Difference between revisions of "IOC recommended reading"
From Bioblast
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'''» [[MitoPedia: Respiratory states]]''' | '''» [[MitoPedia: Respiratory states]]''' | ||
[[Image:P.jpg|link=OXPHOS capacity|OXPHOS]] [[Image: | [[Image:P.jpg|link=OXPHOS capacity|OXPHOS]] [[Image:R.jpg|link=ROUTINE respiration|ROUTINE]] [[Image:E.jpg|link=ETS capacity|ETS]] [[Image:L.jpg|link=LEAK respiration|LEAK]] [[Image:ROX.jpg|link=Residual oxygen consumption|ROX]] | ||
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*'''Gnaiger E (2014)''' Mitochondrial pathways and respiratory control. An introduction to OXPHOS analysis. 4th ed. Mitochondr Physiol Network 19.12. OROBOROS MiPNet Publications, Innsbruck: 80 pp. [[Gnaiger 2014 MitoPathways | | * '''Gnaiger E (2014)''' Mitochondrial pathways and respiratory control. An introduction to OXPHOS analysis. 4th ed. Mitochondr Physiol Network 19.12. OROBOROS MiPNet Publications, Innsbruck:80 pp. »[[Gnaiger 2014 MitoPathways |Open Access]]« | ||
**The Blue Book: OXPHOS analysis; CI-linked, CII-linked, CI<small>&</small>II-linked pathways, respiratory states, abbreviations. | ** The Blue Book: OXPHOS analysis; CI-linked, CII-linked, CI<small>&</small>II-linked pathways, respiratory states, abbreviations. | ||
*'''Pesta D, Gnaiger E (2012)''' High-resolution respirometry. OXPHOS protocols for human cells and permeabilized fibres from small biopisies of human muscle. Methods Mol Biol 810: 25-58. [[Pesta 2012 Methods Mol Biol | | * '''Pesta D, Gnaiger E (2012)''' High-resolution respirometry. OXPHOS protocols for human cells and permeabilized fibres from small biopisies of human muscle. Methods Mol Biol 810: 25-58. »[[Pesta 2012 Methods Mol Biol |Bioblast Access]]« | ||
**Introduction to high-resolution respirometry (HRR), SUIT protocols and flux control ratios. | ** Introduction to high-resolution respirometry (HRR), SUIT protocols and flux control ratios. | ||
*'''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: 327-352. [[Gnaiger 2012 MitoPathways | | * '''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: 327-352. »[[Gnaiger 2012 MitoPathways |Bioblast Access]]« | ||
**Methodological introduction to HRR, with focus on Polarographic oxygen sensor and traditional oxygraphy | ** Methodological introduction to HRR, with focus on Polarographic oxygen sensor and traditional oxygraphy | ||
**Dramatically different: High-resolution respirometry - the Oxygraph-2k | ** Dramatically different: High-resolution respirometry - the Oxygraph-2k | ||
**Calibration of polarographic oxygen sensors and oxygen concentration in respiration media at air saturation | ** Calibration of polarographic oxygen sensors and oxygen concentration in respiration media at air saturation | ||
**From Oxygraph slopes to respiratory flux corrected for background effects | ** From Oxygraph slopes to respiratory flux corrected for background effects | ||
**Phosphorylation or coupling control protocol (CCP) with intact cells | ** Phosphorylation or coupling control protocol (CCP) with intact cells | ||
**Titration steps of the CCP | ** Titration steps of the CCP | ||
**Experimental example | ** Experimental example | ||
**Flux control ratios from the CCP | ** Flux control ratios from the CCP | ||
**Intact cells, permeabilized cells and tissue, or isolated mitochondria? | ** Intact cells, permeabilized cells and tissue, or isolated mitochondria? | ||
== HRR and O2k-Fluorometry == | == HRR and O2k-Fluorometry == | ||
* [[MiPNet17.05 O2k-Fluorescence LED2-Module |»Manual: '''O2k- | * [[MiPNet17.05 O2k-Fluorescence LED2-Module |»Manual: '''O2k-Fluo LED2-Module''']] | ||
* '''Krumschnabel 2014 Methods Enzymol''' [[Krumschnabel 2014 Methods Enzymol| | * '''Krumschnabel 2014 Methods Enzymol''' »[[Krumschnabel 2014 Methods Enzymol |Link]]« | ||
* '''Krumschnabel G, Eigentler A, Fasching M, Gnaiger E (2014)''' O2k-Fluorometry: HRR and simultaneous determination of mt membrane potential with safranin. Mitochondr Physiol Network 19.19(01): 1-5. [[MiPNet19.19_Safranin_Data_Acquisition_and_Analysis | | * '''Krumschnabel G, Eigentler A, Fasching M, Gnaiger E (2014)''' O2k-Fluorometry: HRR and simultaneous determination of mt membrane potential with safranin. Mitochondr Physiol Network 19.19(01):1-5. »[[MiPNet19.19_Safranin_Data_Acquisition_and_Analysis |Open Access]]« | ||
