Difference between revisions of "Categories of SUIT protocols"
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|year=2016 | |year=2016 | ||
|journal=MiPNet | |journal=MiPNet | ||
|abstract=There are many ways to define groups of SUIT protocols. The complexity of SUIT protocols is primarily determined by the large number of possible [[pathway control state]]s, compared to only three well defined [[coupling control state]]s. Therefore, | |abstract=There are many ways to define groups of SUIT protocols. The complexity of SUIT protocols is primarily determined by the large number of possible [[pathway control state]]s, compared to only three well defined [[coupling control state]]s. Therefore, categories of SUIT protocols consider the ETS pathway control states involved. Whereas the [[SUIT protocol names]] include all specific substrates applied in the SUIT protocol, the categories of SUIT protocols reduce this diversity to [[ETS pathway types]]. | ||
|mipnetlab=AT Innsbruck OROBOROS | |mipnetlab=AT Innsbruck OROBOROS | ||
}} | }} | ||
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== Towards a library of SUIT protocols == | == Towards a library of SUIT protocols == | ||
:::: At the present stage of development of the | :::: At the present stage of development of the [[MitoPedia:_SUIT#Library_of_SUIT_protocols |Library of SUIT protocols]] as part of the [[MitoFit Quality Control System]], five ETS pathway types are considered. | ||
::::* '''F''' on the pathway level of converging FADH<sub>2</sub>- and NADH-linked dehydrogenases, including beta-oxidationthe and segments of the TCA cycle. | ::::* '''F-junction''' on the pathway level of converging FADH<sub>2</sub>- and NADH-linked dehydrogenases, including beta-oxidationthe and segments of the TCA cycle. | ||
::::* '''N''' on the pathway level of NADH-linked dehydrogenases, including the TCA cycle. | ::::* '''N-junction''' on the pathway level of NADH-linked dehydrogenases, including the TCA cycle. | ||
::::* ''' | ::::* '''Q-junction''' on the pathway level of electron transfer complexes converging at the [[Q-junction]] (S and Gp). | ||
::::* '''Tm''' on the single step level of cytochrome ''c'' oxidase (CIV), the terminal step in the aerobic electron transfer system. Tm can be included or excluded at the end of a SUIT protocol. To simplify the categorization, Tm is not considered in this system of SUIT protocols. | ::::* '''Tm''' on the single step level of cytochrome ''c'' oxidase (CIV), the terminal step in the aerobic electron transfer system. Tm can be included or excluded at the end of a SUIT protocol. To simplify the categorization, Tm is not considered in this system of SUIT protocols. | ||
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[[File:SUIT-catg Gp.jpg|200px]] | [[File:SUIT-catg Gp.jpg|200px]] | ||
=== ETS-level 4: N, CI-pathway to Q === | === ETS-level 4: N, N-junction or CI-pathway to Q === | ||
[[File:SUIT-catg N.jpg|200px]] | [[File:SUIT-catg N.jpg|200px]] | ||
=== ETS-level 5: F, FAO, CETF- supported by CI-pathway to Q === | === ETS-level 5: F, FAO, F-junction, CETF- supported by CI-pathway to Q === | ||
[[File:SUIT-catg F.jpg|200px]] | [[File:SUIT-catg F.jpg|200px]] | ||
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== SUIT-catg: multiple ETS pathways without N == | == SUIT-catg: multiple ETS pathways without N == | ||
:::: | :::: Addition of malate alone (M without P or G) is not considered as substrate type N. However, high mt-malic enzyme activity requires a change of this concept, when M alone represents an ETS ccompetent substrate state. Low concentration of M may be used to support FAO, whereas a higher concentration of M may be required for N-junction respiratory capacity to override FAO capacity; this needs corresponding kinetic analyses ([[SUIT test protocols]]). | ||
=== FS === | === FS === |
Revision as of 08:08, 10 September 2016
Description
Categories of SUIT protocols group SUIT protocols according to all ETS substrate types involved in a protocol, independent of titrations of inhibitors which block the oxidation of the substrates present. ROX states may or may not be included in a SUIT protocol, which does not change its category.
- F - ETS-level 5: FADH2-linked substrates (FAO) with obligatory support by the N-linked pathway.
- N - ETS-level 4: NADH-linked substrates (CI-linked).
- S - ETS-level 3: Succinate (CII-linked).
- Gp - ETS-level 3: Glycerophosphate (CGpDH-linked).
- CIV - ETS-level 1: Artificial electron transfer susbstrate TMPD (Tm) maintained in a reduced state by ascorbate (As) and reducing cytochrome c as the substrate of CIV.
Abbreviation: SUIT-catg
Reference: MiPNet21.06 SUIT RP
MitoPedia concepts:
MiP concept,
SUIT concept
Categorization of SUIT protocols: ETS pathway control states
Gnaiger E (2016) Categorization of SUIT protocols: MitoPathways. MiPNet 2016-03-20, edited 2016-08-21. |
Abstract: There are many ways to define groups of SUIT protocols. The complexity of SUIT protocols is primarily determined by the large number of possible pathway control states, compared to only three well defined coupling control states. Therefore, categories of SUIT protocols consider the ETS pathway control states involved. Whereas the SUIT protocol names include all specific substrates applied in the SUIT protocol, the categories of SUIT protocols reduce this diversity to ETS pathway types.
β’ O2k-Network Lab: AT Innsbruck OROBOROS
Labels: MiParea: Instruments;methods
HRR: Theory
Towards a library of SUIT protocols
- At the present stage of development of the Library of SUIT protocols as part of the MitoFit Quality Control System, five ETS pathway types are considered.
- F-junction on the pathway level of converging FADH2- and NADH-linked dehydrogenases, including beta-oxidationthe and segments of the TCA cycle.
- N-junction on the pathway level of NADH-linked dehydrogenases, including the TCA cycle.
- Q-junction on the pathway level of electron transfer complexes converging at the Q-junction (S and Gp).
- Tm on the single step level of cytochrome c oxidase (CIV), the terminal step in the aerobic electron transfer system. Tm can be included or excluded at the end of a SUIT protocol. To simplify the categorization, Tm is not considered in this system of SUIT protocols.
- At the present stage of development of the Library of SUIT protocols as part of the MitoFit Quality Control System, five ETS pathway types are considered.
SUIT-Catg: single pathway type
ETS-level 1: CIV
ETS-level 3: S, CII-pathway to Q
ETS-level 3: Gp, CGpDH-pathway to Q
ETS-level 4: N, N-junction or CI-pathway to Q
ETS-level 5: F, FAO, F-junction, CETF- supported by CI-pathway to Q
SUIT-catg: multiple ETS pathways with FNSGpCIV
SUIT-catg: multiple ETS pathways with NS
NS
FNS
NSGp
FNSGp
SUIT-catg: multiple ETS pathways with N (without S)
FN
NGp
FNGp
SUIT-catg: multiple ETS pathways without N
- Addition of malate alone (M without P or G) is not considered as substrate type N. However, high mt-malic enzyme activity requires a change of this concept, when M alone represents an ETS ccompetent substrate state. Low concentration of M may be used to support FAO, whereas a higher concentration of M may be required for N-junction respiratory capacity to override FAO capacity; this needs corresponding kinetic analyses (SUIT test protocols).