Template:Keywords-MitoPedia BEC 2020.1

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Keywords—MitoPedia, including Table 8. Terms, symbols, and units. SI base units are used, except for the liter [L = dm³]. SI refers to ref. [11].

Term	Link to MitoPedia term	Symbol	Unit	Links and comments
adenosine diphosphate	ADP	ADP	-	Tab. 1; Fig. 1, 2, 5
adenosine monophosphate	AMP	AMP	-	2 ADP ↔ ATP+AMP
adenosine triphosphate	ATP	ATP	-	Fig. 2, 5
adenylates	Adenine nucleotides	AMP, ADP, ATP	-	Section 2.5.1
alternative quinol oxidase	Alternative oxidase	AOX	-	Fig. 1B
amount of substance B	Amount	nB or n(B)	[mol]	SI; amount nB of B versus count NB of B
ATP yield per O2	ATP yield	YP»/O2	1	P»/O2 ratio measured in any respiratory state
catabolic rate of respiration	Cell respiration	JkO2; IkO2	varies	Fig. 1, 3; flux J versus flow I
catabolic reaction	Cell respiration	k	-	Fig. 1, 3
cell count	Count	Nce	[x]	Tab. 4; Fig. 5; see number of cells; countable object s=ce
cell-count concentration	Concentration	Cce	[x∙L­-1]	Tab. 4; Cce = Nce∙V-1; count concentration C versus amount concentration c; subscript ce indicates the entity type: concentration of ce. But it does not signal 'per entity', which would be written as 'per cell' Xce.
cell mass	Body mass	mce	[kg]	Tab. 5; Fig. 5; mass of cells m versus mass per cell (per single entity cell) MXce
cell mass, mass per cell	Body mass	MXce	[kg∙x­-1]	Tab. 5; Fig. 5; mass per single cell MXce; upper case M and subscript X signal 'per count', subscript ce signals the entity s=ce; in a context restricted to cells or molecules or a particular organism such as humans, the abbreviated symbol M [kg∙x­-1] provides a sufficiently informative signal, particularly in combination with the explicit unit.
cell-mass concentration in chamber	Concentration	Cmce	[kg∙L­-1]	see Cms: Tab. 4; Cmce = mce∙V-1; upper case C alone would signal 'count concentration' (CN is more explicit), whereas the signal for 'mass concentration' is in the combination Cm.
cell viability index	Cell viability	VI	-	VI = Nvce∙Nce­-1 = 1 - Ndce∙Nce­-1
charge number per entity XB	Charge number	zB	1	zB = QB·e-1 (IUPAC); Tab. 6; zO2 = = QO2·e-1 = 4; IUPAC uses the term 'charge number of an ion' which should be changed to 'charge number per ion', or more clearly to 'charge number per ion number'. The symbol z carries the message 'number of elementary charges per number', and the subscript carries the message on the type of entity X.
Complexes I to IV	Complex I	CI to CIV	-	respiratory ET Complexes are redox proton pumps; Fig. 1B; F1FO-ATPase is not a redox proton pump of the ETS, hence the term CV is not recommended
concentration of B, amount	Concentration	cB = NB∙V­-1	[mol∙L­-1]	SI: amount of substance concentration Cohen 2008 IUPAC Green Book; the molar and count formats are distinguished as nB and NB, respectively.
concentration of O2, amount	Concentration	cO2 = nO2∙V­-1	[mol∙L­-1]	Box 2; [O2]
concentration of s, count	Concentration	Cs = Ns∙V­-1	[x∙L-1] Tab. 4 (number concentration Cohen 2008 IUPAC Green Book); the signal for count concentration is given by the upper case C in contrast to c for amount concentration. In both cases, the subscript X indicates the entity type, not to be confused with a number of entities.
