Difference between revisions of "Categories of SUIT protocols"
From Bioblast
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{{MitoPedia | {{MitoPedia | ||
|abbr=SUIT- | |abbr=SUIT-catg | ||
|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. | |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. | ||
» [[#Categorization of SUIT protocols: ETS | » [[#Categorization of SUIT protocols: ETS pathway control states |'''MiPNet article''']] | ||
|info=[[MiPNet21.06 SUIT RP]] | |info=[[MiPNet21.06 SUIT RP]] | ||
}} | }} | ||
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|mitopedia concept=MiP concept, SUIT concept | |mitopedia concept=MiP concept, SUIT concept | ||
}} | }} | ||
__TOC__ | __TOC__ | ||
= Categorization of SUIT protocols: ETS | = Categorization of SUIT protocols: ETS pathway control states = | ||
{{Publication | {{Publication | ||
|title=Gnaiger E (2016) Categorization of SUIT protocols: | |title=Gnaiger E (2016) Categorization of SUIT protocols: MitoPathways. MiPNet 2016-03-20, edited 2016-08-20. | ||
|info=[[MiPNet21.06 SUIT RP]] | |info=[[MiPNet21.06 SUIT RP]] | ||
|authors=OROBOROS | |authors=OROBOROS | ||
|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 [[ | |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, a relevant type of categories of SUIT protocols considers 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 'library of SUIT protocols' as part of the [[MitoFit Quality Control System]], five ETS | :::: 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''' 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. | |||
::::* '''S and Gp''' on the pathway level of electron transfer complexes converging at the Q-junction. | ::::* '''S and Gp''' on the pathway level of electron transfer complexes converging at the Q-junction. | ||
::::* '''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. | ||
== SUIT-Catg: single | == SUIT-Catg: single pathway type == | ||
[[File:SUIT-Catg NFSGpTm.jpg|left|200px]] | [[File:SUIT-Catg NFSGpTm.jpg|left|200px]] | ||
<br /> | <br /> | ||
:::''' | :::'''F''' - ETS-level 5: [[FADH2 |FADH<sub>2</sub>]]-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) | :::'''S''' - ETS-level 3: [[Succinate]] (CII-linked). | ||
:::'''Gp''' - ETS-level 3: [[Glycerophosphate]] (CGpDH-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]]. | ||
<br /> | <br /> | ||
== SUIT-Catg: multiple ETS | == SUIT-Catg: multiple ETS pathways with NS == | ||
=== NS === | === NS === | ||
[[File:SUIT-Catg NS.jpg|200px]] | [[File:SUIT-Catg NS.jpg|200px]] | ||
=== | === FNS === | ||
[[File:SUIT-Catg NFS.jpg|200px]] | [[File:SUIT-Catg NFS.jpg|200px]] | ||
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[[File:SUIT-Catg NSGp.jpg|200px]] | [[File:SUIT-Catg NSGp.jpg|200px]] | ||
=== | === FNSGp === | ||
[[File:SUIT-Catg NFSGp.jpg|200px]] | [[File:SUIT-Catg NFSGp.jpg|200px]] | ||
== SUIT-Catg: multiple ETS | == SUIT-Catg: multiple ETS pathways with N (without S) == | ||
=== | === FN === | ||
[[File:SUIT-Catg NF.jpg|200px]] | [[File:SUIT-Catg NF.jpg|200px]] | ||
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[[File:SUIT-Catg NGp.jpg|200px]] | [[File:SUIT-Catg NGp.jpg|200px]] | ||
=== | === FNGp === | ||
[[File:SUIT-Catg NFGp.jpg|200px]] | [[File:SUIT-Catg NFGp.jpg|200px]] | ||
== SUIT-Catg: multiple ETS | == SUIT-Catg: multiple ETS pathways without N == | ||
:::: F and S without N are problematic substrate states due to accumulation of Oxa or Acetyl-CoA. Therefore, 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-linked respiratory capacity to override FAO capacity; this needs corresponding kinetic analyses ([[SUIT test protocols]]). | :::: F and S without N are problematic substrate states due to accumulation of Oxa or Acetyl-CoA. Therefore, 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-linked respiratory capacity to override FAO capacity; this needs corresponding kinetic analyses ([[SUIT test protocols]]). | ||
Revision as of 19:15, 20 August 2016
- high-resolution terminology - matching measurements at high-resolution
Categories of SUIT protocols
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. » MiPNet article
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 2016-08-20. |
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, a relevant type of categories of SUIT protocols considers 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.
• 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 on the pathway level of converging FADH2- 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.
- S and Gp on the pathway level of electron transfer complexes converging at the Q-junction.
- 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
- 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).
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
- F and S without N are problematic substrate states due to accumulation of Oxa or Acetyl-CoA. Therefore, 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-linked respiratory capacity to override FAO capacity; this needs corresponding kinetic analyses (SUIT test protocols).
FS
FGp
SGp
FSGp
