- Author:
- neilstephen2001 <npar276@aucklanduni.ac.nz>
- Date:
- 2021-01-24 21:37:35+13:00
- Desc:
- adding OMEX archives to workspace
- Permanent Source URI:
- http://models.cellml.org/workspace/7f1/rawfile/110f9ba31e34b7499c8d02e13a6b9984351c0e8f/colegrove_albrecht_friel_2000/model/colegrove_albrecht_friel_2000-BN368170.cellml
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<documentation xmlns="http://cellml.org/tmp-documentation">
<article>
<articleinfo>
<title>Quantitative Analysis Of Mitochondrial Ca2+ Uptake And Release Pathways In Sympathetic Neurons</title>
<author>
<firstname>Catherine</firstname>
<surname>Lloyd</surname>
<affiliation>
<shortaffil>Bioengineering Institute, University of Auckland</shortaffil>
</affiliation>
</author>
</articleinfo>
<section id="sec_status">
<title>Model Status</title>
<para>This model can not be solved as it is unsuitably constrained.</para>
<para>ValidateCellML verifies this model as valid CellML with consistent units.</para>
</section>
<sect1 id="sec_structure">
<title>Model Structure</title>
<para>
One of the central goals in the study of calcium signalling is to understand the basis of [Ca
<superscript>2+</superscript>
] dynamics. This is complicated by the fact that Ca
<superscript>2+</superscript>
is present in several membrane-bound intracellular compartments, each of which uses a distinct Ca
<superscript>2+</superscript>
transport system and the rate of Ca
<superscript>2+</superscript>
transport between these compartments can exhibit a complex non-linear dependence on free [Ca
<superscript>2+</superscript>
].
</para>
<para>
In their 2000 model, Stephen L. Colegrove, Meredith A. Albrecht and David D. Friel have studied how mitochondrial Ca
<superscript>2+</superscript>
transport contributes to the redistribution of intracellular Ca
<superscript>2+</superscript>
during and after depolarisation-evoked Ca
<superscript>2+</superscript>
entry in sympathetic neurons. The total Ca
<superscript>2+</superscript>
flux during the recovery phase following membrane depolarisation was divided into three components (see
<xref linkend="fig_cell_diagram" />
below): one representing net Ca
<superscript>2+</superscript>
extrusion across the plasma membrane (J
<subscript>extru</subscript>
), one representing mitochondrial Ca
<superscript>2+</superscript>
uptake via the uniporter (J
<subscript>uni</subscript>
) and one representing mitochondrial Ca
<superscript>2+</superscript>
release via the Na
<superscript>+</superscript>
/Ca
<superscript>2+</superscript>
exchanger (J
<subscript>NaCa</subscript>
). This mathematical model has been translated into a CellML description which can be downloaded in various formats as described in
<xref linkend="sec_download_this_model" />
.
</para>
<para>The complete original paper reference is cited below:</para>
<para>
Quantitative Analysis of Mitochondrial Ca
<superscript>2+</superscript>
Uptake and Release Pathways in Sympathetic Neurons
<emphasis>
Reconstruction of the Recovery after Depolarisation-evoked [Ca
<superscript>2+</superscript>
] Elevations
</emphasis>
, Stephen L. Colegrove, Meredith A. Albrecht and David D. Friel, 2000,
<emphasis>The Journal Of General Physiology</emphasis>
, 115, 371-388.
<ulink url="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=10694264&dopt=Abstract">PubMed ID: 10694264</ulink>
</para>
<informalfigure float="0" id="fig_cell_diagram">
<mediaobject>
<imageobject>
<objectinfo>
<title>cell schematic for the model</title>
</objectinfo>
<imagedata fileref="colegrove_2000.png" />
</imageobject>
</mediaobject>
<caption>
Schematic of the model indicating Ca
<superscript>2+</superscript>
compartmentalization in the extracellular matrix, cytosol and the mitochondrial matrix and pathways for Ca
<superscript>2+</superscript>
ion movement between the compartments.
