Name: High efficiency, Site-specific Transfection of Adherent Cells with siRNA Using Microelectrode Arrays (MEA) (Video) | JoVE Journal
Uploaded: 2012-09-13T13:00:00.000+00:00
Duration: 9 min 14 s
Description: Learn site-specific transfection of adherent cells using microelectrode arrays and electroporation for precise siRNA delivery. This method enables high-efficiency gene silencing with spatial control for cell biology research.

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5 minutes

1. MEA Preparation
<ol>
	<li>MEAs for use in electroporation experiments can either be fabricated using standard photolithography technique as described previously18 or purchased directly from vendors of MEA manufacturers such as Multi Channel Systems <a href="http://www.multichannelsystems.com" target="_blank">(http:/www.multichannelsystems.com/)</a> and Alpha MED Scientific, Inc. <a href="http://www.med64.com/" target="_blank">(http://www.MED64.com)</a>.The MEAs used in our experiments were fabricated in-house at the clean room facility in Arizona State University, which is administered by the Center for Solid State Electronics Research (CSSER). The MEAs used in our experiments had 32 indium tin oxide electrodes in an 8 by 4 array with electrode diameter sizes from 50-200 μm within a 1 cm inner diameter glass well. The glass well was bonded on the MEA using polydimethylsiloxane (PDMS).</li>
	<li>Sterilize the MEA in an autoclave prior to cell seeding. Other methods of sterilization such as a soaking in 70% ethanol, UV treatment and hot water treatment as described elsewhere can also be used as long they do not compromise the integrity of the MEA.</li>
	<li>Transfer the autoclaved MEA to a laminar flow hood and place it in a standard sterile polystyrene Petri dish. Prior to seeding cells on the MEA, sterilize the laminar flow hood by turning on the UV light for 20 min. If the MEA is sensitive to UV light cover the Petri dish containing the MEA with sterile aluminum foil while the flow hood is under UV illumination.</li>
</ol>
2. Seeding Cells on the MEA
<ol>
	<li>Harvest cells from a running cell line of adherent mammalian cells using Trypsin/EDTA and raise them to a concentration of 100-200 cells/μl in 1 ml cell media for plating. In our experiments we have been successful in culturing NIH 3T3 fibroblasts cell line, HeLa cell line and primary cortical and hippocampal neurons on the MEA.</li>
	<li>Place a 20-30 μl drop of media with cells on the MEA. Transfer the Petri dish with the MEA to the incubator. It is important to ensure that the cell drop size is large enough to cover all the electrodes on the MEA.</li>
	<li>2 hr after seeding the cells transfer the Petri dish with the MEA from the incubator to laminar flow hood and gently add 400-500 μl of pre warmed media (37 °C) to the MEA well. Check under the microscope to ensure that cells are still attached and evenly spread on the MEA surface. Transfer the MEA back to the incubator. The 2 hr wait period before the addition of media ensures enough time for the cells to adhere with the MEA surface. Addition of cell media too soon after seeding the cells can wash away the cells. If cells do not adhere well on the MEA, its surface can be treated with cell attachment factors such aspolylysine, fibronectin, and laminin to improve cell adhesion. In our HeLa cell experiments we typically treat the MEA surface with fibronectin (10 μg/ml) for 1-2 hr.</li>
	<li>8-12 hr after seeding the cells, perform 1-2 washes with PBS to remove any dead cells. Cell medium can replaced every 24-48 hr as needed. In a typical experiment, the cells are usually ready for transfection 24-48 hr after seeding. To maintain consistency in electroporation efficiency it is recommended to wait until the culture is at least 80% confluent before electroporation.</li>
