SUIT-040 O2 pfi D095: Difference between revisions
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Communicated by [[Grings M]], [[Cecatto C]] and [[Cardoso LHD]] (last update 2023-04-12) | Communicated by [[Grings M]], [[Cecatto C]] and [[Cardoso LHD]] (last update 2023-04-12) | ||
== Representative traces == | == Representative traces == | ||
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== Strengths and limitations == | == Strengths and limitations == | ||
:::* SUIT- | :::* SUIT-040 allows assessing FAO-linked respiration avoiding overestimation by endogenous substrates or malate anaplerosis. Other electron transfer pathways are also analyzed in OXPHOS (FN, FNS, FNSGp) and ET-state (FNSGp, SGp). | ||
:::+ SUIT- | :::+ SUIT-039 allows the depletion of endogenous substrates with ADP (1D). | ||
:::+ The protocol provides information on F-pathway in OXPHOS state. The low concentration of malate used in this protocol, typically 0.1 mM, does not saturate the N-pathway; but saturates the F-pathway. ย | :::+ The protocol provides information on F-pathway in OXPHOS state with palmitoylcarnitine, a long-chain acylcarnitine commonly found ''in vivo''. ย | ||
:::+ F-pathway ( | :::+ The low concentration of malate used in this protocol to assess F-pathway, typically 0.1 mM, does not saturate the N-pathway; but saturates the F-pathway. ย | ||
:::+ F-pathway (3Pal-2M.1) can be compared to FN-pathway (5P) in OXPHOS state. | |||
:::+ Pathway control in OXPHOS (F, F(N), FN, FNS, FNSGp pathways) and in ET state (FNSGp and SGp) can be observed. | :::+ Pathway control in OXPHOS (F, F(N), FN, FNS, FNSGp pathways) and in ET state (FNSGp and SGp) can be observed. | ||
:::+ | :::+ Multiple pathways converging into Q (FNSGp) are assessed in OXPHOS and ET states. Therefore, ''P''/''E'' (8Gp/9U) at high ET capacity can be calculated. | ||
:::- | :::- Long duration of the experiment. | ||
:::- LEAK state is not investigated. | |||
:::- | |||
== Compare SUIT protocols == | == Compare SUIT protocols == | ||
::::* [[SUIT-036_O2_mt_D089]]: Similar protocol, including malate kinetics to assess mitochondrial malic enzyme and anaplerosis. | |||
::::* [[SUIT-002 O2 mt D005]]: Reference protocol SUIT protocol for isolated mitochondria, tissue homogenate and permeabilized cells (already permeabilized). Allows evaluation of FAO with octanoylcarnitine, also without overestimation by using low malate concentration. Besides this, provides information on pathway control in OXPHOS state (F, F(N), FN, FNS, FNSGp pathways) and ET-state (FNSGp, SGp pathways). | |||
::::* [[SUIT-025_O2_mt_D057]]: Allows evaluation of FAO with octanoylcarnitine, also without overestimation by using low malate concentration. Besides this, provides information on pathway control in OXPHOS state (F, F(N), FN, FNS pathways). | |||
::::* [[SUIT-041 O2 mt D096]]: A protocol to determine the optimum concentration of acylcarnitine. | |||
== Chemicals and syringes == | == Chemicals and syringes == | ||
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== References == | == References == | ||
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Revision as of 16:31, 13 April 2023
Description
Reference: A - SUIT-040
SUIT number: D094_1D;2M.1;3Pal;3c;4M2;5P;6G;7S;8Gp;9U;10Rot;11Ama
The SUIT-040 O2 mt D095 protocol provides a common reference for comparison of respiratory control of permeabilized muscle fibers. SUIT-040 O2 mt D095 is specially designed to give information on F-pathway with palmitoylcarnitine as a FAO substrate in OXPHOS state avoiding FAO overestimation in the presence of anaplerotic pathways. Moreover, the pathway control in OXPHOS state (F, F(N), FN, FNS, FNSGp pathways) and in ET state (FNSGp and SGp) can be evaluated by using this SUIT protocol.
