K. Peterson was supported by a PhD studentship from the Department of Bioengineering and funding from the US Air Force Research Labs.
N. Ejaz was supported by a PhD studentship from the Higher Education Commission Pakistan and funding from the US Air Force Research Labs.

1. Fly Preparation
<ol>
 <li>The first step in setting up the experiments involves preparing the fly so that no involuntary motion corrupts the stability of the neuronal recordings and that the head of the fly is correctly oriented with the visual stimulation equipment. To begin preparing the fly, cool it on ice and then use blunted cocktail sticks to hold the wings down, and fix the back of the fly to a piece of double-sided-tape on a microscope slide.</li>
 <li>Next, use an electro-cauterizing needle to apply bees wax to attach the wings to the slide and also to block the action of the flight motor. This step requires quick and accurate handling so that the fly does not warm up during the procedure.</li>
 <li>Now under the microscope, hold each leg with forceps and use a pair of small scissors to cut them off at the joints closest to the body. Repeat this for the proboscis. To prevent the fly from drying out, the holes must be sealed with wax.</li>
 <li>Next, cut one of the wings off and then turn the fly on its side. Remove any remaining pieces of wing, while leaving the calyptra covering the halteres, and seal the hole with wax. Repeat this procedure for the other wing.</li>
 <li>To stimulate a target neuron in a defined way, the fly's head has to be properly aligned with the computer monitors. To do this, you will need a customized holder that has a broad space for the fly's body and an appendage on one end with a notch cut where the fly's neck will be placed.</li>
 <li>Place the fly onto the holder with its neck in the notch, pressing it down while gluing the abdomen in place. Now place the fly holder in a stand so that you can see the front of the fly's head through the microscope.</li>
 <li>Viewing the fly with red light, an optical phenomenon called the pseudo-pupil can be seen in each eye. The pseudo-pupil provides a reference frame which can be used to align the fly's head with the stimulus (Franceschini 1975). If the pseudo-pupil assumes a certain shape, as shown by the image insert below, then the orientation of the fly's head is perfectly defined. <img src="/files/ftp_upload/1677/1677fig0.jpg" alt="pseudo-pupil" /> </li>
 <li>Use a micromanipulator to correctly orient the fly's head, and then use wax to glue it to the holder.</li>
 <li>Next, Press the thorax down flat and wax it to the holder. This allows the rear head capsule to be opened so that electrodes can be inserted into the fly brain.</li>
 <li>Use a micro scalpel or a fine injection needle to carefully cut a window into the cuticle of the right head capsule. Be careful not to cut the neural tissue right underneath the cuticle. Once the piece of cuticle is removed, add a few drops of Ringer solution.</li>
 <li>Use forceps to remove any floating hairs, fat deposits, or muscle tissue that may cover the lobula plate. The lobula plate can be identified by a characteristic branching pattern of silvery trachea that covers its posterior surface. </li>
 <li>Cut a small hole into the cuticle of the left rear head capsule for positioning a reference electrode. With the fly prepared, lets see how to position the recording electrode.</li>
</ol>
2. Positioning the Recording Electrode
<ol>
 <li>With the fly prepared, let&#x2019;s proceed to locating and recording signals from the H1 neuron. The recording electrode must be placed in close proximity to the H1 neuron. The H1 neuron mainly responds to horizontal back-to-front motion presented to its receptive field (Krapp et al. 2001).</li>
 <li>To position the recording electrode, use the trachea as a visual landmark. Initially, place the electrode between the uppermost trachea.</li>
 <li>It helps to use an audio amplifier to convert the recorded electrical potentials into acoustic signals. Each individual spike is turned into a characteristic clicking sound. The closer the electrode gets to an individual neuron, the clearer the clicking sound becomes.</li>
 <li>To identify the H1 neuron by means of its motion preference, stimulate it with motion in the horizontal direction. With the recording electrode in place, lets move on to visual stimulation and recordings.</li>
</ol>
3. Visual Stimulation and Recordings
<ol>
 <li>The closed-loop experiments are setup such that such that stimulation of the H1 neuron results in the robot compensating for the movement of the turn-table. To begin, place a fly in front of two CRT computer monitors. Because the fly visual system is 10 times faster than the human&#x2019;s, the monitors must display 200 frames per second. The monitors and other electrical equipment must be electromagnetically shielded to minimize external noise in the measured neuronal signal.</li>
 <li>Position the centres of the monitors at +/- 45 degrees relative to the fly's orientation. As seen from the fly's eye equator, each monitor subtends an angle of +/-25 degrees in the horizontal, and +/-19 degrees in the vertical plane.</li>
 <li>Synchronized input to the computer monitors is provided by two video cameras mounted on a small, two-wheeled ASURO robot that has been modified for the experiment.</li>
 <li>Position the robot on a turn-table within a cylindrical area whose walls are lined with a pattern of vertically oriented, black and white stripes. By rotating the turn-table in the horizontal plane, the movements of the robot are limited to only one degree of freedom.</li>
 <li>Initially both the turn-table and robot are at rest. When the turn-table starts moving, its rotation carries the robot, in the same direction and the video cameras record the relative motion between the robot and the striped pattern of the arena.</li>
 <li>The battery-powered video cameras on the robot are mounted at an orientation of +/- 45 degrees. They capture 200 images per second to match the frame rate of the computer monitors in front of the fly.</li>
 <li>Log the images presented to the computer monitors at 200 frames per second at a resolution of 640 x 480 (gray-scale).</li>
 <li>While the fly is watching the movements of the striped pattern, record the band-passed filtered (for example, between 300 and 2 kHz) electrical signals with a Digital Acquisition board using a sampling rate of at least 10 kHz.</li>
 <li>A threshold is applied to the band-passed filtered electrical signals to separate the spikes from the background activity. A causal, half-gaussian filter is convolved with the spikes to obtain a smooth spiking activity estimate for the H1 cell. </li>
 <li>To close the loop of the brain machine interface, a control algorithm is used to convert the spike rate of the H1 cell to a robot speed which is fed back via a Bluetooth interface to control the two DC motors driving the wheels of the robot.</li>
 <li> Pure sine waves are chosen as velocity profiles for the turn-table. The sine waves have a DC-offset such that the turn-table only rotates in the direction which stimulates the H1 neuron along its preferred direction. Stimulation of the H1 neuron results in the robot compensating for the movement of the turn-table. <img src="/files/ftp_upload/1677/1677fig1.jpg" alt="Figure 1" /> Figure 1: Closed loop setup. In our setup, spiking activity of the left H1 cell is used to control the motion of a robot mounted on a turntable. Visual image motion generated as a result of relative motion between the robot and the turn-table is captured via high-speed cameras and displayed on two CRT monitors in front of the fly. H1 spiking activity from the left hemisphere is used to estimate the real-time spike rate which then uses a control law to calculate a compensation speed for the robot. The robot counter-rotation stabilizes the visual image motion observed by the fly during closed-loop control. </li>
</ol>
4. Representative Outcome and Results
<ol>
 <li>When set up correctly, visual stabilization is achieved when the counter-rotation of the robot matches the rotation of the turn-table, resulting in little or no pattern movement on the computer monitors. The overall performance of the system depends on the control algorithm being used to close the loop.</li>