* '''Krumschnabel G, Makrecka-Kuka M, Kumphune S, Fontana-Ayoub M, Fasching M, Gnaiger E (2014)''' O2k-Fluorometry: HRR and simultaneous determination of H2O2 production with Amplex Red. Mitochondr Physiol Network 19.20(01): 1-6. [[MiPNet19.20_Amplex_Red_Data_Acquisition_and_Analysis | | * '''Krumschnabel G, Makrecka-Kuka M, Kumphune S, Fontana-Ayoub M, Fasching M, Gnaiger E (2014)''' O2k-Fluorometry: HRR and simultaneous determination of H2O2 production with Amplex Red. Mitochondr Physiol Network 19.20(01):1-6. »[[MiPNet19.20_Amplex_Red_Data_Acquisition_and_Analysis |Open Access]]« | ||
* '''Eigentler A, Fontana-Ayoub M, Gnaiger E (2013)''' O2k-Fluorometry: HRR and H<sub>2</sub>O<sub>2</Sub> production in mouse cardiac tissue homogenate. Mitochondr Physiol Network 18.05(01): 1-6. [[MiPNet18.05 Amplex-Mouse-heart | | * '''Eigentler A, Fontana-Ayoub M, Gnaiger E (2013)''' O2k-Fluorometry: HRR and H<sub>2</sub>O<sub>2</Sub> production in mouse cardiac tissue homogenate. Mitochondr Physiol Network 18.05(01): 1-6. »[[MiPNet18.05 Amplex-Mouse-heart |Open Access]]« | ||
* [[O2k-Publications: O2k-Fluorometry | * '''[[O2k-Publications: O2k-Fluorometry]]''' | ||
== TPP/ISE == | == TPP/ISE == | ||
*O2k-MultiSensor System with Ion Selective Electrodes (ISE) '''[[MiPNet15.03]]''' | * O2k-MultiSensor System with Ion Selective Electrodes (ISE) '''[[MiPNet15.03]]''' | ||
* Determination of membrane potential using TPP+ and an ion selective electrode (ISE) '''[[MiPNet14.05]]''' | |||
*Determination of membrane potential using TPP+ and an ion selective electrode (ISE) '''[[MiPNet14.05]]''' | * '''[[Calculation of mitochondrial membrane potential from measurements with a TPP electrode]]''' | ||
* '''Rottenberg H (1984)''' Membrane potential and surface potential in mitochondria: uptake and binding of lipophilic cations. J Membr Biol 81:127-38. | |||
*'''[[Calculation of mitochondrial membrane potential from measurements with a TPP electrode]]''' | |||
*'''Rottenberg H (1984)''' Membrane potential and surface potential in mitochondria: uptake and binding of lipophilic cations. J Membr Biol 81: 127- | |||
== Further reading == | == Further reading == | ||
*'''Gnaiger E (2009)''' Capacity of oxidative phosphorylation in human skeletal muscle. New perspectives of mitochondrial physiology. Int J Biochem Cell Biol 41: 1837-1845. [[Gnaiger 2009 Int J Biochem Cell Biol | | * '''Gnaiger E (2009)''' Capacity of oxidative phosphorylation in human skeletal muscle. New perspectives of mitochondrial physiology. Int J Biochem Cell Biol 41: 1837-1845. »[[Gnaiger 2009 Int J Biochem Cell Biol |Link]]« | ||
**Respirometry with permeabilized fibres and isolated mitochondria | ** Respirometry with permeabilized fibres and isolated mitochondria. | ||
**Convergent CI | ** Convergent CI<small>&</small>II electron input and OXPHOS capacity. | ||
**Tissue-OXPHOS capacity in human permeabilized muscle fibres and isolated mitochondria | ** Tissue-OXPHOS capacity in human permeabilized muscle fibres and isolated mitochondria. | ||
**Tissue-OXPHOS capacity and functional diversity | ** Tissue-OXPHOS capacity and functional diversity. | ||
*'''Gnaiger E (2001)''' Bioenergetics at low oxygen: dependence of respiration and phosphorylation on oxygen and adenosine diphosphate supply. Respir Physiol 128: 277-297. – A detailed introduction into high-resolution respirometry with particular emphasis on kinetics and measurements at low oxygen. | * '''Gnaiger E (2001)''' Bioenergetics at low oxygen: dependence of respiration and phosphorylation on oxygen and adenosine diphosphate supply. Respir Physiol 128: 277-297. »[[Gnaiger 2001 Respir Physiol |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 | ** Mitochondrial kinetics measured by high-resolution respirometry | ||
**Calibrations and corrections for response time and instrumental background | ** Calibrations and corrections for response time and instrumental background | ||
**Steady-state injection respirometry | ** Steady-state injection respirometry | ||
**Mitochondrial respiratory control at low oxygen | ** Mitochondrial respiratory control at low oxygen | ||
**Apparent oxygen affinity and catalytic efficiency of mitochondrial respiration | ** Apparent oxygen affinity and catalytic efficiency of mitochondrial respiration | ||
**Effect of ADP and oxygen limitation on ADP/O2 flux ratios | ** Effect of ADP and oxygen limitation on ADP/O2 flux ratios | ||
**The low-oxygen environment of the cell: Mitochondria between hypoxic and oxidative stress | ** The low-oxygen environment of the cell: Mitochondria between hypoxic and oxidative stress | ||
*'''Scandurra FM, Gnaiger E (2010)''' Cell respiration under hypoxia: Facts and artefacts in mitochondrial oxygen kinetics. Adv Exp Med Biol 662: 7-25. [[Scandurra 2010 Adv Exp Med Biol| | * '''Scandurra FM, Gnaiger E (2010)''' Cell respiration under hypoxia: Facts and artefacts in mitochondrial oxygen kinetics. Adv Exp Med Biol 662: 7-25. »[[Scandurra 2010 Adv Exp Med Biol |Open Access]]« | ||
