We thank Prof. Yuri Korchev (Imperial College, UK) for the long-term support and advice throughout all stages of the project. We also thank Drs. Pavel Novak and Andrew Shevchuk (Imperial College, UK) as well as Oleg Belov (National Research Centre for Audiology, Russia) for their help with software development. The study was supported by NIDCD/NIH (R01 DC008861 and R01 DC014658 to G.I.F.).

The study was performed in accordance with the recommendations in the Guide for the Care and Use of Laboratory Animals of the National Institutes of Health. All animal procedures were approved by the Institutional Animal Care and Use Committee (IACUC) at the University of Kentucky (protocol 00903M2005).
1.&#160;Manufacturing and testing the nanopipettes
<ol>
	<li>Create a program in the micropipette puller to obtain pipettes with a resistance between 200 and 400 M&#8486;, wh...

<ol>
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V., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Serial+scanning+electron+microscopy+of+anti-PKHD1L1+immuno-gold+labeled+mouse+hair+cell+stereocilia+bundles.">Serial scanning electron microscopy of anti-PKHD1L1 immuno-gold labeled mouse hair cell stereocilia bundles.</a> Scientific Data. 7 (1), 182 (2020).</li><li>Hadi, S., Alexander, A. J., V&#233;lez-Ortega, A. C., Frolenkov, G. 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G., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Mechanical+stimulation+of+individual+stereocilia+of+living+cochlear+hair+cells+by+atomic+force+microscopy.">Mechanical stimulation of individual stereocilia of living cochlear hair cells by atomic force microscopy.</a> Ultramicroscopy. 82 (1-4), 269-278 (2000).</li><li>Dufr&#234;ne, Y. F. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Towards+nanomicrobiology+using+atomic+force+microscopy.">Towards nanomicrobiology using atomic force microscopy.</a> Nature Reviews Microbiology. 6 (9), 674-680 (2008).</li><li>Putman, C. A., van der Werf, K. O., de Grooth, B. G., van Hulst, N. F., Greve, J. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Viscoelasticity+of+living+cells+allows+high+resolution+imaging+by+tapping+mode+atomic+force+microscopy.">Viscoelasticity of living cells allows high resolution imaging by tapping mode atomic force microscopy.</a> Biophysical journal. 67 (4), 1749-1753 (1994).</li><li>Gavara, N., Chadwick, R. S. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Noncontact+microrheology+at+acoustic+frequencies+using+frequency-modulated+atomic+force+microscopy.">Noncontact microrheology at acoustic frequencies using frequency-modulated atomic force microscopy.</a> Nature Methods. 7 (8), 650-654 (2010).</li><li>Cartagena-Rivera, A. X., Van Itallie, C. M., Anderson, J. M., Chadwick, R. 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To obtain successful HPICM images, users need to establish a low noise and low vibration system and manufacture appropriate pipettes. We strongly recommend the use of AFM calibration standards to test the stability of the system before attempting to perform any live cell imaging. Once the resolution of the system is tested, users can consider imaging fixed organ of Corti samples to get familiar with the imaging settings before attempting any live cell imaging.
The optimal setpoint for imaging ...