 <li>The first algorithm we test is a proportional controller (figure 2) where the updated robot speed is proportional to the difference in angular velocities between the robot, &omega;r, and the turn-table, &omega;p. Different values for the static gain, Kp, and input frequencies for the turn-table signal, &omega;p, are chosen to test the performance of the controller. <img src="/files/ftp_upload/1677/1677fig2.jpg" alt="Figure 2" /> Figure 2: Proportional controller. (a) Relative motion between the robot and the turn-table in the preferred direction stimulates the H1 cell to give the spike rate, F. This spike rate is converted into a speed error, E, and a proportional controller is used to estimate the updated robot speed, vr(t+1). The spike rate, F, is converted to the speed error, E, based on whether it is less than or greater than the spontaneous spike rate, Fspont. The spike rate to speed error conversion is done by projecting F over a cosine (interval [&pi;,0]) to account for spiking rate threshold nonlinearities. The constants 70 and 150 are used to match the 8-bit input speed of
the robot to the minimum and maximum angular velocities of the turn-table. (b) Block diagram showing closed-loop system using a proportional controller. The input to the system is a sinosuidal modulation of the turn-table angular velocity, &omega;p(t), and the corresponding robot response &omega;r(t+1) is recorded. </li>
 <li>Sample traces for &omega;p and &omega;r are shown here for Kp=1 and an input frequency of 0.6 Hz for &omega;p (see figure 3). The robot (in green) follows the turn-table (in blue) with a lag and a smaller peak-amplitude. The horizontal component of the pattern motion that stimulates the H1 cell is shown below (in red). <img src="/files/ftp_upload/1677/1677fig3.jpg" alt="Figure 3" /> Figure 3: Closed loop responses. (a) Angular velocities for the turn-table (blue), &omega;p, and robot (green), &omega;r, at input frequency = 0.6 Hz. (b) Horizontal optic flow is shown as calculated from logged images (red). Pyramidal Lucas Kanade method (3 pyramid levels) is used to compute the optic flow field between successive image frames. Horizontal angular velocity is calculated by summing the projections of individual vectors in the flow fields onto the horizontal unit vector i. Horizontal back-to-front motion that excites the H1 cell is referred to as PD (preferred direction) while horizontal front-to-back motion that inhibits the H1 cell is referred to as ND (null direction). </li>
 <li>Input frequencies for the turn-table signal, &omega;p, are chosen between 0.03-3 Hz and the corresponding robot signal, &omega;r, is recorded. Both signals are transformed into the frequency domain by a fast Fourier transform (see figure 4) and the amplitude and phase values are calculated at the input frequency. <img src="/files/ftp_upload/1677/1677fig4.jpg" alt="Figure 4" /> Figure 4: Frequency response. Angular velocity signals for the turn-table, &omega;p, and robot, &omega;r, are transformed into the frequency domain using the fast Fourier transform (FFT) method to calculate amplitude and phase components at the input frequency. Phase components of FFT are not shown in the figure. </li>
 <li>The Bode magnitude plot for the proportional controller with Kp=1 shows the response of the system over the tested input frequencies (see figure 5-a). The performance of the controller generally decreases with increasing frequencies. The slightly increased gain at 1 Hz is as a result of oscillations in the robot signal due to using only one H1-cell whose dynamic (output) range mainly covers horizontal back-to-front motion. <img src="/files/ftp_upload/1677/1677fig5.jpg" alt="Figure 5" /> Figure 5: Proportional controller performance. The Bode magnitude and phase plots for the proportional controller (averaged over 8 flies), static gain Kp = 1.0 (a) the bode magnitude plot roughly follows a low pass filter characteristic. The slightly increased gain at 1 Hz is as a result of oscillations in the robot signal, &omega;r, due to using only one H1-cell whose dynamic (output) range mainly covers horizontal back to front motion. The number of oscillations in the robot signal, &omega;r, decrease with increasing input frequencies leading to slightly increased gain at these frequencies. (b) the Bode phase plot is less than 180&deg; for input frequencies &le; 1 Hz and approaches instability at 3 Hz. Beyond a certain input frequency, the controller becomes instable due to the kinematics of the robot. This instability only occurs beyond the known optimal response range of the fly visual system (Warzecha et al. 1999). </li>
 <li>The Bode phase plot (see figure 5-b) shows a controller phase lag less than &Pi; for input frequencies &lt; 0.6 Hz. This shows that the controller is stable for frequencies &lt; 0.6 Hz and unstable for input frequencies &ge; 1 Hz.</li>
 <li>The performance of the proportional controller with a static Kp (in blue) was compared with an adaptive controller (in red), where the value for Kp is updated every 50 ms based on the peak spike rate, Fmax, calculated over time interval [t-500ms - t] (see figure 6). As a result of the large integration time window, the proportional controller performs better than the adaptive controller for the parameter range tested (see figure 7-a). The initial time integration window of 500 ms was chosen for technical reasons related to the robot platform we are using. The adaptive controller had a similar phase characteristic as the proportional controller (see figure 7-b). 
<img src="/files/ftp_upload/1677/1677fig6.jpg" alt="Figure 6" /> Figure 6: Adaptive controller gain. The proportional controller uses a static gain, Kp, whereas the adaptive controller estimates the gain continuously during closed loop control. The dynamic gain, Kp, is inversely proportional to the maximum spike rate, Fmax, over the interval t-500ms &le; &tau; &le; t. Figure shows three instances where Fmax is estimated over time. Based on estimated values of Fmax, Kp is highest during time window 2 (green) and lowest during time window 3 (orange). 
<img src="/files/ftp_upload/1677/1677fig7.jpg" alt="Figure 7" /> Figure 7: Proportional vs. adaptive controller. Bode magnitude and phase plots for the proportional (Kp = 1) and adaptive controller (a) the adaptive controller updates the value of Kp every 50ms based on the peak spike rate estimate Fmax over the last 500ms. The proportional controller gain plot (blue) is higher than that of the adaptive controller (red) indicating that it is performing better at all input frequencies. (b) the Bode phase plots for both controllers are similar with a significant difference at f = 0.3 Hz. Both controllers approach instability at 3 Hz. Significantly different gain and phase values are indicated by an asterix (Wilcoxon rank sum method, p = 0.05). </li>
 <li>The grating pattern around the turntable was removed and the lab environment was used as an approximation of naturalistic visual input for the fly H1-cell. On average, the Bode magnitude plot (see figure 8-a) for the naturalistic visual input (in blue) showed slightly higher gains than the one with grating visual input (in red) probably because the wider range of spatial frequencies in naturalistic visual images is exploited. The Bode phase plot characteristics for grating vs naturalistic visual inputs were similar (see figure 8-b). <img src="/files/ftp_upload/1677/1677fig8.jpg" alt="Figure 8" /> Figure 8: Stripped pattern vs. lab environment. The Bode magnitude and phase plots for the proportional controller when presented with stripped patterns (red) vs lab environment (blue) visual images under closed loop (a) the Bode magnitude plot for when lab environment images are used is marginally higher than when stripped pattern is used (except at f = 0.1 Hz) indicating better performance under such stimulus. (b) the Bode phase plot under both visual conditions follow the same pattern, with both approaching instability at 3 Hz. Significantly different gain and phase values are indicated by an asterix (Wilcoxon rank sum method, p = 0.05). </li>
</ol>

