- Author:
- Mike Cooling <m.cooling@auckland.ac.nz>
- Date:
- 2010-12-06 13:29:46+13:00
- Desc:
- Added subrepositories' .hgsub
- Permanent Source URI:
- http://models.cellml.org/workspace/electrecoblu/rawfile/4b94a84601bc79c7c0b761b9ee77a59b37ad3d31/ElectrEcoBluModel_NoFeedback.cellml
<?xml version="1.0" encoding="utf-8"?>
<model name="ElectrEcoBluModel_SVBM_NoFeedback" cmeta:id="ElectrEcoBluModel_SVBM_NoFeedback"
xmlns="http://www.cellml.org/cellml/1.1#"
xmlns:cellml="http://www.cellml.org/cellml/1.1#"
xmlns:cmeta="http://www.cellml.org/metadata/1.0#"
xmlns:xlink="http://www.w3.org/1999/xlink"
xmlns:dc="http://purl.org/dc/elements/1.0/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqs="http://www.cellml.org/bqs/1.0#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description rdf:about="">
<dc:title>ElectrEcoBluModel: without a positive feedback loop</dc:title>
<dc:creator rdf:parseType="Resource">
<vCard:N rdf:parseType="Resource">
<vCard:Family>Cooling</vCard:Family>
<vCard:Given>Mike</vCard:Given>
</vCard:N>
<vCard:EMAIL rdf:parseType="Resource">
<rdf:value>m.cooling@auckland.ac.nz</rdf:value>
<rdf:type rdf:resource="http://imc.org/vCard/3.0#internet"/>
</vCard:EMAIL>
<vCard:ORG rdf:parseType="Resource">
<vCard:Orgname>The University of Auckland</vCard:Orgname>
<vCard:Orgunit>Auckland Bioengineering Institute</vCard:Orgunit>
</vCard:ORG>
</dc:creator>
</rdf:Description>
</rdf:RDF>
<import xlink:href="SVP_00000032/Chassis_EColi.cellml">
<component name="eColiCell" component_ref="Chassis_EColi" />
</import>
<import xlink:href="SVP_Templates200906/Time.cellml">
<component name="Time" component_ref="Time" />
</import>
<component name="SpeciesInitialConcentrations">
<variable name="RNA_Device1" units="nM" initial_value="0" public_interface="out" />
<variable name="TF" units="nM" initial_value="8621" public_interface="out" />
<variable name="TFS" units="nM" initial_value="0" public_interface="out" />
<variable name="RNA_Device2" units="nM" initial_value="0" public_interface="out" />
<variable name="IC" units="nM" initial_value="0" public_interface="out" />
<variable name="PhzS" units="nM" initial_value="0" public_interface="out" />
<variable name="PhzM" units="nM" initial_value="0" public_interface="out" />
<variable name="PYO" units="nM" initial_value="0" public_interface="out" />
</component>
<import xlink:href="SVP_00000033/ElectrEcoBluDevice1_Promoter.cellml">
<units name="nM_per_s" units_ref="nM_per_s" />
<component name="ElectrEcoBluDevice1_Promoter" component_ref="ElectrEcoBluDevice1_Promoter" />
</import>
<import xlink:href="SVP_Templates200906/Template_Species.cellml">
<units name="nM" units_ref="nM" />
<component name="RNA_Device1" component_ref="Template_Species" />
</import>
<component name="RNA_Device1_interface">
<variable name="JPlusProduction" units="nM_per_s" public_interface="in"/>
<variable name="JGain" units="nM_per_s" public_interface="out"/>
<variable name="JMinusDegradation" units="nM_per_s" public_interface="in"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>JGain</ci>
<apply>
<minus/>
<ci>JPlusProduction</ci>
<ci>JMinusDegradation</ci>
</apply>
</apply>
</math>
</component>
<import xlink:href="SVP_00000003/Bioenvironment_Degradation_ElectrEcoBluDevice1RNA.cellml">
<units name="per_s" units_ref="per_s" />
<component name="Bioenvironment_Degradation_Device1RNA" component_ref="Bioenvironment_Degradation_ElectrEcoBluDevice1RNA" />
</import>
<import xlink:href="SVP_00000035/ElectrEcoBluDevice1_RBS.cellml">
<component name="ElectrEcoBluDevice1_RBS" component_ref="ElectrEcoBluDevice1_RBS" />
</import>
<import xlink:href="SVP_00000039/ElectrEcoBluDevice1_ProteinCDS_TF.cellml">
<component name="ElectrEcoBluDevice1_ProteinCDS_TF" component_ref="ElectrEcoBluDevice1_ProteinCDS_TF" />