Despite the fact that stereocilia bundles in the auditory hair cells are big enough to be visualized by optical microscopy and deflected in live cells in a patch clamp experiment, the essential structural components of the transduction machinery such as tip links could be imaged only with the electron microscopy in dead cells. In the mammalian auditory hair cells, the transduction machinery is located at the lower ends of the tip links, i.e., at the tips of the shorter row stereocilia1 and regulated locally through the signaling at the tips of stereocilia2,3. Yet, label-free imaging of the surface structures at this location in live hair cells is not possible due to the small sizes of stereocilia.
The mammalian cochlea has two types of auditory sensory cells: inner and outer hair cells. In the inner hair cells, stereocilia are longer and thicker compared to those in the outer hair cells4. The first and second row of stereocilia have a diameter of 300-500 nm in mouse or rat inner hair cells. Due to the diffraction of light, the maximum resolution achievable with a label-free optical microscopy is approximately 200 nm. Hence, visualization of individual stereocilia within first and second rows of the inner hair cell bundle is relatively easy&#160;with optical microscopy. In contrast, shorter row stereocilia in the inner hair cells and all stereocilia of the outer hair cells have diameters around 100-200 nm and cannot be visualized with optical microscopy5. Despite recent progress in super-resolution imaging, this fundamental limitation persists in any optical label-free imaging. All current commercially available super-resolution techniques do require some sort of fluorescent molecules6, which limits their applications. In addition to limitations due to the need for specific fluorescently tagged molecules, exposure to intense light irradiation has been shown to induce cellular damage and might influence cellular processes, which is a great disadvantage when studying live cells7.
Our current knowledge of the ultrastructural details of hair cell stereocilia bundles has been obtained mostly with various electron microscopy (EM) techniques, such as scanning electron microscopy (SEM), transmission electron microscopy (TEM), freeze-fracture EM, and recently with 3D techniques such as serial sectioning with focused ion beam or cryo-EM tomography8,9,10,11,12,13,14,15,16. Unfortunately, all these EM techniques require chemical or cryofixation of the sample. Depending on the time scale of the phenomena, this requirement makes a study of the dynamic processes at the tips of stereocilia either impossible or very labor intensive.
Limited efforts have been made to image hair bundles of live hair cells with atomic force microscopy (AFM)17,18. Since AFM operates in physiological solutions, it could, in theory, visualize dynamic changes in the stereocilia bundles of live hair cells over time. The problem lies in the principles of high-resolution AFM, which implies certain physical contact between the AFM probe and the sample, even in the least damaging &#34;tapping&#34; mode19. When the AFM probe encounters a stereocilium, it usually crashes against it, damaging the structure of the hair bundle. As a result, this technique is not suitable for visualizing live, or even fixed, hair cells bundles17,18. The problem may be partially alleviated by using a large ball-shaped AFM probe that imposes only hydrodynamic forces to the surface of the sample20. However, even though such a probe is ideally suited to test mechanical properties of the sample21, it provides only a sub-micrometer resolution when imaging the organ of Corti22 and still applies to the sample a force that may be substantial for the highly sensitive stereocilia bundles.
Scanning ion conductance microscopy (SICM) is a version of scanning probe microscopy that uses a glass pipette probe filled with a conductive solution23. SICM detects the surface when the pipette approaches the cell and the electric current through the pipette decreases. Since this is happening well before touching the cell, the SICM is ideally suited for non-contact imaging of live cells in physiological solution24. The best resolution of SICM is on the order of single nanometers, which allows resolving individual protein complexes at the plasma membrane of a living cell25. However, similar to other scanning probe techniques, SICM is able to image only relatively flat surfaces. We overcame this limitation by inventing hopping probe ion conductance microscope (HPICM)26, in which the nanopipette approaches the sample at each imaging point (Figure 1A). Using HPICM, we were able to image stereocilia bundles in live auditory hair cells with nanoscale resolution27.
Another fundamental advantage of this technique is that HPICM is not only an imaging tool. In contrast to other scanning probe techniques, the HPICM/SICM probe is an electrode widely used in cell physiology for electrical recordings and local delivery of various stimuli. Ion channel activity does not usually interfere with HPICM imaging, because the total current through the HPICM probe is several orders of magnitude larger than the extracellular current generated by the largest ion channels25. However, HPICM allows precise positioning of the nanopipette over a structure of interest and subsequent single-channel patch-clamp recording from this structure28. This is how we obtained the first preliminary recordings of single channel activity at the tips of the outer hair cell stereocilia29. It is worth mentioning that even a large current through the nanopipette cannot produce significant changes of the potential across the plasma membrane due to enormous electrical shunt of the extracellular medium. However, individual ion channels can be activated mechanically by flow of liquid through the nanopipette30 or chemically by local application of an agonist31.
In HPICM, the image is generated when a nanopipette sequentially approaches the sample at one point, retracts, and then moves in lateral direction to repeat the approach (Figure 1A). A patch clamp amplifier constantly applies voltage to an AgCl wire in the pipette (Figure 1B) to generate a current of ~1 nA in the bath solution. The value of this current when the pipette is away from the surface of the cell is determined as a reference current (Iref, Figure 1C). Then, the pipette moves in the Z axis to approach the sample until the current is reduced by an amount predefined by the user (setpoint), usually 0.2%-1% of the Iref (Figure 1C, top trace). The system then saves Z value at this moment as the height of the sample, together with X and Y coordinates of this imaging point. Then, the pipette is retracted away from the surface (Figure 1C, bottom trace) at a speed defined by the user, usually 700-900 nm/ms. After retraction, the pipette (or, in our case, the sample - see Figure 1B) is moved laterally to the next imaging point, a new reference current value is obtained, and the pipette once again approaches the sample, repeating the process. The X-Y movement of the pipette is preferred in an upright microscope setup that is typically used for recordings of the hair cell mechanotransduction currents. In this setting, the HPICM probe approaches the hair cell bundles not from the top but at an angle32. However, the best resolution of HPICM imaging is achieved in an inverted microscope setup (Figure 1A,B), where the movement of the sample in X-Y directions is de-coupled from Z-movement of the nanopipette, thereby eliminating potential mechanical artefacts.
Using HPICM, we obtained topographic images of mouse and rat inner and outer hair cell stereocilia bundles, and even visualized the links between the stereocilia that are about 5 nm in diameter26,27. The success of hair cell bundle imaging with this technique relies on several factors. First, the noise (variance) of the nanopipette current should be as small as possible to allow the lowest possible setpoint for HPICM imaging. A low setpoint allows HPICM probe to &#8220;sense&#8221; stereocilia surface at a larger distance and at any angle to the probe approach and, surprisingly, improves X-Y resolution of HPICM imaging (see Discussion). Second, the vibrations and drifts in the system should be decreased to less than 10 nm, since they contribute directly to the imaging artefacts. Finally, even though the HPICM probe and the specimen stage are moved in Z and X-Y axes by the calibrated feedback-controlled piezo actuators that have an accuracy of a single nanometer or better, the diameter of the nanopipette tip determines the spread of the current (sensing volume) and hence the resolution (Figure 1A). Therefore, before imaging live hair cells, it is vital to pull the adequate pipettes, reach the desired resolution with calibration samples, and achieve low noise in the recording system.
For at least a couple of decades, the SICM technique has not been commercially available and it has been developing by only few labs in the world with the leading lab of Prof. Korchev in the Imperial College (UK). Recently, several SICM systems became commercially available (see Table of Materials), all of which are based on the original HPICM principles. However, imaging stereocilia bundles in the hair cells requires several custom modifications that are technically challenging (or even impossible) in the closed &#8220;ready-to-go&#8221; systems. Therefore, some component integration is needed. Since HPICM setup represents a patch clamp rig with more stringent vibration and drift requirements and a piezo-driven movement of the HPICM probe and the sample (Figure 1D), this integration is relatively easy for any researcher, who is proficient in patch clamping. However, a scientist without proper background would definitely need some training in electrophysiology first. Despite remaining challenges such as increasing the speed of imaging (see Discussion), we have been able to image stereocilia bundles in live hair cells with nanoscale resolution without damaging them.&#160;
This paper presents a detailed protocol to perform successful HPICM imaging of the live auditory hair cell bundles in young postnatal rat or mouse cochlear explants using our custom system. The integrated components are listed in the Table of Materials. The paper also describes common problems that can be encountered and how to troubleshoot them.