<ol>
	<li>Chiappe, E. M., Seelig, J. D., Reiser, M. B., Jayaraman, V. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Walking+modulates+speed+sensitivity+in+Drosophila+motion+vision.">Walking modulates speed sensitivity in Drosophila motion vision.</a> Curr. Biol. 20, 1470-1475 (2010).</li><li>Franceschini, N., Snyder, A. W., Menzel, R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Sampling+of+the+visual+environment+by+the+compound+eye+of+the+fly:+fundamentals+and+applications.">Sampling of the visual environment by the compound eye of the fly: fundamentals and applications.</a> Photoreceptor optics. , 98-125 (1975).</li><li>Karmeier, K., Tabor, R., Egelhaaf, M., Krapp, H. G. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Early+visual+experience+and+the+receptive-field+organization+of+optic+flow+processing+interneurons+in+the+fly+motion+pathway.">Early visual experience and the receptive-field organization of optic flow processing interneurons in the fly motion pathway.</a> Vis. Neurosci. 18, 1-8 (2001).</li><li>Krapp, H. G., Hengstenberg, B., Hengstenberg, R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Dendritic+structure+and+receptive-field+organization+of+optic+flow+processing+interneurons+in+the+fly.">Dendritic structure and receptive-field organization of optic flow processing interneurons in the fly.</a> Jour. of Neurophys. 79, 1902-1917 (1998).</li><li>Krapp, H. G., Hengstenberg, R., Egelhaaf, M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Binocular+contributions+to+optic+flow+processing+in+the+fly+visual+system.">Binocular contributions to optic flow processing in the fly visual system.</a> Jour. of Neurophys. 85, 724-734 (2001).</li><li>Longden, K. D., Krapp, H. G. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Octopaminergic+modulation+of+temporal+frequency+coding+in+an+identified+optic-flow+processing+interneuron.">Octopaminergic modulation of temporal frequency coding in an identified optic-flow processing interneuron.</a> Frontiers in Systems Neuroscience. 4, 153-153 (2010).</li><li>Bender, J. A., Dickinson, M. H. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=A+comparison+of+visual+and+haltere-mediated+feedback+in+the+control+of+body+saccades+in+Drosophila+melanogaster.">A comparison of visual and haltere-mediated feedback in the control of body saccades in Drosophila melanogaster.</a> J. Exp. Bio. 209, 4597-4606 (2006).</li><li>Longden, K. D., Krapp, H. G. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=State-dependent+performance+of+optic+flow-processing+interneurons.">State-dependent performance of optic flow-processing interneurons.</a> J. Neurophysiol. 102, 3606-3618 (2009).</li><li>Maimon, G., Straw, A. D., Dickinson, M. H. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Active+flight+increases+the+gain+of+visual+motion+processing+in.">Active flight increases the gain of visual motion processing in.</a> 13, 393-399 (2010).</li><li>Petrovitz, R., Dahmen, H., Egelhaaf, M., Krapp, H. G. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Arrangement+of+optical+axes+and+spatial+resolution+in+the+compound+eye+of+the+female+blowfly+Calliphora.">Arrangement of optical axes and spatial resolution in the compound eye of the female blowfly Calliphora.</a> J Comp Physiol A. 186, 737-746 (2000).</li><li>Warzecha, A. K., Horstmann, W., Egelhaaf, M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Temperature-dependence+of+neuronal+performance+in+the+motion+pathway+of+the+blowfly+Calliphora+Erythrocephala.">Temperature-dependence of neuronal performance in the motion pathway of the blowfly Calliphora Erythrocephala.</a> J Exp Biology. 202, 3161-3170 (1999).</li></ol>