</ol>
3. Site-specific Transfection of siRNA
<ol>
	<li>Prepare nucleic acid solution. For siRNA transfection, prepare a 1-2 μM siRNA electroporation solution in ice cold electroporation buffer to attain a final volume of 200-400 μl. In this video article we demonstrate the transfection of HeLa cells with Alexa 488 conjugated scrambled sequence of siRNA.</li>
	<li>Transfer the MEA with cells from the incubator to sterile laminar flow hood. Remove the cell media from the MEA and perform a wash with PBS. Thereafter, add 200-400 μl of the ice cold 1 μM siRNA electroporation solution to the well.</li>
	<li>Apply anodic square electric pulses to the targeted electrodes (Refer to step 4 for determining optimal parameters of the electric pulse). In our experiments we used a Pragmatic Instruments 2414A waveform generator to generate electric pulses and a dual-inline-package (DIP) 16 pin clip to make contact with the MEA bond pads. The waveform generator can be connected to the DIP clip via a demultiplexor printed circuit board to provide selectivity of individual electrodes. For the reference electrode, place a steel cathode in the cell media. While lowering the steel reference electrode in the media it is extremely important to ensure that it does not make contact with the MEA surface. Upon contact, it can cause damage to the cells and the MEA. It is recommended to lower the reference electrode to a position of 1 mm above the cells. A spacer with a height of 1 mm can be placed in the well to assist in placement of the reference electrode. An alternate approach to using an external reference electrode is to use neighboring electrodes as cathode-anode pairs.</li>
	<li>Immediately after applying the electric pulses to the targeted electrodes on the MEA, transfer the MEA back to the incubator. After an incubation period of 5 min, gently replace 75% of the electroporation buffer with pre-warmed (37 °C) cell media. Later, fluorescent imaging can be done to confirm the delivery of fluorescently tagged siRNA to the cells.</li>
</ol>
4. Electroporation Parameter Optimization
<ol>
	<li>To determine the optimal electric pulse parameters for electroporation, design electroporation experiments for a range of values of pulse amplitude, pulse duration, and number of pulses. In our experience with HeLa cells, we observed that a single voltage pulse of amplitude from 3 V to 9 V, and duration from 1 msec to 10 msec for an electrode size of 100 μm led to successful electroporation with minimal cell death. It is our recommendation that one parameter be varied at a time and others are kept constant. To quantitate the electroporation efficiency for each of the pulse parameters, we use propidium iodide (PI), a cell impermeant dye that stains nucleic material, and live assay based methodology, as described in steps 4.2-4.5.</li>
	<li>Establish a cell culture on the MEA following the directions outlined in steps 1 and 2.</li>
	<li>Prior to electroporation prepare a 300-500 μl of 30 μg/ml PI solution in ice cold electroporation buffer and 400 μl of 4 μM calcien AM solution in PBS.</li>
	<li>Transfer the MEA from the incubator to the laminar flow hood. Remove the cell media from the MEA and perform a wash with PBS. Thereafter, add 300-500 μl of the ice cold electroporation buffer with PI.</li>
	<li>Apply electric pulses with desired pulse amplitude and duration to the targeted electrodes (The equipment used in our experiments for generating and applying the electric pulse to the MEA is described in step 3.3). For the reference electrode either lower a steel electrode into the electroporation buffer in the MEA well or use the neighboring electrode as reference. By selectively applying pulses of varying amplitudes or durations to different electrodes multiple experiments can be performed on the same device. For example, on a 32 electrode MEA, 8 experiments can be performed by splitting the 32 electrodes in 8 groups, each consisting of 4 electrodes. Each of the 8 groups can then be stimulated by a single rectangular voltage pulse of duration 5 msec with amplitudes varying in 3 V-6 V range in 0.5 V increments and one group can be used as a control.</li>