<table border="1" fo:keep-together.within-page="1" fo:keep-with-next.within-page="always">
	<tbody>
		<tr>
			<td>Analog oscilloscope</td>
			<td>B&#38;K Precision</td>
			<td>2160C</td>
			<td>Analog oscilloscope for real-time monitoring of nanopipette current and Z-axis approach</td>
		</tr>
		<tr>
			<td>AFM calibration standards</td>
			<td>TED PELLA Inc</td>
			<td>HS-100MG; HS-20MG</td>
			<td>These 100 and 20 nm calibration standards are used to test the performance of HPICM system</td>
		</tr>
		<tr>
			<td>Benchtop vibration Isolator</td>
			<td>AMETEK/TMC</td>
			<td>Everstill K-400</td>
			<td>Active vibration isolation</td>
		</tr>
		<tr>
			<td>Borosilicate glass capillaries</td>
			<td>World Precision Instruments (WPI)</td>
			<td>1B100F-4</td>
			<td>Borosilicate glass capillaries for the nanopipettes</td>
		</tr>
		<tr>
			<td>D-(+)-Glucose</td>
			<td>Sigma-Aldrich</td>
			<td>G8270</td>
			<td>To be added to the bath solution to adjust osmolarity</td>
		</tr>
		<tr>
			<td>Digitizer</td>
			<td>National Instruments Corporation</td>
			<td>PCI-6221</td>
			<td>Multi-channel input/output digitizer</td>
		</tr>
		<tr>
			<td>Fast analog Proportional-Integral-Derivative (PID) control for Z movement</td>
			<td>Standford Research Systems</td>
			<td>SIM900, SIM960, SIM980</td>
			<td>Instrumentation modules integrated in an external PID controller for Z movement. It requires a fast response that is usually not implemented in commercial piezo amplifiers.</td>
		</tr>
		<tr>
			<td>Faraday cage</td>
			<td>AMETEK/TMC</td>
			<td>Type II</td>
			<td>Required to shield electromagnetic interference</td>
		</tr>
		<tr>
			<td>Glass bottom dish</td>
			<td>World Precision Instruments (WPI)</td>
			<td>FD5040-100</td>
			<td>Used as the dish for the chamber for the tissue</td>
		</tr>
		<tr>
			<td>Hanks&#39; Balanced Salt Solution (HBSS)</td>
			<td>Gibco, Thermo Fisher Scientific</td>
			<td>14025092</td>
			<td>Extracellular (bath) solution</td>
		</tr>
		<tr>
			<td>Instrumentation amplifier</td>
			<td>Brownlee Precision</td>
			<td>Model 440</td>
			<td>Instrumentation amplifier provides required offsets, filtering, and secondary magnification or attenuation</td>
		</tr>
		<tr>
			<td>Laser-based micropipette puller</td>
			<td>Sutter Instrument</td>
			<td>P-2000/G</td>
			<td>Micropipette puller to fabricate the nanopipettes. Laser is needed for sharp quartz pipettes.</td>
		</tr>
		<tr>
			<td>Lebovitz&#39;s L-15, without phenol red</td>
			<td>Gibco, Thermo Fisher Scientific</td>
			<td>21083027</td>
			<td>Extracellular (bath) solution</td>
		</tr>
		<tr>
			<td>Micromanipulator</td>
			<td>Scientifica</td>
			<td>PatchStar</td>
			<td>Used for &#34;course&#34; positioning of the Z piezo actuator</td>
		</tr>
		<tr>
			<td>Microscope</td>
			<td>Nikon</td>
			<td>Eclipse TS100</td>
			<td>Inverted optical microscope</td>
		</tr>
		<tr>
			<td>Patch amplifier</td>
			<td>Molecular Devices</td>
			<td>Axopatch 200B</td>
			<td>The patch clamp amplifier measures the current through the nanopipette</td>
		</tr>
		<tr>
			<td>Piezo amplifier (XY axes)</td>
			<td>Physik Instrumente (PI)</td>
			<td>E-500.00, E-505.00, E-509.C2A</td>
			<td>Amplification and PID control for XY piezo translation stage</td>
		</tr>
		<tr>
			<td>Piezo amplifier (Z axis)</td>
			<td>Piezosystem jena</td>
			<td>ENT 400 &#38; 800</td>
			<td>Custom amplifier consisting of ENT 400 power supply and two ENT 800 amplifiers in parallel to achieve max current of 1.6 nA</td>
		</tr>
		<tr>
			<td>Plastic Coverslips</td>
			<td>TED PELLA Inc</td>
			<td>26028</td>
			<td>Used in the fabrication of the chambers for the tissue&#160;</td>
		</tr>
		<tr>
			<td>SICM controller &#38; software*</td>
			<td>Ionscope, UK (ionscope.com)</td>
			<td>N/A</td>
			<td>Custom controller based on SBC6711 digital signal processing board from Innovative Integration Ltd</td>
		</tr>
		<tr>
			<td>Silicone elastomer (Sylgard)</td>
			<td>World Precision Instruments (WPI)</td>
			<td>SYLG184</td>
			<td>Used to attach the flexible glass fibers to the chamber for the tissue</td>
		</tr>
		<tr>
			<td>Silicon glue</td>
			<td>The Dow Chemical Company</td>
			<td>734</td>
			<td>Used to glue the different parts of the chamber for the tissue</td>
		</tr>
		<tr>
			<td>Tungsten rod</td>
			<td>A-M Systems</td>
			<td>717500</td>
			<td>Used for holding the dental floss strands in the chamber for the tissue</td>
		</tr>
		<tr>
			<td>XY piezo nanopositioner</td>
			<td>Physik Instrumente (PI)</td>
			<td>P-733.2DD</td>
			<td>XY translation stage with capacitive sensors</td>
		</tr>
		<tr>
			<td>Z piezo nanopositioner</td>
			<td>Piezosystem jena</td>
			<td>RA 12/24 SG</td>
			<td>Ring piezoactuator with a strain gage sensor</td>
		</tr>
		<tr>
			<td colspan="4">*Ionscope does not sell separate SICM controllers anymore. There are few other commercial systems:&#160; NX12-Bio and NX10 SICM,&#160;</td>
		</tr>
		<tr>
			<td colspan="4">Park Systems, Korea and SICM modules from ICAPPIC Limited, UK (icappic.com). All these systems are based on the original&#160;</td>
		</tr>
		<tr>
			<td colspan="4">HPICM principles. However, imaging stereocilia bundles in the hair cells requires several custom modifications that are technically&#160;</td>
		</tr>
		<tr>
			<td colspan="4">challenging (or even impossible) in the closed &#8220;ready-to-go&#8221; systems such as Ionscope or NX12-Bio/NX10. Currently, there is only one&#160;</td>
		</tr>
		<tr>
			<td colspan="4">modular system (ICAPPIC) that has the flexibility to suit any SICM/HPICM experiment but requires some component integration.&#160;</td>
		</tr>
	</tbody>
</table>

stereocilia bundle imaging with nanoscale resolution in live mammalian auditory hair cells

Inner ear hair cells detect sound-induced displacements and transduce these stimuli into electrical signals in a hair bundle that consists of stereocilia that are arranged in rows of increasing height. When stereocilia are deflected, they tug on tiny (~5 nm in diameter) extracellular tip links interconnecting stereocilia, which convey forces to the mechanosensitive transduction channels. Although mechanotransduction has been studied in live hair cells for decades, the functionally important ultrastructural details of the mechanotransduction machinery at the tips of stereocilia (such as tip link dynamics or transduction-dependent stereocilia remodeling) can still be studied only in dead cells with electron microscopy. Theoretically, scanning probe techniques, such as atomic force microscopy, have enough resolution to visualize the surface of stereocilia. However, independent of imaging mode, even the slightest contact of the atomic force microscopy probe with the stereocilia bundle usually damages the bundle. Here we present a detailed protocol for the hopping probe ion conductance microscopy (HPICM) imaging of live rodent auditory hair cells. This non-contact scanning probe technique allows time lapse imaging of the surface of live cells with a complex topography, like hair cells, with single nanometers resolution and without making physical contact with the sample. The HPICM uses an electrical current passing through the glass nanopipette to detect the cell surface in close vicinity to the pipette, while a 3D-positioning piezoelectric system scans the surface and generates its image. With HPICM, we were able to image stereocilia bundles and the links interconnecting stereocilia in live auditory hair cells for several hours without noticeable damage. We anticipate that the use of HPICM will allow direct exploration of ultrastructural changes in the stereocilia of live hair cells for better understanding of their function.

