Respiratory control model with brainstem CPG and sensory feedback (Diekman, Thomas, and Wilson 2017)

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Accession:229640
This is a closed-loop respiratory control model incorporating a central pattern generator (CPG), the Butera-Rinzel-Smith (BRS) model, together with lung mechanics, oxygen handling, and chemosensory components. The closed-loop system exhibits bistability of bursting and tonic spiking. Bursting corresponds to coexistence of eupnea-like breathing, with normal minute ventilation and blood oxygen level. Tonic spiking corresponds to a tachypnea-like state, with pathologically reduced minute ventilation and critically low blood oxygen. In our paper, we use the closed-loop system to demonstrate robustness to changes in metabolic demand, spontaneous autoresuscitation in response to hypoxia, and the distinct mechanisms that underlie rhythmogenesis in the intact control circuit vs. the isolated, open-loop CPG.
Reference:
1 . Diekman CO, Thomas PJ, Wilson CG (2017) Eupnea, tachypnea, and autoresuscitation in a closed-loop respiratory control model. J Neurophysiol 118:2194-2215 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell;
Brain Region(s)/Organism: Brainstem;
Cell Type(s): Respiratory column neuron; PreBotzinger complex neuron;
Channel(s): I Na,p; I Na,t; I K;
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: MATLAB; XPP;
Model Concept(s): Pacemaking mechanism; Respiratory control;
Implementer(s): Diekman, Casey O. [casey.o.diekman at njit.edu];
Search NeuronDB for information about:  I Na,p; I Na,t; I K;
% This script reproduces Figure 8 by simulating the closed-loop and
% open-loop systems over range of M values and finding the average PO2
% blood value

clear all

% Parameters

global M gtonic_open

% Initial Conditions
v0=-60; n0=0; h0=0.6; alpha0=0; vollung0=2; PO2lung0=110; PO2blood0=110;
inits0=[v0 n0 h0 alpha0 vollung0 PO2lung0 PO2blood0];

tf=6e4;

options=odeset('RelTol',1e-8,'AbsTol',1e-8);

M=8e-6;
gtonic_open=0.3;

% closed loop

[t0_closed,u0_closed]=ode15s('closedloopM',[0 tf],inits0,options);

inits1_closed=u0_closed(end,:);
[t1_closed,u1_closed]=ode15s('closedloopM',[0 tf],inits1_closed,options);

% open loop

[t0_open,u0_open]=ode15s('openloopM',[0 tf],inits0,options);

inits1_open=u0_open(end,:);
[t1_open,u1_open]=ode15s('openloopM',[0 tf],inits1_open,options);


Mvals=2e-6:0.1e-6:18e-6;

for ix=1:length(Mvals)

    M=Mvals(ix)
    
    % closed loop
    
    inits2_closed=u1_closed(end,:);
    [t2_closed,u2_closed]=ode15s('closedloopM',[tf 2*tf],inits2_closed,options);

    inits3_closed=u2_closed(end,:);
    [t3_closed,u3_closed]=ode15s('closedloopM',[2*tf 3*tf],inits3_closed,options);

    inits4_closed=u3_closed(end,:);
    [t4_closed,u4_closed]=ode15s('closedloopM',[3*tf 4*tf],inits4_closed,options);

    inits5_closed=u4_closed(end,:);
    [t5_closed,u5_closed]=ode15s('closedloopM',[4*tf 5*tf],inits5_closed,options);

    inits6_closed=u5_closed(end,:);
    [t6_closed,u6_closed]=ode15s('closedloopM',[5*tf 6*tf],inits6_closed,options);

    t_closed=[t1_closed; t2_closed; t3_closed; t4_closed; t5_closed; t6_closed];
    u_closed=[u1_closed; u2_closed; u3_closed; u4_closed; u5_closed; u6_closed];

    po2blood6_closed=u6_closed(:,7);

    avgIntPO2blood_closed(ix)=trapz(t6_closed,po2blood6_closed)/(t6_closed(end)-t6_closed(1));
    
    % open loop

    inits2_open=u1_open(end,:);
    [t2_open,u2_open]=ode15s('openloopM',[tf 2*tf],inits2_open,options);

    inits3_open=u2_open(end,:);
    [t3_open,u3_open]=ode15s('openloopM',[2*tf 3*tf],inits3_open,options);

    inits4_open=u3_open(end,:);
    [t4_open,u4_open]=ode15s('openloopM',[3*tf 4*tf],inits4_open,options);

    inits5_open=u4_open(end,:);
    [t5_open,u5_open]=ode15s('openloopM',[4*tf 5*tf],inits5_open,options);

    inits6_open=u5_open(end,:);
    [t6_open,u6_open]=ode15s('openloopM',[5*tf 6*tf],inits6_open,options);

    t_open=[t1_open; t2_open; t3_open; t4_open; t5_open; t6_open];
    u_open=[u1_open; u2_open; u3_open; u4_open; u5_open; u6_open];

    po2blood6_open=u6_open(:,7);

    avgIntPO2blood_open(ix)=trapz(t6_open,po2blood6_open)/(t6_open(end)-t6_open(1));

end


%% Make plot

set(0,'DefaultAxesFontSize',24)

close(figure(1))

figure(1)
hold on
plot(Mvals,avgIntPO2blood_closed,'k','Linewidth',3)
plot(Mvals,avgIntPO2blood_open,'b','Linewidth',3)
xlim([.2e-5 18e-6])
ylim([1 140])
xlabel('$M$','Interpreter','latex','FontSize',24)
ylabel('$P_\mathrm{a}\mathrm{O}_2$','Interpreter','latex','Fontsize',24)
h=legend('closed loop','open loop','Location','Northeast');
set(h,'interpreter','latex','FontSize',20)
legend('boxoff')
set(gca,'XTick',[0.4e-5:.4e-5:1.6e-5])
grid on







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