</import>
<import xlink:href="SVP_Templates200906/Template_Species.cellml">
<component name="TF" component_ref="Template_Species" />
</import>
<component name="TF_interface">
<variable name="JPlusProductionDevice1" units="nM_per_s" public_interface="in"/>
<variable name="JMinusDegradation" units="nM_per_s" public_interface="in"/>
<variable name="JMinusTFSFormation" units="nM_per_s" public_interface="in"/>
<variable name="JGain" units="nM_per_s" public_interface="out"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>JGain</ci>
<apply>
<minus/>
<apply>
<minus/>
<ci>JPlusProductionDevice1</ci>
<ci>JMinusDegradation</ci>
</apply>
<ci>JMinusTFSFormation</ci>
</apply>
</apply>
</math>
</component>
<import xlink:href="SVP_00000014/Bioenvironment_Degradation_TF.cellml">
<component name="Bioenvironment_Degradation_TF" component_ref="Bioenvironment_Degradation_TF" />
</import>
<component name="S">
<variable name="concentration" units="nM" initial_value="5000" public_interface="out"/>
</component>
<import xlink:href="SVP_00000022/Bioenvironment_RxR2P1Rev_TFSFormation.cellml">
<component name="RxR2P1_TFSformation" component_ref="Bioenvironment_RxR2P1Rev_TFSFormation" />
</import>
<import xlink:href="SVP_Templates200906/Template_Species.cellml">
<component name="TFS" component_ref="Template_Species" />
</import>
<component name="TFS_interface">
<variable name="JPlusProduction" units="nM_per_s" public_interface="in"/>
<variable name="JGain" units="nM_per_s" public_interface="out"/>
<variable name="JMinusDegradation" units="nM_per_s" public_interface="in"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>JGain</ci>
<apply>
<minus/>
<ci>JPlusProduction</ci>
<ci>JMinusDegradation</ci>
</apply>
</apply>
</math>
</component>
<import xlink:href="SVP_00000015/Bioenvironment_Degradation_TFS.cellml">
<component name="Bioenvironment_Degradation_TFS" component_ref="Bioenvironment_Degradation_TFS" />
</import>
<import xlink:href="SVP_00000034/ElectrEcoBluDevice2_Promoter.cellml">
<component name="ElectrEcoBluDevice2_Promoter" component_ref="ElectrEcoBluDevice2_Promoter" />
</import>
<import xlink:href="SVP_Templates200906/Template_Species.cellml">
<component name="RNA_Device2" component_ref="Template_Species" />
</import>
<component name="RNA_Device2_interface">
<variable name="JPlusProduction" units="nM_per_s" public_interface="in"/>
<variable name="JGain" units="nM_per_s" public_interface="out"/>
<variable name="JMinusDegradation" units="nM_per_s" public_interface="in"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>JGain</ci>
<apply>
<minus/>
<ci>JPlusProduction</ci>
<ci>JMinusDegradation</ci>
</apply>
</apply>
</math>
</component>
<import xlink:href="SVP_00000004/Bioenvironment_Degradation_ElectrEcoBluDevice2RNA.cellml">
<component name="Bioenvironment_Degradation_Device2RNA" component_ref="Bioenvironment_Degradation_ElectrEcoBluDevice2RNA" />
</import>
<import xlink:href="SVP_00000036/ElectrEcoBluDevice2_RBS_PhzM.cellml">
<component name="ElectrEcoBluDevice2_RBS_PhzM" component_ref="ElectrEcoBluDevice2_RBS_PhzM" />
</import>
<import xlink:href="SVP_00000040/ElectrEcoBluDevice2_ProteinCDS_PhzM.cellml">
<component name="ElectrEcoBluDevice2_ProteinCDS_PhzM" component_ref="ElectrEcoBluDevice2_ProteinCDS_PhzM" />
</import>
<import xlink:href="SVP_00000037/ElectrEcoBluDevice2_RBS_PhzS.cellml">
<component name="ElectrEcoBluDevice2_RBS_PhzS" component_ref="ElectrEcoBluDevice2_RBS_PhzS" />
</import>
<import xlink:href="SVP_00000041/ElectrEcoBluDevice2_ProteinCDS_PhzS.cellml">
<component name="ElectrEcoBluDevice2_ProteinCDS_PhzS" component_ref="ElectrEcoBluDevice2_ProteinCDS_PhzS" />
</import>
<import xlink:href="SVP_Templates200906/Template_Species.cellml">
<component name="PhzM" component_ref="Template_Species" />