<ol>
 <li>Fly dissection needs to be carried out carefully making sure that we correctly orient the fly with respect to the computer monitors.</li>
 <li>Separating the spikes from the H1 neuron from the spikes from all other neurons to get a good signal to noise ratio which can then be used to control the robot reliably.</li>
 <li>Care should be taken to prevent any neural tissue from drying out during the course of the experiment.</li>
 <li>The cameras are connected to computers using an Ethernet cable. Care should be taken so that they are not over-wound during the experiment as that would affect the rotation of the robot. </li>
 <li>Currently we are using the spike activity of one H1 to setup a stabilization task in only one direction of yaw rotation. We can add a second electrode to get signals from both left and right H1's so that we can study stabilization control algorithms in both directions of yaw rotation.</li>
 <li>We can remove the arena containing the vertically oriented black and white stripes and use the lab environment as the visual stimulus for the fly. This will allow us to study closed-loop performance with naturalistic images.</li>
 <li>The robot can be removed from the turn-table and allowed to move around the lab environment while in closed-loop control. This will allow us to investigate control algorithms involved in collision avoidance. </li>
 <li>The wires connecting the cameras to the computers can be removed by implementing a wireless transmission system, giving us a completely unrestrained robotic setup.</li>
 <li>The performance measures of the different control algorithms will give us an understanding of how different strategies are able to cope with non-stationary and variable neuronal signals. This knowledge can then be applied to different clinical and non-clinical brain-machine interfaces.</li>
 <li>This experimental setup is the first step towards recording neuronal signals from behaving animals. Our goal is to place the fly on the robot and use its neural activity for closed-loop control. In such a setup, we would be able to record neural activity from the fly while it is receives multisensory stimulation as a result of the motion of the robot.</li>
<li>Record only signals from one cell. In the configuration we should you, the most suitable cell would be the H1-cell. Isolating the responses of the H1 neuron from other neurons with similar receptive fields, e.g. H2, is important to maintain a good signal to noise ratio for the neuronal recordings. The responses of the H1 and H2 neurons can be discriminated by noting that the H2 has characteristically lower spontaneous and mean spiking rate than the H1 neuron. The neurons can also be discriminated on the basis of their morphology (Krapp et al. 2001).</li>
<li>Our system allows us to compare the closed-loop gain achieved by our fly-robot interface on an image stabilization task, and to compare its performance with closed-loop optomotor gains observed in previous experiments on flies (Bender &amp; Dickinson 2006, Warzecha et al. 1996, Heisenberg &amp; Wolf, 1990). Additionally, it allows us to investigate state-dependant changes in visual information processing under closed-loop conditions (Chiappe et al. 2010, Maimon et al. 2010, Longden &amp; Krapp 2009, Longden &amp; Krapp 2010). </li>
</ol>

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		<div>
		<table border="1">
		<thead>
		<tr>
		<th>Material Name</th>
		<th>Type</th>
		<th>Company</th>
		<th>Catalogue Number</th>
		<th>Comment</th>
		</tr>
		</thead>
		<tbody>
		