**Isolated mitochondria and intact cells | ** Isolated mitochondria and intact cells | ||
**Nanomolar resolution of oxygen concentration | ** Nanomolar resolution of oxygen concentration | ||
**Effects of cell density and activity | ** Effects of cell density and activity | ||
**Closed versus open systems | ** Closed versus open systems | ||
** | ** ''p''<sub>50</sub> 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: 431-442. [[Gnaiger 2000 Transplant Proc|'''»Abstract''']] | *'''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: 431-442. [[Gnaiger 2000 Transplant Proc|'''»Abstract''']] | ||
Revision as of 12:45, 10 January 2015
General
»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.
» MitoPedia: Respiratory states
SUIT protocols for high-resolution respirometry
.
- Gnaiger E (2014) Mitochondrial pathways and respiratory control. An introduction to OXPHOS analysis. 4th ed. Mitochondr Physiol Network 19.12. OROBOROS MiPNet Publications, Innsbruck:80 pp. »Open Access«
- The Blue Book: OXPHOS analysis; CI-linked, CII-linked, CI&II-linked pathways, respiratory states, abbreviations.
- Pesta D, Gnaiger E (2012) High-resolution respirometry. OXPHOS protocols for human cells and permeabilized fibres from small biopisies of human muscle. Methods Mol Biol 810: 25-58. »Bioblast Access«
- Introduction to high-resolution respirometry (HRR), SUIT protocols and flux control ratios.
- 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: 327-352. »Bioblast Access«
- Methodological introduction to HRR, with focus on Polarographic oxygen sensor and traditional oxygraphy
- Dramatically different: High-resolution respirometry - the Oxygraph-2k
- 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 (CCP) with intact cells
- Titration steps of the CCP
- Experimental example
- Flux control ratios from the CCP
- Intact cells, permeabilized cells and tissue, or isolated mitochondria?
HRR and O2k-Fluorometry
- »Manual: O2k-Fluo LED2-Module
- Krumschnabel 2014 Methods Enzymol »Link«
- Krumschnabel G, Eigentler A, Fasching M, Gnaiger E (2014) O2k-Fluorometry: HRR and simultaneous determination of mt membrane potential with safranin. Mitochondr Physiol Network 19.19(01):1-5. »Open Access«
- Krumschnabel G, Makrecka-Kuka M, Kumphune S, Fontana-Ayoub M, Fasching M, Gnaiger E (2014) O2k-Fluorometry: HRR and simultaneous determination of H2O2 production with Amplex Red. Mitochondr Physiol Network 19.20(01):1-6. »Open Access«
- 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. »Open Access«
- 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
- Calculation of mitochondrial membrane potential from measurements with a TPP electrode
- Rottenberg H (1984) Membrane potential and surface potential in mitochondria: uptake and binding of lipophilic cations. J Membr Biol 81:127-38.
Further reading
- Gnaiger E (2009) Capacity of oxidative phosphorylation in human skeletal muscle. New perspectives of mitochondrial physiology. Int J Biochem Cell Biol 41: 1837-1845. »Link«
- Respirometry with permeabilized fibres and isolated mitochondria.
- Convergent CI&II electron input and OXPHOS capacity.
- Tissue-OXPHOS capacity in human permeabilized muscle fibres and isolated mitochondria.
- Tissue-OXPHOS capacity and functional diversity.
- Gnaiger E (2001) Bioenergetics at low oxygen: dependence of respiration and phosphorylation on oxygen and adenosine diphosphate supply. Respir Physiol 128: 277-297. »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
- Scandurra FM, Gnaiger E (2010) Cell respiration under hypoxia: Facts and artefacts in mitochondrial oxygen kinetics. Adv Exp Med Biol 662: 7-25. »Open Access«
- 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: 431-442. »Abstract
- Isolated mitochondria and permeabilized muscle fibers, MiR05
- 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: 115-123. »Abstract
- Intact cells
- Cytochrome c oxidase
- Cytochrome c test
- Respiration per million cells, per citrate synthase, per mg protein, or per cytochrome c oxidase activity.
