rottenberg H (1984) Membrane potential and surface potential in mitochondria: uptake and binding of lipophilic cations. J Membr Biol 81:127-38.

Further reading

• Zdrazilova L, Hansikova H, Gnaiger E (2022) Comparable respiratory activity in attached and suspended human fibroblasts. PLoS ONE 17:e0264496 - »Bioblast link«

» Respirometry with living cells.

» Repeatability and reproducibility.

• Gnaiger E (2009) Capacity of oxidative phosphorylation in human skeletal muscle. New perspectives of mitochondrial physiology. Int J Biochem Cell Biol 41:1837-45. - »Bioblast link«

» Respirometry with permeabilized fibres and isolated mitochondria.

» Convergent NS (CI&II) electron input and OXPHOS capacity.

» Tissue-OXPHOS capacity in human permeabilized muscle fibres and isolated mitochondria.

» Tissue-OXPHOS capacity and functional diversity.

• Pesta D, Gnaiger E (2012) High-resolution respirometry. OXPHOS protocols for human cells and permeabilized fibres from small biopsies of human muscle. Methods Mol Biol 810:25-58. - »Bioblast link«

» Introduction to high-resolution respirometry (HRR), SUIT protocols and flux control ratios.

• Scandurra FM, Gnaiger E (2010) Cell respiration under hypoxia: Facts and artefacts in mitochondrial oxygen kinetics. Adv Exp Med Biol 662:7-25. - »Bioblast link«

» Isolated mitochondria and intact cells.

» Nanomolar resolution of oxygen concentration.

» Effects of cell density and activity.

» Closed versus open systems.

» p₅₀ in vivo.

• Gnaiger E, Kuznetsov AV, Schneeberger S, Seiler R, Brandacher G, Steurer W, Margreiter R (2000) Mitochondria in the cold. In: Life in the Cold (Heldmaier G, Klingenspor M, eds) Springer, Heidelberg, Berlin, New York:431-42. - »Bioblast link«

» Isolated mitochondria and permeabilized muscle fibers.

» Optimization of mitochondrial cold storage • Mitochondrial respiration medium, MiR05 • Mitochondrial cold ischemia-reperfusion injury.

• Renner K, Amberger A, Konwalinka G, Kofler R, Gnaiger E (2003) Changes of mitochondrial respiration, mitochondrial content and cell size after induction of apoptosis in leukemia cells. Biochim Biophys Acta 1642:115-23. - »Bioblast link«

» Intact cells.

» Cytochrome c oxidase.

» Cytochrome c test.

» Respiration per million cells, per citrate synthase, per mg protein, or per cytochrome c oxidase activity.

• Gnaiger E (2001) Bioenergetics at low oxygen: dependence of respiration and phosphorylation on oxygen and adenosine diphosphate supply. Respir Physiol 128:277-97. - »Bioblast link«

» A detailed introduction into high-resolution respirometry with particular emphasis on kinetics and measurements at low oxygen

» Mitochondrial kinetics measured by high-resolution respirometry

» Calibrations and corrections for response time and instrumental background

» Steady-state injection respirometry

» Mitochondrial respiratory control at low oxygen

» Apparent oxygen affinity and catalytic efficiency of mitochondrial respiration

» Effect of ADP and oxygen limitation on ADP/O2 flux ratios

» The low-oxygen environment of the cell: Mitochondria between hypoxic and oxidative stress

• Gnaiger E, Steinlechner-Maran R, Méndez G, Eberl T, Margreiter R (1995) Control of mitochondrial and cellular respiration by oxygen. J Bioenerg Biomembr 27:583-96. - »Bioblast link«

» First publication to establish high-resolution respirometry, based on the Oroboros Oxygraph.

» Standardized oxygen calibration (air and internal zero oxygen calibration).

» Automatic instrumental background correction of oxygen flux.

» Deconvolution of the oxygen signal for time resolution required in oxygen kinetics.

» Quality control of the limit of detection of oxygen flux at ±1 pmol O₂·s^-1·ml^-1.

General

• O2k-Core Manual.pdf: O2k-Manual for DatLab 6.

• Worksheet O2k-Basic: This worksheet contains questions on the O2k and HRR addressed to participants of O2k-Basic Workshops. Answers to these questions are elaborated during the O2k-Workshop.

• O2k-Publications

• O2k-Protocols