	<li>Immediately after applying the voltage pulses transfer the MEA to the incubator for 5 min. Afterwards, gently remove 75% of the electroporation buffer from the MEA well and replace it with warm cell media. Transfer the MEA back to the incubator.</li>
	<li>After an incubation period of 2-4 hr replace the cell media in the MEA well with 300-500 μl of 4 μM Calcein AM solution in PBS. Transfer the MEA back to incubator for another 30 min.</li>
	<li>Following the incubation of the cells with Calcein AM, replace the Calcein AM solution in the MEA well with PBS after two washes with PBS. Obtain fluorescent images of cells using with an optical microscope with filters for PI (Excitation/Emission - 535 nm/617 nm) and Calcein AM (Excitation/Emission - 490 nm/520 nm). The uptake of PI, due to electroporation, causes cells to fluoresce red and the Calcein AM causes cells that are alive to fluoresce green. Three possible scenarios that can be observed are 1) cell electroporated and alive (will fluoresce both red and green), 2) Cells alive but not electroporated (will fluoresce just green) and 3) Cells dead due to electroporation (will fluoresce just red). The cell viability was calculated as a percent of the total number of cells alive on the electrode and the electroporation efficiency was calculated as percent of the total number of cells loaded with PI/siRNA.</li>
</ol>
5. Representative Results
Figure 1 shows the site-specific loading of HeLA cells with PI. It can be observed that only cells on the electrode demonstrate an uptake of PI (Figure 1B). A live assay performed post electroporation was used to assess the viability of cells (Figure 1A). The electroporation efficiency and cell viability for the example shown in Figure 1 are 81.8 % and 96.1 % respectively. High cell viability and electroporation efficiency can be achieved by optimizing the electroporation pulse parameters. Site-specific transfection of HeLA cells with fluorescently tagged siRNA for an optimized electroporation pulse (8 V, 1 msec) is shown in Figure 2. The electroporation efficiency for the siRNA at 8 V, 1 msec was found to be 74.4 ± 16.0 % and cell viability was found to be 87.9 ± 8.4 % (all data represented as mean ± standard deviation, N=5).
<img alt="Fluorescence microscopy images showing cell staining; green and red cell assays for analysis." src="/files/ftp_upload/4415/4415fig1.jpg" data-altupdatedat="1787630408000" data-alt="Figure 1"> 
Figure 1. Site-specific delivery of PI in HeLa cells on a 200 μm electrode (6 V, 5 msec). A) Calcien based live assay performed 2 hr post electroporation. Alive cells are indicated by green fluorescence. B) Red fluorescence demonstrates the uptake of PI by cells on the electrode. C) A superimposed image of A and B. The white arrows indicate cells that are electroporated and alive. The black arrows indicate cells that are dead. The white circle in A, B and C indicates the outline of the electrode.
<img alt="Fluorescence microscopy: protein localization in green (A) and blue (B); cellular analysis." src="/files/ftp_upload/4415/4415fig2.jpg" data-altupdatedat="1787630408000" data-alt="Figure 2"> 
Figure 2. Transfection of HeLa cells with fluorescently tagged scramble sequence of siRNA. A) Image of HeLa cells on a 100 μm electrode transfected with Alexa 488 tagged siRNA (8 V, 1 msec). B) Image of cell nuclei stained with DAPI. The white circle marks the edge of the electrode.