count format	Format	N	[x]	Tab. 4, 5; Fig. 5
count of Xs	Count	Ns	[x]	SI; see number of entities Xs
coupling control	Coupling-control ratio	CCR	-	Section 2.4.1
coupling control state	Coupling control state	CCS	-	Section 2.4.1
dead cells	Cell viability	dce	-	Tab. 5
electrical format	Format	e	[C]	Tab. 6
electron transfer pathway	Electron transfer pathway	ET pathway	-	Overview; Fig. 1
electron transfer, state	Electron transfer pathway	ET	-	Tab. 1; Fig. 2B, 4 (State 3u)
electron transfer system	Electron transfer pathway	ETS	-	Fig. 2B, 4 (electron transport chain)
elementary entity	Entity	Xs	[x]	single countable object of sample type s; Tab. 4
ET capacity	ET capacity	E	varies	rate; Tab. 1; Fig. 2
ET-excess capacity	ET capacity	E-P	varies	Fig. 2
flow, for O2	Flow	IO2	[mol∙s-­1]	system-related extensive quantity; Fig. 5
flux, for O2	Flux	JO2	varies	size-specific quantity; Fig. 5
flux control ratio	Flux control ratio	FCR	1	background/reference flux; Fig. 5
hyphenation	Hyphenation	-	-	Updates in comparison to Gnaiger 2019 MitoFit Preprints
inorganic phosphate	Phosphate	Pi	-	Fig. 1C
inorganic phosphate carrier	Phosphate carrier	PiC	-	Fig. 1C
International Union of Pure and Applied Chemistry, IUPAC	IUPAC	IUPAC	-	Cohen 2008 IUPAC Green Book
International System of Units	International System of Units	SI	-	Cohen 2008 IUPAC Green Book
isolated mitochondria	Isolated mitochondria	imt	-	[11]
LEAK state	LEAK respiration	LEAK	-	Tab. 1; Fig. 2 (compare State 4)
LEAK respiration	LEAK respiration	L	varies	rate; Tab. 1; Fig. 2
living cells	Living cells	ce	-	Tab. 5 (intact cells)
mass, dry mass	Body mass	md	[kg]	Fig. 5 (dry weight)
mass, wet mass	Body mass	mw	[kg]	Fig. 5 (wet weight)
mass concentration of sample s in chamber	Concentration	Cms	[kg∙L-1]	Tab. 4
mass format	Format	m	[kg]	Tab. 4
mass of sample s in a mixture	Mass	ms	[kg]	SI: mass of pure sample mS
mass per single object	Body mass	MNX	[kg∙x­1]	Fig. 5; Tab. 4; SI: m(X); compare molar mass M(X)
MITOCARTA	MITOCARTA
mitochondria or mitochondrial	Mitochondria	mt	-	Box 1
mitochondrial concentration	Mitochondrial marker, Concentration	CmtE = mtE∙V-1	[mtEU∙L-1]	Tab. 4
mitochondrial content per X	Mitochondrial marker	mtENX	[mtEU∙x­-1]	mtENX = mtE∙NX-1; Tab. 4
mitochondrial density per ms	Mitochondrial marker, Density	DmtE/ms	[mtEU∙kg­-1]	DmtE/ms=mtE∙ms-1; Tab. 4
mitochondrial density per Vs	Mitochondrial marker, Density	DmtE/Vs	[mtEU∙kg­-1]	DmtE/Vs=mtE∙Vs-1; Tab. 4
mitochondrial DNA	Mitochondria	mtDNA	-	Box 1
mitochondrial elementary marker	Mitochondria	mtE	[mtEU]	quantity of mt-marker; Tab. 4
mitochondrial elementary unit	Mitochondria	mtEU	varies	specific units for mt-marker; Tab. 4
mitochondrial inner membrane	Mitochondrial inner membrane	mtIM	-	Fig. 1; Box 1 (MIM)
mitochondrial outer membrane	Mitochondrial outer membrane	mtOM	-	Fig. 1; Box 1 (MIM)
mitochondrial preparations	Mitochondrial preparations	mt-prep	-	Tab. 5
mitochondrial recovery	Mitochondrial recovery	YmtE	1	fraction of mtE recovered from the tissue sample in imt-stock
mitochondrial yield	Mitochondrial yield	YmtE/ms	[mtEU∙kg-1]	mt-yield in imt-stock per mass of tissue sample; YmtE/ms=YmtE∙DmtE
MitoPedia	MitoPedia, MitoPedia: Respiratory states
molar format	Format	n	[mol]	Tab. 6
molar mass	Molar mass	MB	[kg∙mol-1]	compare MNB [kg∙x-1]; SI M(X)
negative	Protonmotive force	neg	-	Fig. 4
normalization of rate	Normalization of rate	-	-	Tab. 4; Fig. 5
number of cells	Count	Nce	[x]	total cell count of living cells, Nce = Nvce + Ndce; Tab. 4, 5
