README file for the simulation of spatio-temporal distribution of
synaptic potentials over an identified nonspiking interneuron in
crayfish using the GENESIS simulator by Akira Takashima, Ryou Hikosaka
and Masakazu Takahata.
1. This GENESIS simulation show how a single or compound excitatory
synaptic potentials evoked by mechanosensory stimulation spreads
over the dendrites of the LDS interneuron that is identified in the
terminal abdominal ganglion of crayfish Procambarus clarkii.
2. The model is based on physiological experiments carried out by
Akira Takashima using single-electrode voltage clamp techniques and
3-D morphometry of the interneuron carried out by Ryou Hikosaka
using confocal laser scanning microscope techniques. The
physiological and morphological studies were coordinated by
Details on the simulation are described in:
Takashima, A., Hikosaka, R. and Takahata, M. (2006)
J. Neurophysiol. 96: 3157-3169.
Details on the physiological characterization of the LDS interneuron
including Hodgkin-Huxley type description of active membrane
conductances are described in:
Takashima, A. and Takahata, M. (2000) J. Compt. Neurosci. 9:
Details on the 3-D morphometry of the interneuron are described in:
Hikosaka, R. Takahashi, M. and Takahata, M. (1996) Zool. Sci. 13:
Hikosaka, R. and Takahata, M. (1998) J. Comp. Neurol. 392: 373-389.
(Raw materials on the 3-D morphometry of the LDS interneuron will be
available in the spring of 2007 at
3. The input synapses from mechanosensory afferents are
pre-deterimined in this simulation. Users can choose from one, 5,
10, 21 and 94 regions for the input sites on the same ipsilateral
to the cell body of the LDS interneuron. Users then select one
region of interest to calculate the membrane potential change there
due to the synaptic activity chosen. The result of calculation will
be displayed on the window.
4. In order to run the simulation, you will need these:
1) a fast computer (Pentium 3 or higher) with enough memory (at
least 256 Mb)
2) Linux 2.X installed correctly
3) GENESIS 2.2 or later installed correctly
4) a graphical display with at least a resolution of 1024 x 768
5. In order to test the simulation, follow these steps:
1) Make room on the display for he graphical output: move your shell
window to the bottom of your display.
2) Change to the directory where the TEST.g scripts reside.
3) At the shell prompt, type "genesis". If you have not set PATH to
the directory where the genesis command resides, type whole PATH
to that directory.
4) If you can get started GENESIS simulator, then type "TEST". After
a short period, two windows will appear: "control" window for
setting parameters and "LDS" window for displaying the
5) To further explore the simulation, please read "Instruction.txt".
6. Correspondence e-mail address is: firstname.lastname@example.org (Akira