<tr>
<td>RosetteSep&reg; human T cell enrichment cocktail</td>
<td>&nbsp;</td>
<td>Stemcell Technologies</td>
<td>15061</td>
<td>&nbsp;</td>
<tr>
<td>RosetteSep&reg; density medium</td>
<td>&nbsp;</td>
<td>StemCell Technologies</td>
<td>15705</td>
<td>&nbsp;</td>
<tr>
<td>RPMI 1640 medium w/glutamine/HEPES</td>
<td>&nbsp;</td>
<td>Fisher</td>
<td>SH3025501</td>
<td>&nbsp;</td>
<tr>
<td>Fetal calf serum</td>
<td>&nbsp;</td>
<td>Omega Scientific</td>
<td>FB-01</td>
<td>&nbsp;</td>
<tr>
<td>GlutaMAX&trade;-I</td>
<td>&nbsp;</td>
<td>Invitrogen</td>
<td>35050</td>
<td>&nbsp;</td>
<tr>
<td>RPMI 1640 vitamin solution</td>
<td>&nbsp;</td>
<td>Sigma-Aldrich</td>
<td>7256</td>
<td>&nbsp;</td>
<tr>
<td>RPMI 1640 amino acids solution</td>
<td>&nbsp;</td>
<td>Sigma-Aldrich</td>
<td>R7131</td>
<td>&nbsp;</td>
<tr>
<td>Sodium pyruvate</td>
<td>&nbsp;</td>
<td>Sigma-Aldrich</td>
<td>S8636</td>
<td>&nbsp;</td>
<tr>
<td>&beta;-Mercaptoethanol</td>
<td>&nbsp;</td>
<td>Sigma-Aldrich</td>
<td>M7522</td>
<td>&nbsp;</td>
<tr>
<td>BAPTA</td>
<td>&nbsp;</td>
<td>Sigma-Aldrich</td>
<td>A4926</td>
<td>&nbsp;</td>
<tr>
<td>Poly-l-lysine hydrobromide</td>
<td>&nbsp;</td>
<td>Sigma-Aldrich</td>
<td>P2636</td>
<td>&nbsp;</td>
<tr>
<td>Thapsigargin</td>
<td>&nbsp;</td>
<td>Calbiochem</td>
<td>586005</td>
<td>&nbsp;</td>
<tr>
<td>Sylgard&reg; 184 silicon elastomer kit</td>
<td>&nbsp;</td>
<td>Dow Corning</td>
<td>3097358-1004</td>
<td>&nbsp;</td>
<tr>
<td>HIPEC&reg; R6101 semiconductor protective coating</td>
<td>&nbsp;</td>
<td>Dow Corning</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<tr>
<td>EPC 10 patch clamp amplifier</td>
<td>&nbsp;</td>
<td>HEKA Instruments</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<tr>
<td>Motorized micromanipulator </td>
<td>&nbsp;</td>
<td>Sutter Instrument</td>
<td>MP-285</td>
<td>&nbsp;</td>
<tr>
<td>Olympus 1X71 inverted microscope with 40X oil immersion objective</td>
<td>&nbsp;</td>
<td>Olympus America</td>
<td>1X71</td>
<td>&nbsp;</td>
<tr>
<td>Patch pipette puller</td>
<td>&nbsp;</td>
<td>Sutter Instrument</td>
<td>P-97</td>
<td>&nbsp;</td>
<tr>
<td>Borosilicate tubing with filament (O.D.: 1.5 mm and I.D.: 1.10 mm)</td>
<td>&nbsp;</td>
<td>Sutter Instrument</td>
<td>BF150-110-7.5</td>
<td>&nbsp;</td>
<tr>
<td>Microforge</td>
<td>&nbsp;</td>
<td>Narishige International</td>
<td>MF-830</td>
<td>&nbsp;</td>
<tr>
<td>Silicon O-rings </td>
<td>&nbsp;</td>
<td>McMaster-Carr</td>
<td>111 S70</td>
<td>&nbsp;</td>
<tr>
<td>Microscope cover glass</td>
<td>&nbsp;</td>
<td>Fisher Scientific</td>
<td>12-545-102 25 mm 25CIR-1</td>
<td>&nbsp;</td>
<tr>
<td>Pulse software</td>
<td>&nbsp;</td>
<td>HEKA Instruments</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<tr>
<td>Origin scientific graphing and analysis software</td>
<td>&nbsp;</td>
<td>OriginLab</td>
<td>&nbsp;</td>
<td>&nbsp;</td>		</tbody>
		</table>
		</div>
			<div>
			<ol>
<li>1)High-Speed CRT Displays (LG Studioworks 221U)</li>
<li>High-Speed Cameras (Prosilica, GC640)</li>
<li>Robot Platform (ASURO with custom modifications)</li>
<li>Serial Bluetooth Modem (Bluesmirf)</li>
<li>Micro Step Drive (Applied Motion Systems, ST5-SI)</li>
<li>Stepper Motor (Sanyo Denki, 103H6704-0140)</li>
<li>Tungsten electrodes (fh-co.com - Item code - UEW SHG SE 3P1M)</li>
<li>Extracellular Amplifier (NPI EXT 10-2F)</li>
<li>Motorized Micromanipulator (Scientifica, PS-700-Z)</li>
<li>Stereo Microscope (Leica, MZ95)</li>
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an experimental platform to study the closed-loop performance of brain-machine interfaces

The non-stationary nature and variability of neuronal signals is a fundamental problem in brain-machine interfacing. We developed a brain-machine interface to assess the robustness of different control-laws applied to a closed-loop image stabilization task. Taking advantage of the well-characterized fly visuomotor pathway we record the electrical activity from an identified, motion-sensitive neuron, H1, to control the yaw rotation of a two-wheeled robot. The robot is equipped with 2 high-speed video cameras providing visual motion input to a fly placed in front of 2 CRT computer monitors. The activity of the H1 neuron indicates the direction and relative speed of the robot's rotation. The neural activity is filtered and fed back into the steering system of the robot by means of proportional and proportional/adaptive control. Our goal is to test and optimize the performance of various control laws under closed-loop conditions for a broader application also in other brain machine interfaces.