</import>
<component name="PhzM_interface">
<variable name="JPlusProduction" units="nM_per_s" public_interface="in"/>
<variable name="JGain" units="nM_per_s" public_interface="out"/>
<variable name="JMinusDegradation" units="nM_per_s" public_interface="in"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>JGain</ci>
<apply>
<minus/>
<ci>JPlusProduction</ci>
<ci>JMinusDegradation</ci>
</apply>
</apply>
</math>
</component>
<import xlink:href="SVP_00000007/Bioenvironment_Degradation_PhzM.cellml">
<component name="Bioenvironment_Degradation_PhzM" component_ref="Bioenvironment_Degradation_PhzM" />
</import>
<component name="PCA">
<variable name="concentration" units="nM" initial_value="2" public_interface="out"/>
</component>
<import xlink:href="SVP_00000018/Bioenvironment_RxR1P1MM_ICFormation.cellml">
<component name="RxR1P1MM_ICformation" component_ref="Bioenvironment_RxR1P1MM_ICFormation" />
</import>
<import xlink:href="SVP_Templates200906/Template_Species.cellml">
<component name="IC" component_ref="Template_Species" />
</import>
<component name="IC_interface">
<variable name="JPlusProduction" units="nM_per_s" public_interface="in"/>
<variable name="JGain" units="nM_per_s" public_interface="out"/>
<variable name="JMinusDegradation" units="nM_per_s" public_interface="in"/>
<variable name="JMinusPYOFormation" units="nM_per_s" public_interface="in"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>JGain</ci>
<apply>
<minus/>
<apply>
<minus/>
<ci>JPlusProduction</ci>
<ci>JMinusDegradation</ci>
</apply>
<ci>JMinusPYOFormation</ci>
</apply>
</apply>
</math>
</component>
<import xlink:href="SVP_00000006/Bioenvironment_Degradation_IC.cellml">
<component name="Bioenvironment_Degradation_IC" component_ref="Bioenvironment_Degradation_IC" />
</import>
<import xlink:href="SVP_Templates200906/Template_Species.cellml">
<component name="PhzS" component_ref="Template_Species" />
</import>
<component name="PhzS_interface">
<variable name="JPlusProduction" units="nM_per_s" public_interface="in"/>
<variable name="JGain" units="nM_per_s" public_interface="out"/>
<variable name="JMinusDegradation" units="nM_per_s" public_interface="in"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>JGain</ci>
<apply>
<minus/>
<ci>JPlusProduction</ci>
<ci>JMinusDegradation</ci>
</apply>
</apply>
</math>
</component>
<import xlink:href="SVP_00000008/Bioenvironment_Degradation_PhzS.cellml">
<component name="Bioenvironment_Degradation_PhzS" component_ref="Bioenvironment_Degradation_PhzS" />
</import>
<import xlink:href="SVP_00000019/Bioenvironment_RxR1P1MM_PYOFormation.cellml">
<component name="RxR1P1MM_PYOformation" component_ref="Bioenvironment_RxR1P1MM_PYOFormation" />
</import>
<import xlink:href="SVP_Templates200906/Template_Species.cellml">
<component name="PYO" component_ref="Template_Species" />
</import>
<component name="PYO_interface">
<variable name="JPlusProduction" units="nM_per_s" public_interface="in"/>
<variable name="JGain" units="nM_per_s" public_interface="out"/>
<variable name="JMinusDegradation" units="nM_per_s" public_interface="in"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>JGain</ci>
<apply>
<minus/>
<ci>JPlusProduction</ci>
<ci>JMinusDegradation</ci>
</apply>
</apply>
</math>
</component>
<import xlink:href="SVP_00000009/Bioenvironment_Degradation_PYO.cellml">
<component name="Bioenvironment_Degradation_PYO" component_ref="Bioenvironment_Degradation_PYO" />
</import>
<connection>
<map_components component_1="ElectrEcoBluDevice1_Promoter" component_2="eColiCell"/>
<map_variables variable_1="localVolume" variable_2="cellVolume"/>
</connection>
<connection>
<map_components component_1="RNA_Device1" component_2="Time"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="RNA_Device1" component_2="SpeciesInitialConcentrations"/>