The protocol presented in this paper can be used to visualize any live cells with complex topography. Following these steps, we routinely obtain images of live rat auditory hair cell bundles (Figure 6B,D). In spite of having lower X-Y resolution when compared to SEM images, our HPICM images can successfully resolve the different rows of stereocilia, the shape of the stereocilia tips, and even the small links (~5 nm in diameter) connecting adjacent stereocilia (<strong class=...

Watch this Scientific Journal Video about Stereocilia Bundle Imaging with Nanoscale Resolution in Live Mammalian Auditory Hair Cells at JoVE.com

Stereocilia Bundle Imaging with Nanoscale Resolution in Live Mammalian Auditory Hair Cells

Here we present a protocol for the Hopping Probe Ion Conductance Microscopy (HPICM), a non-contact scanning probe technique that allows nanoscale imaging of stereocilia bundles in live auditory hair cells.

Inner ear hair cells detect sound-induced displacements and transduce these stimuli into electrical signals in a hair bundle that consists of stereocilia ...

This practical can help us study dynamic changes of the nano structural components of the mechanical electrical transduction machinery at the surface of the hair cell stereocilia bundles. The main advantage of this technique is the time-lapse imaging of the surface of living cells with complex topography at single nanometer resolution, and without making physical contact with the sample. This technique can be applied to nearly any living cell.We previously matched the surface of lung epithelial cell lines infected with viruses, muscle cells, in My Image Bacteria Soon. Test the nanopipettes at the beginning of each imaging session. After fabricating a nanopipette, check for bubbles, remove any bubbles if present, and mount the nanopipette onto the hopping probe ion conductance microscope pipette holder.At four milliliters of bath solution to the chamber and place the chamber onto the HPICM stage. Introduce the ground electrode to the bath solution and make sure that the voltage being applied to the pipette through the patch clamp amplifier is zero. After placing the micro manipulator in the vertical position, move the pipette in Z until it touches the liquid and set the amplifier offset to zero, before adding plus 100 millivolts to check the pipette current.Use silicon glue to attach the AFM calibration standard to the chamber and cover the sample with four milliliters of HBSS. Use double-sided tape to secure the chamber to the X Y stage of the HPICM setup, and load a new nanopipette onto the holder as demonstrated. After testing the nanopipette resistance and diameter, set the current to one nano amp.Use a coarse patch clamp manipulator to position the nanopipette approximately above the center of the calibration standard and increase the set point while monitoring the signal from the sensor of the Z piezo actuator on an oscilloscope in real time. After establishing a stable repeatable Z approach cycle, decrease the set point to the value just above the point of instability and move the pipette down at a speed of approximately five microns per second, until it reaches the sample. The bottom level of the real-time Z positioning signal will increase, indicating that the nanopipette is withdrawn due to sensing the sample surface.Due to uneven mounting on the AFM standard, the highest point of the area of interest may be unknown. Therefore, set the amplitude of the pipette retraction to at least 200 to 500 nanometers. Taking care not to exceed the upper limit of the Z piezo actuator movement, begin imaging at low resolution.Once the highest point of the sample in the imaging area has been identified, decrease the hop amplitude and retract the pipette about 200 microns along the Z axis to prevent any undesired collision with the sample before moving it to a new X Y location. When the area of interest has been located, begin imaging at a higher resolution. For auditory hair cell imaging, firmly secure a freshly isolated organ of Corti to a chamber using either dental floss, or flexible glass pipettes.Use double-sided tape to firmly secure the chamber to the X Y piezo stage and load a new nanopipette onto the holder as demonstrated. After checking the nanopipette resistance, use the patch clamp micro manipulator to position the nanopipette over the hair cell region while observing the organ of Corti X plant in an inverted microscope. Record, the real-time current and Z positioning signal on the oscilloscope to check if the system is stable with a set point of 0.5%6or lower, and determine the optimal set point and approach the sample as demonstrated.Perform low resolution imaging of the sample as demonstrated using a hop amplitude of at least six to eight microns. If the nanopipette needs to moved to a new X Y location, retract the pipette about 500 nanometers to avoid a collision with any tall features within the tissue and repeat the low resolution HPICM imaging until the region of interest where the hair cells is located. Then image the region of interest at a higher resolution in 15 minutes or less.The HPICM protocol can be used to visualize any live cells with a complex topography, such as live rat auditory hair cell bundles. Despite demonstrating a lower X Y resolution compared to scanning electron microscopy images, HPICM images can successfully resolve the different rows of stereocilia. The shape of the stereocilia tips and even the small five nanometer links connecting the adjacent stereocilia.Given the non-contact nature of HPICM imaging, continuous time-lapse imaging of the same hair cell bundle can be performed for several hours without damaging the bundle cohesiveness. Note that with a very low set point, the system might interpret small fluctuations in the current as encountering the cell surface, leading to white dot noise in the image. Similarly, large hop amplitudes might increase the lateral resonance of the pipette, also resulting in the production of noisy pixels.In contrast, if the hop amplitude is too small, or the setpoint is too high, the nanopipette might collide with the sample resulting in imaging artifacts or hair bundle damage. The most important thing to remember when attempting this procedure is to spend less than 15 minutes per hair cell bundle when working with live cells. After getting an image of the hair bundle, one could attempt to obtain single channel recordings from specific locations on the surface of stereocilia to answer questions about mechanotransduction channel properties.

stereocilia-bundle-imaging-with-nanoscale-resolution-live-mammalian

Research

JoVE Journal

Neuroscience

3.0K ビュー.  University of Kentucky. この実用的な研究は、ヘアセルステレオチリアバンドルの表面における機械的電気伝達機構のナノ構造成分の動的変化を研究するのに役立ちます。この技術の主な利点は、単一のナノメートル解像度で、サンプルと物理的に接触することなく、複雑な地形を有する生細胞の表面のタイムラプスイメージングである。この技術は、ほぼすべての生きた細胞に適用すること?...

