Cl- homeostasis in immature hippocampal CA3 neurons (Kolbaev et al 2020)

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Accession:266811
Model used for the revision of the manuscript. Insertion of a passive Cl- flux and an active Cl-accumulation. Parameters adapted to match the properties of [Cl-]i determined in immature rat CA3 neurons in-vitro.
Reference:
1 . Kolbaev SN, Mohapatra N, Chen R, Lombardi A, Staiger JF, Luhmann HJ, Jedlicka P, Kilb W (2020) NKCC-1 mediated Cl- uptake in immature CA3 pyramidal neurons is sufficient to compensate phasic GABAergic inputs. Sci Rep 10:18399 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell; Synapse;
Brain Region(s)/Organism: Hippocampus;
Cell Type(s):
Channel(s): NKCC1;
Gap Junctions:
Receptor(s): GabaA;
Gene(s):
Transmitter(s): Gaba;
Simulation Environment: NEURON;
Model Concept(s): Synaptic Plasticity; Homeostasis;
Implementer(s): Jedlicka, Peter [jedlicka at em.uni-frankfurt.de]; Kilb, Werner [wkilb at uni-mainz.de];
Search NeuronDB for information about:  GabaA; NKCC1; Gaba;
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Models_Kolbaev et al Scientific Reports Revision
Readme.txt
asin.mod *
cldif_CA3_NKCC1_HCO3.mod *
gabaA_Cl_HCO3.mod *
tonic.mod *
vecevent.mod *
Add_tonic_Cl-current.hoc
anyl.m
Block-Tonic-Cl-current.ses
Cell_1_SciRep_ShrinkCorr.hoc
Determine_cl-Flux_w-o_NKCC1_rig.ses
Determine_R_input_rig.ses
Determine_tau_NKCC1_rig.ses
Display_Phasic-Cl-current.ses
Display_Phasic-Cl-current_for_Charge_Transfer.ses
Display_Phasic-Cl-current_forFreq.ses
Phasic_GABA_activity_Div_Freq.hoc
Phasic_GABA_activity_Div_gGABA.hoc
Phasic_GABA_activity_only_soma_Backregul.hoc
Phasic_GABA_activity_only_soma_Div_Freq.hoc
Phasic_GABA_activity_only_soma_Div_gGABA.hoc
Phasic_GABA_activity_only_soma_for_Charge_Transfer.hoc
Phasic_GABA_activity_only_soma_PlaceSynapsesForFigure.hoc
start_Add_Tonic_Cl-currents.hoc
start_Block_Tonic_Cl-currents.hoc
start_Phasic_Cl-currents.hoc
start_Phasic_Cl-currents_for _Change-transfer.hoc
start_Phasic_GABA_activity_Div_Freq.hoc
start_Phasic_GABA_activity_only_soma_Backregul.hoc
start_Phasic_GABA_activity_only_soma_Div_Freq.hoc
start_Phasic_GABA_activity_only_soma_Div_gGABA.hoc
Switch_off_tonic_Cl-current.hoc
                            
In this directory the models used for Fig. 4 of the manuscript 
"NKCC-1 mediated Cl- uptake in immature CA3 pyramidal neurons is 
sufficient to compensate phasic GABAergic input" by Kolbaev et al.
submitted to Scientific Reports

To use this model please unpack in folder, and use mknrndll to 
compile the used .mod files.

For the simulation used in Fig. 4B:
  Start Neuron by clicking Cell_1_SciRep_ShrinkCorr.hoc
  Load session "Determine_tau_NKCC1_rig.ses"
  In the cldif_CA3_NKCC1_HCO3 window you can adjust the Values for
  the NKCC1 mediated Cl- transport.
  Most relevant are the parameters: 
    tau_NKCC1 - adjust this value to fir the measured Cl- trajectory
    cli_Start - adjust to the desired Starting Value, 9.1 mM is the exp. determined value

For the simulation used in Fig. 4C:
  Start Neuron by clicking Cell_1_SciRep_ShrinkCorr.hoc
  Load session "Determine_cl-Flux_w-o_NKCC1_rig.ses"
  In the cldif_CA3_NKCC1_HCO3 window you can adjust the Values for
  the NKCC1 mediated Cl- transport.
  Most relevant are the parameters: 
    tau_NKCC1 - adjusted to 9.9*10(19) i.e. pratically absent 
    tau_passive - adjusted to 9.9*10(19) i.e. pratically absent 
                  (note that in this paper we evaluate the Cl- fluxes 
                  via the tonic GABA A receptors implemented in Cell1)
    cli_Start - adjust to the desired starting Value, here 17 mM as this is the 
                steady state of the recordings shown in Fig. 4C

For the simulation used in Fig. 4E:
  Start Neuron by clicking start_Phasic_GABA_activity_only_soma_Backregul.hoc

For the simulation used in Fig. 4F:
  Start Neuron by clicking start_Phasic_GABA_activity_only_soma_Div_gGABA.hoc
  The different conductances  of the phasic currents are sequentially
  played in the main file "Phasic_GABA_activity_only_soma_Div_gGABA.hoc" and
  stored in .asc files

For the simulation used in Fig. 4G:
  Start Neuron by clicking start_Phasic_GABA_activity_only_soma_Div_Freq.hoc
  The different conductances  of the phasic currents are sequentially
  played in the main file "Phasic_GABA_activity_only_soma_Div_gGABA.hoc" and
  stored in .asc files Start-Frequency and number of frequency staps are defined
  in line 15 and 16 of the hoc file. For the manuscript thes are set manually
  by defining Freq-Staps = 1 and Start_Freq to 1,2,5,10,20, and 50
  
For the simulation used in Fig. 4H:
  Start Neuron by clicking "start_Block_Tonic_Cl-currents.hoc"
 
For the simulation used in Fig. 4I:
  Start Neuron by clicking "start_Add_Tonic_Cl-currents.hoc"
  The amplitude of the added tonic current mut be set in the Valuable Add_Tonic
  in the second line of the code in "Add_tonic_Cl-current.hoc
 



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