</caption>
</informalfigure>
</sect1>
</article>
</documentation>
<units name="micromolar_per_second">
<unit exponent="-1.0" units="second" />
<unit units="micromolar" />
</units>
<units name="nanomolar">
<unit prefix="nano" units="mole" />
<unit exponent="-1.0" units="litre" />
</units>
<units name="micro_litre">
<unit prefix="micro" units="litre" />
</units>
<units name="per_second">
<unit exponent="-1.0" units="second" />
</units>
<units name="micromolar">
<unit prefix="micro" units="mole" />
<unit exponent="-1.0" units="litre" />
</units>
<units name="nanomolar_per_second">
<unit units="nanomolar" />
<unit exponent="-1.0" units="second" />
</units>
<units name="millivolt">
<unit prefix="milli" units="volt" />
</units>
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</component>
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<variable cmeta:id="Ca_extrusion_across_the_plasma_membrane.J_leak" name="J_leak" units="nanomolar_per_second" />
<variable cmeta:id="Ca_extrusion_across_the_plasma_membrane.J_extru" name="J_extru" units="nanomolar_per_second" />
<variable cmeta:id="Ca_extrusion_across_the_plasma_membrane.k_leak" initial_value="0.00000037" name="k_leak" units="per_second" />
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<variable cmeta:id="Ca_extrusion_across_the_plasma_membrane.n_extru" initial_value="1.8" name="n_extru" units="dimensionless" />
<variable cmeta:id="Ca_extrusion_across_the_plasma_membrane.Ca_o" initial_value="0.002" name="Ca_o" units="nanomolar" />
<variable cmeta:id="Ca_extrusion_across_the_plasma_membrane.Ca_i" name="Ca_i" public_interface="in" units="nanomolar" />
<variable cmeta:id="Ca_extrusion_across_the_plasma_membrane.time" name="time" public_interface="in" units="second" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
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<times />
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</apply>
</apply>
</apply>
</math>
</component>
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<variable cmeta:id="mitochondrial_Ca_uptake.J_uni" name="J_uni" public_interface="out" units="nanomolar_per_second" />
<variable cmeta:id="mitochondrial_Ca_uptake.kuni_max" initial_value="75.9" name="kuni_max" units="per_second" />
<variable cmeta:id="mitochondrial_Ca_uptake.EC50_uni" initial_value="10.0" name="EC50_uni" units="micromolar" />
<variable cmeta:id="mitochondrial_Ca_uptake.n_uni" initial_value="2.0" name="n_uni" units="dimensionless" />
<variable cmeta:id="mitochondrial_Ca_uptake.Ca_i" name="Ca_i" public_interface="in" units="nanomolar" />
<variable cmeta:id="mitochondrial_Ca_uptake.time" name="time" public_interface="in" units="second" />
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</math>
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<component name="mitochondrial_Ca_release" cmeta:id="submodel_3">
<variable cmeta:id="mitochondrial_Ca_release.J_NaCa" name="J_NaCa" public_interface="out" units="nanomolar_per_second" />
<variable cmeta:id="mitochondrial_Ca_release.Ca_inhibited_J_NaCa" name="Ca_inhibited_J_NaCa" public_interface="out" units="nanomolar_per_second" />
<variable cmeta:id="mitochondrial_Ca_release.J_mito" name="J_mito" public_interface="out" units="nanomolar_per_second" />
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<variable cmeta:id="mitochondrial_Ca_release.EC50_NaCa" initial_value="307.0" name="EC50_NaCa" units="nanomolar" />
<variable cmeta:id="mitochondrial_Ca_release.n_inhib" initial_value="6.0" name="n_inhib" units="dimensionless" />
<variable cmeta:id="mitochondrial_Ca_release.k_inhib" initial_value="500.0" name="k_inhib" units="nanomolar" />
<variable cmeta:id="mitochondrial_Ca_release.delta_Ca_i" name="delta_Ca_i" units="dimensionless" />
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<variable cmeta:id="mitochondrial_Ca_release.Ca_m" name="Ca_m" public_interface="in" units="nanomolar" />
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<apply>
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</apply>
</math>
</component>
<component name="intracellular_calcium" cmeta:id="submodel_4">
<variable cmeta:id="intracellular_calcium.Ca_i" name="Ca_i" public_interface="out" units="nanomolar" />
<variable cmeta:id="intracellular_calcium.J_pm" name="J_pm" public_interface="in" units="nanomolar_per_second" />
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</apply>
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</math>
</component>
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<rdf:Description rdf:about="colegrove_albrecht_friel_2000.cellml#mitochondrial_Ca_release.Ca_m">
<bqbiol:isPropertyOf rdf:resource="colegrove_albrecht_friel_2000.cellml#entity_0" />
<dcterms:description>concentration of calcium in mitochondrial matrix</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="colegrove_albrecht_friel_2000.cellml#entity_9">
<bqbiol:is rdf:resource="http://identifiers.org/fma/FMA:80137" />
</rdf:Description>
<rdf:Description rdf:about="colegrove_albrecht_friel_2000.cellml#Ca_extrusion_across_the_plasma_membrane.n_extru">
<dcterms:description>coefficient of steepness of extrusion rate by intracellular calcium</dcterms:description>
</rdf:Description>
</rdf:RDF>
</model>