<map_variables variable_1="concentrationInitialValue" variable_2="RNA_Device1"/>
</connection>
<connection>
<map_components component_1="RNA_Device1_interface" component_2="Bioenvironment_Degradation_Device1RNA"/>
<map_variables variable_1="JMinusDegradation" variable_2="J"/>
</connection>
<connection>
<map_components component_1="RNA_Device1" component_2="RNA_Device1_interface"/>
<map_variables variable_1="JGain" variable_2="JGain"/>
</connection>
<connection>
<map_components component_1="RNA_Device1_interface" component_2="ElectrEcoBluDevice1_Promoter"/>
<map_variables variable_1="JPlusProduction" variable_2="JRNA"/>
</connection>
<connection>
<map_components component_1="Bioenvironment_Degradation_Device1RNA" component_2="RNA_Device1"/>
<map_variables variable_1="concentration" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice1_RBS" component_2="eColiCell"/>
<map_variables variable_1="localVolume" variable_2="cellVolume"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice1_RBS" component_2="RNA_Device1"/>
<map_variables variable_1="RNA" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice1_ProteinCDS_TF" component_2="eColiCell"/>
<map_variables variable_1="localVolume" variable_2="cellVolume"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice1_ProteinCDS_TF" component_2="ElectrEcoBluDevice1_RBS"/>
<map_variables variable_1="hostRNARiPs" variable_2="RNARiPs"/>
</connection>
<connection>
<map_components component_1="TF" component_2="Time"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="TF" component_2="TF_interface"/>
<map_variables variable_1="JGain" variable_2="JGain"/>
</connection>
<connection>
<map_components component_1="TF" component_2="SpeciesInitialConcentrations"/>
<map_variables variable_1="concentrationInitialValue" variable_2="TF"/>
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<connection>
<map_components component_1="TF_interface" component_2="ElectrEcoBluDevice1_ProteinCDS_TF"/>
<map_variables variable_1="JPlusProductionDevice1" variable_2="J"/>
</connection>
<connection>
<map_components component_1="TF_interface" component_2="Bioenvironment_Degradation_TF"/>
<map_variables variable_1="JMinusDegradation" variable_2="J"/>
</connection>
<connection>
<map_components component_1="TF_interface" component_2="RxR2P1_TFSformation"/>
<map_variables variable_1="JMinusTFSFormation" variable_2="J"/>
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<connection>
<map_components component_1="Bioenvironment_Degradation_TF" component_2="TF"/>
<map_variables variable_1="concentration" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="RxR2P1_TFSformation" component_2="TF"/>
<map_variables variable_1="reactant1" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="RxR2P1_TFSformation" component_2="S"/>
<map_variables variable_1="reactant2" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="RxR2P1_TFSformation" component_2="TFS"/>
<map_variables variable_1="product" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="TFS" component_2="Time"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="TFS" component_2="TFS_interface"/>
<map_variables variable_1="JGain" variable_2="JGain"/>
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<connection>
<map_components component_1="TFS_interface" component_2="RxR2P1_TFSformation"/>
<map_variables variable_1="JPlusProduction" variable_2="J"/>
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<connection>
<map_components component_1="TFS" component_2="SpeciesInitialConcentrations"/>
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<connection>
<map_components component_1="TFS_interface" component_2="Bioenvironment_Degradation_TFS"/>