ビデオ: Stereocilia Bundle Imaging with Nanoscale Resolution in Live Mammalian Auditory Hair Cells

Here we present a protocol for the Hopping Probe Ion Conductance Microscopy (HPICM), a non-contact scanning probe technique that allows nanoscale imaging of stereocilia bundles in live auditory hair...

enzymatic disaggregation of the auditory epithelium to obtain auditory hair cells

Enzymatic Disaggregation of the Auditory Epithelium to Obtain Auditory Hair Cells  

ground state depletion super-resolution imaging in mammalian cells

Ground State Depletion Super-resolution Imaging in Mammalian Cells

This article outlines a protocol for the detection of one or more plasma and/or intracellular membrane proteins using Ground State Depletion (GSD) super-resolution microscopy in mammalian cells. Here, we discuss the benefits and considerations of using such approaches for the visualization and quantification of cellular...

isolation and culture of primary cochlear hair cells from neonatal mice

Author Spotlight: Advancements in Cultivating Mouse Hair Cells for Auditory Research 

Herein, we present a detailed protocol for isolating and culturing primary cochlear hair cells from mice. Initially, the organ of Corti was dissected from neonatal (aged 3-5 days) murine cochleae under a microscope. Subsequently, cells were enzymatically digested into a single-cell suspension and identified using immunofluorescence after several days in culture.

Efficient In Vitro Cultivation of Mouse Cochlear Hair Cells

https://cloudfront.jove.com/CDNSource/teasers/65687_b.jpg

dextran labeling and uptake in live and functional murine cochlear hair cells

Dextran Labeling and Uptake in Live and Functional Murine Cochlear Hair Cells

Here, we present a method for visualizing the uptake of 3 kDa Texas Red-labeled dextran in auditory hair cells with functional mechanotransduction channels. In addition, dextrans of 3&#8211;10 kDa can be used to study endocytosis in hair and supporting cells of the organ of...

in vivo calcium imaging of lateral-line hair cells in larval zebrafish

In Vivo Calcium Imaging of Lateral-line Hair Cells in Larval Zebrafish

The zebrafish is a model system that has many valuable features including optical clarity, rapid external development, and, of particular importance to the field of hearing and balance, externally located sensory hair cells. This article outlines how transgenic zebrafish can be used to assay both hair-cell mechanosensation and presynaptic function in...

high-resolution imaging of nuclear dynamics in live cells under uniaxial tensile strain

High-resolution Imaging of Nuclear Dynamics in Live Cells under Uniaxial Tensile Strain

Using a previously designed device to apply mechanical strain to adherent cells, this paper describes a redesigned substratum geometry and a customized apparatus for high-resolution single-cell imaging of strained cells with a 100x oil immersion...

working with auditory hei-oc1 cells

Working with Auditory HEI-OC1 Cells

House Ear Institute-Organ of Corti 1 (HEI-OC1) is one of the few mouse auditory cell lines currently available for research purposes. This protocol describes how to work with HEI-OC1 cells to investigate the cytotoxic effects of pharmacological drugs as well as functional properties of inner ear...

functional magnetic resonance imaging (fmri) with auditory stimulation in songbirds

Functional Magnetic Resonance Imaging fMRI with Auditory Stimulation in Songbirds

This article shows an optimized procedure for imaging of the neural substrates of auditory stimulation in the songbird brain using functional Magnetic Resonance Imaging (fMRI). It describes the preparation of the sound stimuli, the positioning of the subject and the acquisition and subsequent analysis of the fMRI...

Functional Magnetic Resonance Imaging (fMRI) with Auditory Stimulation in Songbirds

imaging local ca2+ signals in cultured mammalian cells

Imaging Local Ca2+ Signals in Cultured Mammalian Cells

Here we present techniques for imaging local IP3-mediated Ca2+ events using fluorescence microscopy in intact mammalian cells loaded with Ca2+ indicators together with an algorithm that automates identification and analysis of these...

Imaging Local Ca2+ Signals in Cultured Mammalian Cells

high-resolution live imaging of cell behavior in the developing neuroepithelium

High-resolution Live Imaging of Cell Behavior in the Developing Neuroepithelium

Imaging embryonic tissue in real-time is challenging over long periods of time. Here we present an assay for monitoring cellular and sub-cellular changes in chick spinal cord for long periods with high spatial and temporal resolution. This technique can be adapted for other regions of the nervous system and developing...

super-resolution live cell imaging of subcellular structures

Super-Resolution Live Cell Imaging of Subcellular Structures

Presented here is a protocol for super-resolution live-cell imaging in intact tissue. We have standardized the conditions for imaging a highly sensitive adult stem cell population in its native tissue environment. This technique involves balancing temporal and spatial resolution to allow for the direct observation of biological phenomena in live...

auditory brainstem response and outer hair cell whole-cell patch clamp recording in postnatal rats

Auditory Brainstem Response and Outer Hair Cell Whole-cell Patch Clamp Recording in Postnatal Rats

This protocol describes methods to record the auditory brainstem response from postnatal rat pups. To examine the functional development of outer hair cells, the experimental procedure of whole-cell patch clamp recording in isolated outer hair cells is described...

mucociliary epithelial organoids from xenopus embryonic cells: generation, culture and high-resolution live imaging

Mucociliary Epithelial Organoids from Xenopus Embryonic Cells: Generation, Culture and High-Resolution Live Imaging

We describe a simple protocol to develop mucociliary epithelial organoids from deep ectoderm cells isolated from Xenopus laevis embryos. The multipotent progenitors regenerate epithelial goblet cell precursors and allow live tracking of the initiation and progression of the cell transitions on the surface of...

monitoring plasmid replication in live mammalian cells over multiple generations by fluorescence microscopy

Monitoring Plasmid Replication in Live Mammalian Cells over Multiple Generations by Fluorescence Microscopy

A method of observing individual DNA molecules in live cells is described. The technique is based on the binding of a fluorescently tagged lac repressor protein to binding sites engineered into the DNA of interest. This method can be adapted to follow many recombinant DNAs in live cells over...

multi-color localization microscopy of single membrane proteins in organelles of live mammalian cells

Multi-color Localization Microscopy of Single Membrane Proteins in Organelles of Live Mammalian Cells

Here, we present a protocol for multi-color localization of single membrane proteins in organelles of live cells. To attach fluorophores, self-labeling proteins are used. Proteins, located in different membranes compartments of the same organelle, can be localized with a precision of ~18...