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An Experimental Platform to Study the Closed-loop Performance of Brain-machine Interfaces

We use a closed-loop fly-machine interface to investigate general principles in neuronal control.

The non-stationary nature and variability of neuronal signals is a fundamental problem in brain-machine interfacing. We developed a brain-machine ...

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Research

JoVE Journal

Neuroscience

13.6K Views.  Imperial College London. We use a closed-loop fly-machine interface to investigate general principles in neuronal control.

Video: An Experimental Platform to Study the Closed-loop Performance of Brain-machine Interfaces

An Optic Nerve Crush Injury Murine Model to Study Retinal Ganglion Cell Survival

Injury to the optic nerve can lead to axonal degeneration, followed by a gradual death of retinal ganglion cells (RGCs), which results in irreversible vision loss. Examples of such diseases in human include traumatic optic neuropathy and optic nerve degeneration in glaucoma. It is characterized by typical changes in the optic nerve head, progressive optic nerve degeneration, and loss of retinal ganglion cells, if uncontrolled, leading to vision loss and blindness.
The optic nerve crush (ONC) injury mouse model is an important experimental disease model for traumatic optic neuropathy, glaucoma, etc. In this model, the crush injury to the optic nerve leads to gradual retinal ganglion cells apoptosis. This disease model can be used to study the general processes and mechanisms of neuronal death and survival, which is essential for the development of therapeutic measures. In addition, pharmacological and molecular approaches can be used in this model to identify and test potential therapeutic reagents to treat different types of optic neuropathy.
Here, we provide a step by step demonstration of (I) Baseline retrograde labeling of retinal ganglion cells (RGCs) at day 1, (II) Optic nerve crush injury at day 4, (III) Harvest the retinae and analyze RGC survival at day 11, and (IV) Representative result.

This protocol shows how to retrogradely label retinal ganglion cells, and how to subsequently make an optic nerve crush injury in order to analyze retinal ganglion cell survival and apoptosis. It is an experimental disease model for different types of optic neuropathy, including glaucoma.

Injury to the optic nerve can lead to axonal degeneration, followed by a gradual death of retinal ganglion cells (RGCs), which results in irreversible ...

Genetic Manipulation of Cerebellar Granule Neurons In Vitro and In Vivo to Study Neuronal Morphology and Migration

Developmental events in the brain including neuronal morphogenesis and migration are highly orchestrated processes. In vitro and in vivo analyses allow for an in-depth characterization to identify pathways involved in these events. Cerebellar granule neurons (CGNs) that are derived from the developing cerebellum are an ideal model system that allows for morphological analyses. Here, we describe a method of how to genetically manipulate CGNs and how to study axono- and dendritogenesis of individual neurons. With this method the effects of RNA interference, overexpression or small molecules can be compared to control neurons. In addition, the rodent cerebellar cortex is an easily accessible in vivo system owing to its predominant postnatal development. We also present an in vivo electroporation technique to genetically manipulate the developing cerebella and describe subsequent cerebellar analyses to assess neuronal morphology and migration.

Genetic Manipulation of Cerebellar Granule Neurons In Vitro and In Vivo to Study Neuronal Morphology and Migration

Neuronal morphogenesis and migration are crucial events underlying proper brain development. Here, we describe methods to genetically manipulate cultured cerebellar granule neurons and the developing cerebellum for the assessment of morphology and migratory characteristics of neurons.

Developmental events in the brain including neuronal morphogenesis and migration are highly orchestrated processes. In vitro and in vivo analyses allow ...

Real-time Electrophysiology: Using Closed-loop Protocols to Probe Neuronal Dynamics and Beyond

Experimental neuroscience is witnessing an increased interest in the development and application of novel and often complex, closed-loop protocols, where the stimulus applied depends in real-time on the response of the system. Recent applications range from the implementation of virtual reality systems for studying motor responses both in mice1 and in zebrafish2, to control of seizures following cortical stroke using optogenetics3. A key advantage of closed-loop techniques resides in the capability of probing higher dimensional properties that are not directly accessible or that depend on multiple variables, such as neuronal excitability4 and reliability, while at the same time maximizing the experimental throughput. In this contribution and in the context of cellular electrophysiology, we describe how to apply a variety of closed-loop protocols to the study of the response properties of pyramidal cortical neurons, recorded intracellularly with the patch clamp technique in acute brain slices from the somatosensory cortex of juvenile rats. As no commercially available or open source software provides all the features required for efficiently performing the experiments described here, a new software toolbox called LCG5 was developed, whose modular structure maximizes reuse of computer code and facilitates the implementation of novel experimental paradigms. Stimulation waveforms are specified using a compact meta-description and full experimental protocols are described in text-based configuration files. Additionally, LCG has a command-line interface that is suited for repetition of trials and automation of experimental protocols.