<map_variables variable_1="JMinusDegradation" variable_2="J"/>
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<connection>
<map_components component_1="Bioenvironment_Degradation_TFS" component_2="TFS"/>
<map_variables variable_1="concentration" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_Promoter" component_2="eColiCell"/>
<map_variables variable_1="localVolume" variable_2="cellVolume"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_Promoter" component_2="TFS"/>
<map_variables variable_1="tFactor" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="RNA_Device2_interface" component_2="ElectrEcoBluDevice2_Promoter"/>
<map_variables variable_1="JPlusProduction" variable_2="JRNA"/>
</connection>
<connection>
<map_components component_1="RNA_Device2_interface" component_2="Bioenvironment_Degradation_Device2RNA"/>
<map_variables variable_1="JMinusDegradation" variable_2="J"/>
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<connection>
<map_components component_1="RNA_Device2" component_2="RNA_Device2_interface"/>
<map_variables variable_1="JGain" variable_2="JGain"/>
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<connection>
<map_components component_1="RNA_Device2" component_2="Time"/>
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<connection>
<map_components component_1="RNA_Device2" component_2="SpeciesInitialConcentrations"/>
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</connection>
<connection>
<map_components component_1="Bioenvironment_Degradation_Device2RNA" component_2="RNA_Device2"/>
<map_variables variable_1="concentration" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_RBS_PhzM" component_2="eColiCell"/>
<map_variables variable_1="localVolume" variable_2="cellVolume"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_RBS_PhzM" component_2="RNA_Device2"/>
<map_variables variable_1="RNA" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_ProteinCDS_PhzM" component_2="eColiCell"/>
<map_variables variable_1="localVolume" variable_2="cellVolume"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_ProteinCDS_PhzM" component_2="ElectrEcoBluDevice2_RBS_PhzM"/>
<map_variables variable_1="hostRNARiPs" variable_2="RNARiPs"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_RBS_PhzS" component_2="eColiCell"/>
<map_variables variable_1="localVolume" variable_2="cellVolume"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_RBS_PhzS" component_2="RNA_Device2"/>
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</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_ProteinCDS_PhzS" component_2="eColiCell"/>
<map_variables variable_1="localVolume" variable_2="cellVolume"/>
</connection>
<connection>
<map_components component_1="ElectrEcoBluDevice2_ProteinCDS_PhzS" component_2="ElectrEcoBluDevice2_RBS_PhzS"/>
<map_variables variable_1="hostRNARiPs" variable_2="RNARiPs"/>
</connection>
<connection>
<map_components component_1="PhzM" component_2="Time"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="PhzM" component_2="PhzM_interface"/>
<map_variables variable_1="JGain" variable_2="JGain"/>
</connection>
<connection>
<map_components component_1="PhzM" component_2="SpeciesInitialConcentrations"/>
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</connection>
<connection>
<map_components component_1="PhzM_interface" component_2="ElectrEcoBluDevice2_ProteinCDS_PhzM"/>
<map_variables variable_1="JPlusProduction" variable_2="J"/>
</connection>
<connection>
<map_components component_1="PhzM_interface" component_2="Bioenvironment_Degradation_PhzM"/>
<map_variables variable_1="JMinusDegradation" variable_2="J"/>
</connection>
<connection>
<map_components component_1="Bioenvironment_Degradation_PhzM" component_2="PhzM"/>