4d imaging of protein aggregation in live cells

4D Imaging of Protein Aggregation in Live Cells

Cellular viability depends on timely and efficient management of protein misfolding.  Here we describe a method for visualizing the different potential fates of a misfolded protein:  refolding, degradation, or sequestration in inclusions. We demonstrate the use of a folding sensor, Ubc9ts, for monitoring proteostasis and aggregation quality control in live cells using 4D...

cell death associated with abnormal mitosis observed by confocal imaging in live cancer cells

Cell Death Associated with Abnormal Mitosis Observed by Confocal Imaging in Live Cancer Cells

The cytotoxic activity of the phenanthridine PJ-34 in cancer cells undergoing mitosis was documented in real time by live confocal imaging. PJ-34 eradicated human breast cancer MDA-MB-231 cells harboring extra-centrosomes in mitosis. Unlike normal bi-focal mitosis, the extra-centrosomes were not clustered in the two spindle poles in the presence of...

single-cell resolution fluorescence live imaging of drosophila circadian clocks in larval brain culture

Single-cell Resolution Fluorescence Live Imaging of Drosophila Circadian Clocks in Larval Brain Culture

The goal of this protocol is to establish ex vivo Drosophila larval brain culture optimized to monitor circadian molecular rhythms with long-term fluorescence time-lapse imaging. The application of this method to pharmacological assays is also...

Single-cell Resolution Fluorescence Live Imaging of Drosophila Circadian Clocks in Larval Brain Culture

sub-nanometer resolution imaging with amplitude-modulation atomic force microscopy in liquid

Sub-nanometer Resolution Imaging with Amplitude-modulation Atomic Force Microscopy in Liquid

We present a method for achieving sub-nanometer resolution images with amplitude-modulation (tapping mode) atomic force microscopy in liquid. The method is demonstrated on commercial atomic force microscopes. We explain the rationale behind our choices of parameters and suggest strategies for resolution...

Live-imaging of PKC Translocation in Sf9 Cells and in Aplysia Sensory Neurons

Protein kinase Cs (PKCs) are serine threonine kinases that play a central role in regulating a wide variety of cellular processes such as cell growth and learning and memory. There are four known families of PKC isoforms in vertebrates: classical PKCs (&alpha;, &beta;I, &beta;II and &gamma;), novel type I PKCs (&#949; and &eta;), novel type II PKCs (&delta; and &theta;), and atypical PKCs (&zeta; and &iota;). The classical PKCs are activated by Ca2+ and diacylclycerol (DAG), while the novel PKCs are activated by DAG, but are Ca2+-independent. The atypical PKCs are activated by neither Ca2+ nor DAG. In Aplysia californica, our model system to study memory formation, there are three nervous system specific PKC isoforms one from each major class, namely the conventional PKC Apl I, the novel type I PKC Apl II and the atypical PKC Apl III. PKCs are lipid-activated kinases and thus activation of classical and novel PKCs in response to extracellular signals has been frequently correlated with PKC translocation from the cytoplasm to the plasma membrane. Therefore, visualizing PKC translocation in real time in live cells has become an invaluable tool for elucidating the signal transduction pathways that lead to PKC activation. For instance, this technique has allowed for us to establish that different isoforms of PKC translocate under different conditions to mediate distinct types of synaptic plasticity and that serotonin (5HT) activation of PKC Apl II requires production of both DAG and phosphatidic acid (PA) for translocation 1-2. Importantly, the ability to visualize the same neuron repeatedly has allowed us, for example, to measure desensitization of the PKC response in exquisite detail 3. In this video, we demonstrate each step of preparing Sf9 cell cultures, cultures of Aplysia sensory neurons have been described in another video article 4, expressing fluorescently tagged PKCs in Sf9 cells and in Aplysia sensory neurons and live-imaging of PKC translocation in response to different activators using laser-scanning microscopy.

In this video, we demonstrate visualization of PKC translocation in living cells using fluorescently tagged PKCs.

Protein kinase Cs (PKCs) are serine threonine kinases that play a central role in regulating a wide variety of cellular processes such as cell growth and ...

Time-lapse Live Imaging of Clonally Related Neural Progenitor Cells in the Developing Zebrafish Forebrain

Precise patterns of division, migration and differentiation of neural progenitor cells are crucial for proper brain development and function1,2. To understand the behavior of neural progenitor cells in the complex in vivo environment, time-lapse live imaging of neural progenitor cells in an intact brain is critically required. In this video, we exploit the unique features of zebrafish embryos to visualize the development of forebrain neural progenitor cells in vivo. We use electroporation to genetically and sparsely label individual neural progenitor cells. Briefly, DNA constructs coding for fluorescent markers were injected into the forebrain ventricle of 22 hours post fertilization (hpf) zebrafish embryos and electric pulses were delivered immediately. Six hours later, the electroporated zebrafish embryos were mounted with low melting point agarose in glass bottom culture dishes. Fluorescently labeled neural progenitor cells were then imaged for 36hours with fixed intervals under a confocal microscope using water dipping objective lens. The present method provides a way to gain insights into the in vivo development of forebrain neural progenitor cells and can be applied to other parts of the central nervous system of the zebrafish embryo.

The present video demonstrates a method which takes advantage of the combination of electroporation and confocal microscopy to perform live imaging on individual neural progenitor cells in the developing zebrafish forebrain. In vivo analysis of the development of forebrain neural progenitor cells at a clonal level can be achieved in this way.

Precise patterns of division, migration and differentiation of neural progenitor cells are crucial for proper brain development and function1,2. To ...

Live-cell Imaging of Sensory Organ Precursor Cells in Intact Drosophila Pupae

Since the discovery of Green Fluorescent Protein (GFP), there has been a revolutionary change in the use of live-cell imaging as a tool for understanding fundamental biological mechanisms. Striking progress has been particularly evident in Drosophila, whose extensive toolkit of mutants and transgenic lines provides a convenient model to study evolutionarily-conserved developmental and cell biological mechanisms. We are interested in understanding the mechanisms that control cell fate specification in the adult peripheral nervous system (PNS) in Drosophila. Bristles that cover the head, thorax, abdomen, legs and wings of the adult fly are individual mechanosensory organs, and have been studied as a model system for understanding mechanisms of Notch-dependent cell fate decisions. Sensory organ precursor (SOP) cells of the microchaetes (or small bristles), are distributed throughout the epithelium of the pupal thorax, and are specified during the first 12 hours after the onset of pupariation. After specification, the SOP cells begin to divide, segregating the cell fate determinant Numb to one daughter cell during mitosis. Numb functions as a cell-autonomous inhibitor of the Notch signaling pathway.
Here, we show a method to follow protein dynamics in SOP cell and its progeny within the intact pupal thorax using a combination of tissue-specific Gal4 drivers and GFP-tagged fusion proteins 1,2.This technique has the advantage over fixed tissue or cultured explants because it allows us to follow the entire development of an organ from specification of the neural precursor to growth and terminal differentiation of the organ. We can therefore directly correlate changes in cell behavior to changes in terminal differentiation. Moreover, we can combine the live imaging technique with mosaic analysis with a repressible cell marker (MARCM) system to assess the dynamics of tagged proteins in mitotic SOPs under mutant or wildtype conditions. Using this technique, we and others have revealed novel insights into regulation of asymmetric cell division and the control of Notch signaling activation in SOP cells (examples include references 1-6,7 ,8).