Closed-loop protocols are becoming increasingly widespread in modern day electrophysiology. We present a simple, versatile and inexpensive way to perform complex electrophysiological protocols in cortical pyramidal neurons in vitro, using a desktop computer and a digital acquisition board.

Experimental neuroscience is witnessing an increased interest in the development and application of novel and often complex, closed-loop protocols, where ...

Closed-loop Neuro-robotic Experiments to Test Computational Properties of Neuronal Networks

Information coding in the Central Nervous System (CNS) remains unexplored. There is mounting evidence that, even at a very low level, the representation of a given stimulus might be dependent on context and history. If this is actually the case, bi-directional interactions between the brain (or if need be a reduced model of it) and sensory-motor system can shed a light on how encoding and decoding of information is performed. Here an experimental system is introduced and described in which the activity of a neuronal element (i.e., a network of neurons extracted from embryonic mammalian hippocampi) is given context and used to control the movement of an artificial agent, while environmental information is fed back to the culture as a sequence of electrical stimuli. This architecture allows a quick selection of diverse encoding, decoding, and learning algorithms to test different hypotheses on the computational properties of neuronal networks.

In this paper, an experimental framework to perform closed-loop experiments is presented, in which information processing (i.e., coding and decoding) and learning of neuronal assemblies are studied during the continuous interaction with a robotic body.

Information coding in the Central Nervous System (CNS) remains unexplored. There is mounting evidence that, even at a very low level, the representation ...

Electrophysiological Method for Recording Intracellular Voltage Responses of Drosophila Photoreceptors and Interneurons to Light Stimuli In Vivo

Voltage responses of insect photoreceptors and visual interneurons can be accurately recorded with conventional sharp microelectrodes. The method described here enables the investigator to measure long-lasting (from minutes to hours) high-quality intracellular responses from single Drosophila R1-R6 photoreceptors and Large Monopolar Cells (LMCs) to light stimuli. Because the recording system has low noise, it can be used to study variability among individual cells in the fly eye, and how their outputs reflect the physical properties of the visual environment. We outline all key steps in performing this technique. The basic steps in constructing an appropriate electrophysiology set-up for recording, such as design and selection of the experimental equipment are described. We also explain how to prepare for recording by making appropriate (sharp) recording and (blunt) reference electrodes. Details are given on how to fix an intact fly in a bespoke fly-holder, prepare a small window in its eye and insert a recording electrode through this hole with minimal damage. We explain how to localize the center of a cell's receptive field, dark- or light-adapt the studied cell, and to record its voltage responses to dynamic light stimuli. Finally, we describe the criteria for stable normal recordings, show characteristic high-quality voltage responses of individual cells to different light stimuli, and briefly define how to quantify their signaling performance. Many aspects of the method are technically challenging and require practice and patience to master. But once learned and optimized for the investigator's experimental objectives, it grants outstanding in vivo neurophysiological data.

Electrophysiological Method for Recording Intracellular Voltage Responses of Drosophila Photoreceptors and Interneurons to Light Stimuli In Vivo

Sharp microelectrodes enable accurate electrophysiological characterization of photoreceptor and visual interneuron output in living Drosophila. Here we show how to use this method to record high-quality voltage responses of individual cells to controlled light stimulation. This method is ideal for studying neural information processing in insect compound eyes.

Voltage responses of insect photoreceptors and visual interneurons can be accurately recorded with conventional sharp microelectrodes. The method ...

Insect-controlled Robot: A Mobile Robot Platform to Evaluate the Odor-tracking Capability of an Insect

Robotic odor source localization has been a challenging area and one to which biological knowledge has been expected to contribute, as finding odor sources is an essential task for organism survival. Insects are well-studied organisms with regard to odor tracking, and their behavioral strategies have been applied to mobile robots for evaluation. This "bottom-up" approach is a fundamental way to develop biomimetic robots; however, the biological analyses and the modeling of behavioral mechanisms are still ongoing. Therefore, it is still unknown how such a biological system actually works as the controller of a robotic platform. To answer this question, we have developed an insect-controlled robot in which a male adult silkmoth (Bombyx mori) drives a robot car in response to odor stimuli; this can be regarded as a prototype of a future insect-mimetic robot. In the cockpit of the robot, a tethered silkmoth walked on an air-supported ball and an optical sensor measured the ball rotations. These rotations were translated into the movement of the two-wheeled robot. The advantage of this "hybrid" approach is that experimenters can manipulate any parameter of the robot, which enables the evaluation of the odor-tracking capability of insects and provides useful suggestions for robotic odor-tracking. Furthermore, these manipulations are non-invasive ways to alter the sensory-motor relationship of a pilot insect and will be a useful technique for understanding adaptive behaviors.

The capability to localize an odor source is necessary for insect survival and is expected to be applicable to artificial odor-tracking. The insect-controlled robot is driven by an actual silkmoth and enables us to evaluate the odor-tracking capability of insects through a robotic platform.

Robotic odor source localization has been a challenging area and one to which biological knowledge has been expected to contribute, as finding odor ...