<map_variables variable_1="concentration" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="RxR1P1MM_ICformation" component_2="PCA"/>
<map_variables variable_1="reactant" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="RxR1P1MM_ICformation" component_2="PhzM"/>
<map_variables variable_1="catalyst" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="IC" component_2="SpeciesInitialConcentrations"/>
<map_variables variable_1="concentrationInitialValue" variable_2="IC"/>
</connection>
<connection>
<map_components component_1="IC" component_2="Time"/>
<map_variables variable_1="time" variable_2="time"/>
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<connection>
<map_components component_1="IC" component_2="IC_interface"/>
<map_variables variable_1="JGain" variable_2="JGain"/>
</connection>
<connection>
<map_components component_1="IC_interface" component_2="Bioenvironment_Degradation_IC"/>
<map_variables variable_1="JMinusDegradation" variable_2="J"/>
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<connection>
<map_components component_1="IC_interface" component_2="RxR1P1MM_ICformation"/>
<map_variables variable_1="JPlusProduction" variable_2="J"/>
</connection>
<connection>
<map_components component_1="IC_interface" component_2="RxR1P1MM_PYOformation"/>
<map_variables variable_1="JMinusPYOFormation" variable_2="J"/>
</connection>
<connection>
<map_components component_1="Bioenvironment_Degradation_IC" component_2="IC"/>
<map_variables variable_1="concentration" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="PhzS" component_2="Time"/>
<map_variables variable_1="time" variable_2="time"/>
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<connection>
<map_components component_1="PhzS" component_2="PhzS_interface"/>
<map_variables variable_1="JGain" variable_2="JGain"/>
</connection>
<connection>
<map_components component_1="PhzS" component_2="SpeciesInitialConcentrations"/>
<map_variables variable_1="concentrationInitialValue" variable_2="PhzS"/>
</connection>
<connection>
<map_components component_1="PhzS_interface" component_2="Bioenvironment_Degradation_PhzS"/>
<map_variables variable_1="JMinusDegradation" variable_2="J"/>
</connection>
<connection>
<map_components component_1="PhzS_interface" component_2="ElectrEcoBluDevice2_ProteinCDS_PhzS"/>
<map_variables variable_1="JPlusProduction" variable_2="J"/>
</connection>
<connection>
<map_components component_1="Bioenvironment_Degradation_PhzS" component_2="PhzS"/>
<map_variables variable_1="concentration" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="RxR1P1MM_PYOformation" component_2="IC"/>
<map_variables variable_1="reactant" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="RxR1P1MM_PYOformation" component_2="PhzS"/>
<map_variables variable_1="catalyst" variable_2="concentration"/>
</connection>
<connection>
<map_components component_1="PYO" component_2="Time"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="PYO" component_2="PYO_interface"/>
<map_variables variable_1="JGain" variable_2="JGain"/>
</connection>
<connection>
<map_components component_1="PYO" component_2="SpeciesInitialConcentrations"/>
<map_variables variable_1="concentrationInitialValue" variable_2="PYO"/>
</connection>
<connection>
<map_components component_1="PYO_interface" component_2="Bioenvironment_Degradation_PYO"/>
<map_variables variable_1="JMinusDegradation" variable_2="J"/>
</connection>
<connection>
<map_components component_1="PYO_interface" component_2="RxR1P1MM_PYOformation"/>
<map_variables variable_1="JPlusProduction" variable_2="J"/>
</connection>
<connection>
<map_components component_1="Bioenvironment_Degradation_PYO" component_2="PYO"/>
<map_variables variable_1="concentration" variable_2="concentration"/>
</connection>
</model>