number of dead cells	Cell viability	Ndce	[x]	non-viable cell count, loss of plasma membrane barrier function; Tab. 5
number of entities B	Count	NB	[x]	Tab. 4 Cohen 2008 IUPAC Green Book
number of entities X; count	Count	NX	[x]	‘count’ is an SI quantity [11], but the counting unit [x] is not in the SI [95]; Tab. 4; Fig. 5
number of viable cells	Cell viability	Nvce	[x]	viable cell count, intact plasma membrane barrier function; Tab. 5
organisms	Organism	org	-	Tab. 5
oxidative phosphorylation	Oxidative phosphorylation	OXPHOS	-	Tab. 1
OXPHOS-capacity	OXPHOS-capacity	P	varies	rate; Tab. 1; Fig. 2
OXPHOS state	OXPHOS-capacity	OXPHOS	-	Tab. 1; Fig. 2; OXPHOS-state distinguished from the process OXPHOS (State 3 at kinetically-saturating [ADP] and [Pi])
oxygen concentration	Oxygen concentration	cO2 = nO2∙V­-1	[mol∙L­-1]	[O2]; Section 3.2
oxygen solubility	Oxygen solubility	SO2	[µmol·kPa-1]	Section 2.6.3
oxygen flux, in reaction r	Oxygen flux	JrO2	varies	Overview
pathway control state	Pathway control state	PCS	-	Section 2.2
permeability transition	Permeability transition	mtPT	-	Fig. 3; Section 2.4.3 (MPT)
permeabilized cells	Permeabilized cells	pce	-	experimental permeabilization of plasma membrane; Tab. 5
permeabilized muscle fibers	Permeabilized muscle fibers	pfi	-	Tab. 5
permeabilized tissue	Permeabilized tissue	pti	-	Tab. 5
phosphorylation of ADP to ATP	Oxidative phosphorylation	P»	-	Tab. 1, 2; Fig. 1, 4
phosphorylation efficiency	Ergodynamic efficiency	ε	1	Section 2.4.1
P»/O2 ratio	Oxidative phosphorylation	P»/O2	1	mechanistic YP»/O2, calculated from pump stoichiometries; Fig. 1c
positive	positive	Protonmotive force	-	Fig. 4
proton in the neg compartment	Protonmotive force	H+neg	[x]	Fig. 4
proton in the pos compartment	proton in the positive compartment	H+pos	[x]	Fig. 4
protonmotive force	protonmotive force	pmF	[V]	Overview; Tab. 1; Fig 1a, 2, 4
publication efficiency	publication efficiency			Harmonization of nomenclature; Executive summary
quantities, symbols, and units	Quantities, symbols, and units	-	-	An explanation of symbols and unit [x]
rate in ET state	Electron transfer pathway	E	varies	ET capacity; Tab. 1; Fig. 2, 4
rate in LEAK state	LEAK respiration	L	varies	Tab. 1: L(n), L(T), L(Omy); Fig. 2, 4
rate in OXPHOS-state	OXPHOS-capacity	P	varies	OXPHOS-capacity; Tab.1; Fig. 2, 4
rate in ROX state	Residual oxygen consumption	Rox	varies	Overview; Tab. 1
residual oxygen consumption	Residual oxygen consumption	ROX; Rox	-	state ROX; rate Rox; Tab. 1
respiration	Respirometry	JrO2	varies	rate of reaction r; Overview
respiratory state	MitoPedia: Respiratory states	-	-	Tab. 1, 3; Fig. 2, 4
respiratory supercomplex	Supercomplex	SCInIIInIVn	-	supramolecular assemblies with variable copy numbers (n) of CI, CIII and CIV; Box 1
sample in a mixture	Sample	s	-	diluted sample; Tab. 4, 5
steay state	Steady state	-	-	Section 2.5.6
substrate concentration at half-maximal rate	Concentration	c50	[mol∙L­-1]	Section 2.1.2
substrate-uncoupler-inhibitor-titration	Substrate-uncoupler-inhibitor titration	SUIT	-	Section 2.2
system	System	-	-	Fig. 5
tissue homogenate	Tissue homogenate	thom	-	Tab. 5
unit elementary entity	Entity	UX	[x]	single countable object; Tab. 4, 5
uncoupling	Uncoupler titrations	-	-	Tab 2; Fig. 3
viable cells	Viable cells	vce	-	Tab. 5
volume format	Format	V	[L]	Tab. 6
volume of experimental chamber	Volume	V	[L]	liquid volume V including the sample s; Tab. 4, 7; Fig. 5
volume of sample s in a mixture	Volume	Vs	[L]	Tab. 5; Fig. 5