Live-cell Imaging of Sensory Organ Precursor Cells in Intact Drosophila Pupae

In this video, we describe a method for live cell imaging of asymmetrically dividing sensory organ progenitor cells and epidermal cells in intact Drosophila pupae

Since the discovery of Green Fluorescent Protein (GFP), there has been a revolutionary change in the use of live-cell imaging as a tool for understanding ...

High-resolution Functional Magnetic Resonance Imaging Methods for Human Midbrain

Functional MRI (fMRI) is a widely used tool for non-invasively measuring correlates of human brain activity. However, its use has mostly been focused upon measuring activity on the surface of cerebral cortex rather than in subcortical regions such as midbrain and brainstem. Subcortical fMRI must overcome two challenges: spatial resolution and physiological noise. Here we describe an optimized set of techniques developed to perform high-resolution fMRI in human SC, a structure on the dorsal surface of the midbrain; the methods can also be used to image other brainstem and subcortical structures.
High-resolution (1.2 mm voxels) fMRI of the SC requires a non-conventional approach. The desired spatial sampling is obtained using a multi-shot (interleaved) spiral acquisition1. Since, T2* of SC tissue is longer than in cortex, a correspondingly longer echo time (TE ~ 40 msec) is used to maximize functional contrast. To cover the full extent of the SC, 8-10 slices are obtained. For each session a structural anatomy with the same slice prescription as the fMRI is also obtained, which is used to align the functional data to a high-resolution reference volume.
In a separate session, for each subject, we create a high-resolution (0.7 mm sampling) reference volume using a T1-weighted sequence that gives good tissue contrast. In the reference volume, the midbrain region is segmented using the ITK-SNAP software application2. This segmentation is used to create a 3D surface representation of the midbrain that is both smooth and accurate3. The surface vertices and normals are used to create a map of depth from the midbrain surface within the tissue4.
Functional data is transformed into the coordinate system of the segmented reference volume. Depth associations of the voxels enable the averaging of fMRI time series data within specified depth ranges to improve signal quality. Data is rendered on the 3D surface for visualization.
In our lab we use this technique for measuring topographic maps of visual stimulation and covert and overt visual attention within the SC1. As an example, we demonstrate the topographic representation of polar angle to visual stimulation in SC.

This article describes techniques to perform high-resolution functional magnetic resonance imaging with 1.2 mm sampling in human midbrain and subcortical structures using a 3T scanner. Use of these techniques to resolve topographic maps of visual stimulation in the human superior colliculus (SC) is given as an example.

Functional MRI (fMRI) is a widely used tool for non-invasively measuring correlates of human brain activity. However, its use has mostly been focused upon ...

The embryonic spinal cord consists of cycling neural progenitor cells that give rise to a large percentage of the neuronal and glial cells of the central nervous system (CNS). Although much is known about the molecular mechanisms that pattern the spinal cord and elicit neuronal differentiation1, 2, we lack a deep understanding of these early events at the level of cell behavior. It is thus critical to study the behavior of neural progenitors in real time as they undergo neurogenesis.
In the past, real-time imaging of early embryonic tissue has been limited by cell/tissue viability in culture as well as the phototoxic effects of fluorescent imaging. Here we present a novel assay for imaging such tissue for long periods of time, utilizing a novel ex vivo slice culture protocol and wide-field fluorescence microscopy (Fig. 1). This approach achieves long-term time-lapse monitoring of chick embryonic spinal cord progenitor cells with high spatial and temporal resolution.
This assay may be modified to image a range of embryonic tissues3, 4 In addition to the observation of cellular and sub-cellular behaviors, the development of novel and highly sensitive reporters for gene activity (for example, Notch signaling5) makes this assay a powerful tool with which to understand how signaling regulates cell behavior during embryonic development.

Imaging embryonic tissue in real-time is challenging over long periods of time. Here we present an assay for monitoring cellular and sub-cellular changes in chick spinal cord for long periods with high spatial and temporal resolution. This technique can be adapted for other regions of the nervous system and developing embryo.

The embryonic spinal cord consists of cycling neural progenitor cells that give rise to a large percentage of the neuronal and glial cells of the central ...

Patch Clamp Recordings in Inner Ear Hair Cells Isolated from Zebrafish

Patch clamp analyses of the voltage-gated channels in sensory hair cells isolated from a variety of species have been described previously1-4 but this video represents the first application of those techniques to hair cells from zebrafish. Here we demonstrate a method to isolate healthy, intact hair cells from all of the inner ear end-organs: saccule, lagena, utricle and semicircular canals. Further, we demonstrate the diversity in hair cell size and morphology and give an example of the kinds of patch clamp recordings that can be obtained. The advantage of the use of this zebrafish model system over others stems from the availability of zebrafish mutants that affect both hearing and balance. In combination with the use of transgenic lines and other techniques that utilize genetic analysis and manipulation, the cell isolation and electrophysiological methods introduced here should facilitate greater insight into the roles hair cells play in mediating these sensory modalities.

The purpose of this video is to demonstrate procedures for obtaining healthy, intact hair cells from the inner ear organs of adult zebrafish and then using them for patch clamp studies aimed at characterizing the biophysical properties of their voltage-gated channels.

Patch  clamp analyses of the voltage-gated channels in sensory hair cells isolated  from a variety of species have been described previously1-4 but this  ...