Experimental Models to Study the Neuroprotection of Acidic Postconditioning Against Cerebral Ischemia

Stroke is one of the leading causes of mortality and disability worldwide, with limited therapeutic approaches. As an endogenous strategy for neuroprotection, postconditioning treatments have proven to be promising therapies against cerebral ischemia. However, complicated procedures and potential safety issues limit their clinical application. To overcome these disadvantages, we have developed acidic postconditioning (APC) as a therapy for experimental focal cerebral ischemia. APC refers to the mild acidosis treatment by inhaling CO2 during reperfusion following ischemia. Here we present two models to execute APC in vitro and in vivo, respectively. The oxygen-glucose deprivation (OGD) treatment of mice and the corticostriatal occlusion and middle cerebral artery occlusion (MCAO) of mice were employed to mimic cerebral ischemia. APC can be simply achieved by transferring brain slices to acidic buffer bubbled with 20% CO2, or by mice inhaling 20% CO2. APC showed significant protective effects against cerebral ischemia, as reflected by tissue viability and brain infarct volume.

Acidic postconditioning protects against cerebral ischemia. Here we present two models to execute APC. They are achieved respectively by transferring corticostriatal slices to acidic buffer after oxygen-glucose deprivation in vitro and by inhaling 20% CO2 after middle cerebral artery occlusion in vivo.

Stroke is one of the leading causes of mortality and disability worldwide, with limited therapeutic approaches. As an endogenous strategy for ...

Using Zebrafish Larvae to Study the Pathological Consequences of Hemorrhagic Stroke

Despite being the most severe subtype of stroke with high global mortality, there is no specific treatment for patients with intracerebral hemorrhage (ICH). Modelling ICH pre-clinically has proven difficult, and current rodent models poorly recapitulate the spontaneous nature of human ICH. Therefore, there is an urgent requirement for alternative pre-clinical methodologies for study of disease mechanisms in ICH and for potential drug discovery.
The use of zebrafish represents an increasingly popular approach for translational research, primarily due to a number of advantages they possess over mammalian models of disease, including prolific reproduction rates and larval transparency allowing for live imaging. Other groups have established that zebrafish larvae can exhibit spontaneous ICH following genetic or chemical disruption of cerebrovascular development. The aim of this methodology is to utilize such models to study the pathological consequences of brain hemorrhage, in the context of pre-clinical ICH research. By using live imaging and motility assays, brain damage, neuroinflammation and locomotor function following ICH can be assessed and quantified.
This study shows that key pathological consequences of brain hemorrhage in humans are conserved in zebrafish larvae highlighting the model organism as a valuable in vivo&#160;system for pre-clinical investigation of ICH. The aim of this methodology is to enable the pre-clinical stroke community to employ the zebrafish larval model as an alternative complementary model system to rodents.

Here we present a protocol to quantify brain injury, locomotor deficits and neuroinflammation following bleeding in the brain in zebrafish larvae, in the context of human intracerebral hemorrhage (ICH).

Despite being the most severe subtype of stroke with high global mortality, there is no specific treatment for patients with intracerebral hemorrhage ...

Using Neuron Spiking Activity to Trigger Closed-Loop Stimuli in Neurophysiological Experiments

Closed-loop neurophysiological systems use patterns of neuronal activity to trigger stimuli, which in turn affect brain activity. Such closed-loop systems are already found in clinical applications, and are important tools for basic brain research. A particularly interesting recent development is the integration of closed-loop approaches with optogenetics, such that specific patterns of neuronal activity can trigger optical stimulation of selected neuronal groups. However, setting up an electrophysiological system for closed-loop experiments can be difficult. Here, a ready-to-apply Matlab code is provided for triggering stimuli based on the activity of single or multiple neurons. This sample code can be easily modified based on individual needs. For instance, it shows how to trigger sound stimuli and how to change it to trigger an external device connected to a PC serial port. The presented protocol is designed to work with a popular neuronal recording system for animal studies (Neuralynx). The implementation of closed-loop stimulation is demonstrated in an awake rat.

This protocol demonstrates how to use an electrophysiological system for closed-loop stimulation triggered by neuronal activity patterns. Sample Matlab code that can be easily modified for different stimulation devices is also provided.

Closed-loop neurophysiological systems use patterns of neuronal activity to trigger stimuli, which in turn affect brain activity. Such closed-loop systems ...

Serial Block-Face Scanning Electron Microscopy (SBEM) for the Study of Dendritic Spines

Three-dimensional electron microscopy (3D EM) gives a possibility to analyze morphological parameters of dendritic spines with nanoscale resolution. In addition, some features of dendritic spines, such as volume of the spine and post-synaptic density (PSD) (representing post-synaptic part of the synapse), presence of presynaptic terminal, and smooth endoplasmic reticulum or atypical form of PSD (e.g., multi-innervated spines), can be observed only with 3D EM. By employing serial block-face scanning electron microscopy (SBEM) it is possible to obtain 3D EM data easier and in a more reproducible manner than when performing traditional serial sectioning. Here we show how to prepare mouse hippocampal samples for SBEM analysis and how this protocol can be combined with immunofluorescence study of dendritic spines. Mild fixation perfusion allows us to perform immunofluorescence studies with light microscopy on one half of the brain, while the other half was prepared for SBEM. This approach reduces the number of animals to be used for the study.

Serial Block-Face Scanning Electron Microscopy SBEM for the Study of Dendritic Spines

Serial Block-Face Scanning Electron Microscopy (SBEM) is applied to image and analyze dendritic spines in the murine hippocampus.

Three-dimensional electron microscopy (3D EM) gives a possibility to analyze morphological parameters of dendritic spines with nanoscale resolution. In ...