Communicated by Grings M, Cecatto C and Cardoso LHD (last update 2023-04-12)
Representative traces
Steps and respiratory states
Step | State | Pathway | Q-junction | Comment - Events (E) and Marks (M) |
---|---|---|---|---|
1D | ROX | 1D
| ||
2M.1 | 1D;2M.1 | |||
3Pal | PalMP | F | FAO | 1D;2M.1;3Pal
|
3c | PalMcP | F | FAO | 1D;2M.1;3Pal;3c
|
4M2 | PalMP | F(N) | FAO | 1D;2M.1;3Pal;3c;4M2
|
5P | PalPMP | FN | FAO&CI | 1D;2M.1;3Pal;4M2;5P
|
6G | PalPGMP | FN | FAO&CI | 1D;2M.1;3Pal;4M2;5P;6G
|
7S | PalPGMSP | FNS | FAO&CI&II | 1D;2M.1;3Pal;4M2;5P;6G;7S
|
8Gp | PalPGMSGpP | FNSGp | FAO&CI&II&GpDH | 1D;2M.1;3Pal;4M2;5P;6G;7S;8Gp
|
9U | PalPGMSGpE | FNSGp | FAO&CI&II&GpDH | 1D;2M.1;3Pal;4M2;5P;6G;7S;8Gp;9U
|
10Rot | SGpE | SGp | CII&GpDH | 1D;2M.1;3Pal;4M2;5P;6G;7S;8Gp;9U;10Rot
|
11Ama | ROX | 1D;2M.1;3Pal;4M2;5P;6G;7S;8Gp;9U;10Rot;11Ama
|
- Bioblast links: SUIT protocols - >>>>>>> - Click on [Expand] or [Collapse] - >>>>>>>
- Coupling control
- Pathway control
- ยป Electron transfer pathway
- ยป Fatty acid oxidation pathway control state, F
- ยป NADH electron transfer-pathway state, N
- ยป Succinate pathway control state, S
- ยป NS-pathway control state, NS
- ยป Glycerophosphate pathway control state, Gp
- ยป Complex IV single step, CIV
- ยป Anaplerotic pathway control state
- Pathway control
- Main fuel substrates
- ยป Glutamate, G
- ยป Glycerophosphate, Gp
- ยป Malate, M
- ยป Octanoylcarnitine, Oct
- ยป Pyruvate, P
- ยป Succinate, S
- Main fuel substrates
- Glossary
Strengths and limitations
- SUIT-040 allows assessing FAO-linked respiration avoiding overestimation by endogenous substrates or malate anaplerosis. Other electron transfer pathways are also analyzed in OXPHOS (FN, FNS, FNSGp) and ET-state (FNSGp, SGp).
- + SUIT-039 allows the depletion of endogenous substrates with ADP (1D).
- + The protocol provides information on F-pathway in OXPHOS state with palmitoylcarnitine, a long-chain acylcarnitine commonly found in vivo.
- + The low concentration of malate used in this protocol to assess F-pathway, typically 0.1 mM, does not saturate the N-pathway; but saturates the F-pathway.
- + F-pathway (3Pal-2M.1) can be compared to FN-pathway (5P) in OXPHOS state.
- + Pathway control in OXPHOS (F, F(N), FN, FNS, FNSGp pathways) and in ET state (FNSGp and SGp) can be observed.
- + Multiple pathways converging into Q (FNSGp) are assessed in OXPHOS and ET states. Therefore, P/E (8Gp/9U) at high ET capacity can be calculated.
- - Long duration of the experiment.
- - LEAK state is not investigated.
Compare SUIT protocols
- SUIT-036_O2_mt_D089: Similar protocol, including malate kinetics to assess mitochondrial malic enzyme and anaplerosis.
- SUIT-002 O2 mt D005: Reference protocol SUIT protocol for isolated mitochondria, tissue homogenate and permeabilized cells (already permeabilized). Allows evaluation of FAO with octanoylcarnitine, also without overestimation by using low malate concentration. Besides this, provides information on pathway control in OXPHOS state (F, F(N), FN, FNS, FNSGp pathways) and ET-state (FNSGp, SGp pathways).
- SUIT-025_O2_mt_D057: Allows evaluation of FAO with octanoylcarnitine, also without overestimation by using low malate concentration. Besides this, provides information on pathway control in OXPHOS state (F, F(N), FN, FNS pathways).
- SUIT-041 O2 mt D096: A protocol to determine the optimum concentration of acylcarnitine.
Chemicals and syringes
Step | Chemical(s) and link(s) | Comments |
---|---|---|
1D | ADP (D) | |
2M.1 | Malate (M) | |
3Pal | Palmitoylcarnitine (Pal) | |
3c | Cytochrome c (c) | |
4M2 | Malate (M) | |
5P | Pyruvate (P) | |
6G | Glutamate (G) | |
7S | Succinate (S) | |
8Gp | Glycerophosphate (Gp) | |
9U | Carbonyl cyanide m-chlorophenyl hydrazone, CCCP (U) | Can be substituted for other uncoupler |
10Rot | Rotenone (Rot) | |
11Ama | Antimycin A (Ama) |
- Suggested stock concentrations are shown in the specific DL-Protocol.
References
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