Functional Imaging of Auditory Cortex in Adult Cats using High-field fMRI

Current knowledge of sensory processing in the mammalian auditory system is mainly derived from electrophysiological studies in a variety of animal models, including monkeys, ferrets, bats, rodents, and cats. In order to draw suitable parallels between human and animal models of auditory function, it is important to establish a bridge between human functional imaging studies and animal electrophysiological studies. Functional magnetic resonance imaging (fMRI) is an established, minimally invasive method of measuring broad patterns of hemodynamic activity across different regions of the cerebral cortex. This technique is widely used to probe sensory function in the human brain, is a useful tool in linking studies of auditory processing in both humans and animals and has been successfully used to investigate auditory function in monkeys and rodents. The following protocol describes an experimental procedure for investigating auditory function in anesthetized adult cats by measuring stimulus-evoked hemodynamic changes in auditory cortex using fMRI. This method facilitates comparison of the hemodynamic responses across different models of auditory function thus leading to a better understanding of species-independent features of the mammalian auditory cortex.

Functional studies of the auditory system in mammals have traditionally been conducted using spatially-focused techniques such as electrophysiological recordings. The following protocol describes a method of visualizing large-scale patterns of evoked hemodynamic activity in the cat auditory cortex using functional magnetic resonance imaging.

Current knowledge of sensory processing in the mammalian auditory system is mainly derived from electrophysiological studies in a variety of animal ...

Super-resolution Imaging of Neuronal Dense-core Vesicles

Detection of fluorescence provides the foundation for many widely utilized and rapidly advancing microscopy techniques employed in modern biological and medical applications. Strengths of fluorescence include its sensitivity, specificity, and compatibility with live imaging. Unfortunately, conventional forms of fluorescence microscopy suffer from one major weakness, diffraction-limited resolution in the imaging plane, which hampers studies of structures with dimensions smaller than ~250 nm. Recently, this limitation has been overcome with the introduction of super-resolution fluorescence microscopy techniques, such as photoactivated localization microscopy (PALM). Unlike its conventional counterparts, PALM can produce images with a lateral resolution of tens of nanometers. It is thus now possible to use fluorescence, with its myriad strengths, to elucidate a spectrum of previously inaccessible attributes of cellular structure and organization.
Unfortunately, PALM is not trivial to implement, and successful strategies often must be tailored to the type of system under study. In this article, we show how to implement single-color PALM studies of vesicular structures in fixed, cultured neurons. PALM is ideally suited to the study of vesicles, which have dimensions that typically range from ~50-250 nm. Key steps in our approach include labeling neurons with photoconvertible (green to red) chimeras of vesicle cargo, collecting sparsely sampled raw images with a super-resolution microscopy system, and processing the raw images to produce a high-resolution PALM image. We also demonstrate the efficacy of our approach by presenting exceptionally well-resolved images of dense-core vesicles (DCVs) in cultured hippocampal neurons, which refute the hypothesis that extrasynaptic trafficking of DCVs is mediated largely by DCV clusters.

We describe how to implement photoactivated localization microscopy (PALM)-based studies of vesicles in fixed, cultured neurons. Key components of our protocol include labeling vesicles with photoconvertible chimeras, collecting sparsely sampled raw images with a super-resolution microscopy system, and processing the raw images to produce a super-resolution image.

Detection of fluorescence provides the foundation for many widely utilized and rapidly advancing microscopy techniques employed in modern biological and ...

Optogenetic Stimulation of the Auditory Nerve

Direct electrical stimulation of spiral ganglion neurons (SGNs) by cochlear implants (CIs) enables open speech comprehension in the majority of implanted deaf subjects1-6. Nonetheless, sound coding with current CIs has poor frequency and intensity resolution due to broad current spread from each electrode contact activating a large number of SGNs along the tonotopic axis of the cochlea7-9. Optical stimulation is proposed as an alternative to electrical stimulation that promises spatially more confined activation of SGNs and, hence, higher frequency resolution of coding. In recent years, direct infrared illumination of&#160;the cochlea has been used to evoke responses in the auditory nerve10. Nevertheless it requires higher energies than electrical stimulation10,11 and uncertainty remains as to the underlying mechanism12. Here we describe a method based on optogenetics to stimulate SGNs with low intensity blue light, using transgenic mice with neuronal expression of channelrhodopsin 2 (ChR2)13 or virus-mediated expression of the ChR2-variant CatCh14. We used micro-light emitting diodes (&#181;LEDs) and fiber-coupled lasers to stimulate ChR2-expressing SGNs through a small artificial opening (cochleostomy) or the round window. We assayed the responses by scalp recordings of light-evoked potentials (optogenetic auditory brainstem response: oABR) or by microelectrode recordings from the auditory pathway and compared them with acoustic and electrical stimulation.

Cochlear implants (CIs) enable hearing by direct electrical stimulation of the auditory nerve. However, poor frequency and intensity resolution limits the quality of hearing with CIs. Here we describe optogenetic stimulation of the auditory nerve in mice as an alternative strategy for auditory research and developing future CIs.

Direct electrical stimulation of spiral ganglion neurons (SGNs) by cochlear implants (CIs) enables open speech comprehension in the majority of implanted ...

High Resolution Quantitative Synaptic Proteome Profiling of Mouse Brain Regions After Auditory Discrimination Learning

The molecular synaptic mechanisms underlying auditory learning and memory remain largely unknown. Here, the workflow of a proteomic study on auditory discrimination learning in mice is described. In this learning paradigm, mice are trained in a shuttle box Go/NoGo-task to discriminate between rising and falling frequency-modulated tones in order to avoid a mild electric foot-shock. The protocol involves the enrichment of synaptosomes from four brain areas, namely the auditory cortex, frontal cortex, hippocampus, and striatum, at different stages of training. Synaptic protein expression patterns obtained from trained mice are compared to na&#239;ve controls using a proteomic approach. To achieve sufficient analytical depth, samples are fractionated in three different ways prior to mass spectrometry, namely 1D SDS-PAGE/in-gel digestion, in-solution digestion and phospho-peptide enrichment. 
High-resolution proteomic analysis on a mass spectrometer and label-free quantification are used to examine synaptic protein profiles in phospho-peptide-depleted and phospho-peptide-enriched fractions of synaptosomal protein samples. A commercial software package is utilized to reveal proteins and phospho-peptides with significantly regulated relative synaptic abundance levels (trained/na&#239;ve controls). Common and differential regulation modes for the synaptic proteome in the investigated brain regions of mice after training were observed. Subsequently, meta-analyses utilizing several databases are employed to identify underlying cellular functions and biological pathways.

The identification of molecules and pathways controlling synaptic plasticity and memory is still a major challenge in neuroscience. Here, a workflow is described addressing the relative quantification of synaptic proteins supposedly involved in the molecular reorganization of synapses during learning and memory consolidation in an auditory learning paradigm.

The molecular synaptic mechanisms underlying auditory learning and memory remain largely unknown. Here, the workflow of a proteomic study on auditory ...