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No conflicts of interest declared.

In this video article we demonstrate the use of MEA for site-specific transfection of HeLa cells with scrambled sequence of siRNA. One of the advantages of this technology is its applicability to different cell lines including primary cell lines. Our lab has previously demonstrated the use of this technology for site-specific transfection of primary hippocampal neuronal culture from E18 day old rat and NIH-3T3 cells with scrambled siRNA sequences and GFP plasmid18, 19. We have also had success in delivering fu...

<table><tbody><tr><td>Cell media:&lt;br/&gt;Advanced MEM&lt;br/&gt;L-Glutamine 200 mM&lt;br/&gt;Penicillin/Streptomycin&lt;br/&gt;Fetal bovine serum</td><td>Gibco/Invitrogen&lt;br/&gt;Himedia Laboratories/VWR&lt;br/&gt;Lonza group Ltd.&lt;br/&gt;Gibco/Invitrogen</td><td>12492-013&lt;br/&gt;95057-448&lt;br/&gt;09-757F&lt;br/&gt;16000-044</td><td>Cell media composition:&lt;br/&gt; 2% FBS, 2%L-glutamine and 2% Pennstrep in Advance MEM</td></tr><tr><td>Trypsin EDTA</td><td>Mediatech, Inc.</td><td>25-053-CL</td><td></td></tr><tr><td>PBS</td><td>Mediatech, Inc.</td><td>21-040-CV</td><td></td></tr><tr><td>Alexa 488 and rhodamine tagged scrambled sequence siRNA</td><td>Qiagen, Inc.</td><td>1027292</td><td></td></tr><tr><td>Electroporation buffer</td><td>Biorad Laboratories</td><td>165-2677</td><td></td></tr><tr><td>Waveform generator</td><td>Pragmatic</td><td>2414A</td><td>Any waveform/pulse generator that can deliver the desired pulses can be used.</td></tr></tbody></table>

high efficiency, site-specific transfection of adherent cells with sirna using microelectrode arrays (mea)

High efficiency, Site-specific Transfection of Adherent Cells with siRNA Using Microelectrode Arrays (MEA)

The discovery of RNAi pathway in eukaryotes and the subsequent development of RNAi agents, such as siRNA and shRNA, have achieved a potent method for silencing specific genes1-8 for functional genomics and therapeutics. A major challenge involved in RNAi based studies is the delivery of RNAi agents to targeted cells. Traditional non-viral delivery techniques, such as bulk electroporation and chemical transfection methods often lack the necessary spatial control over delivery and afford poor transfection efficiencies9-12. Recent advances in chemical transfection methods such as cationic lipids, cationic polymers and nanoparticles have resulted in highly enhanced transfection efficiencies13. However, these techniques still fail to offer precise spatial control over delivery that can immensely benefit miniaturized high-throughput technologies, single cell studies and investigation of cell-cell interactions. 
Recent technological advances in gene delivery have enabled high-throughput transfection of adherent cells14-23, a majority of which use microscale electroporation. Microscale electroporation offers precise spatio-temporal control over delivery (up to single cells) and has been shown to achieve high efficiencies19, 24-26. Additionally, electroporation based approaches do not require a prolonged period of incubation (typically 4 hours) with siRNA and DNA complexes as necessary in chemical based transfection methods and lead to direct entry of naked siRNA and DNA molecules into the cell cytoplasm. As a consequence gene expression can be achieved as early as six hours after transfection27. Our lab has previously demonstrated the use of microelectrode arrays (MEA) for site-specific transfection in adherent mammalian cell cultures17-19. In the MEA based approach, delivery of genetic payload is achieved via localized micro-scale electroporation of cells. An application of electric pulse to selected electrodes generates local electric field that leads to electroporation of cells present in the region of the stimulated electrodes. The independent control of the micro-electrodes provides spatial and temporal control over transfection and also enables multiple transfection based experiments to be performed on the same culture increasing the experimental throughput and reducing culture-to-culture variability. 
Here we describe the experimental setup and the protocol for targeted transfection of adherent HeLa cells with a fluorescently tagged scrambled sequence siRNA using electroporation. The same protocol can also be used for transfection of plasmid vectors. Additionally, the protocol described here can be easily extended to a variety of mammalian cell lines with minor modifications. Commercial availability of MEAs with both pre-defined and custom electrode patterns make this technique accessible to most research labs with basic cell culture equipment.

The article details the protocol for site-specific transfection of scrambled sequence of siRNA in an adherent mammalian cell culture using a microelectrode array (MEA).

The discovery of RNAi pathway in eukaryotes and the subsequent development of RNAi agents, such as siRNA and shRNA, have achieved a potent method for ...

The overall goal of the following experiment is to achieve site-specific transfection in adherent cells. This is achieved by culturing a monolayer of cells on a micro electrode array. As a second step, the application of an electric pulse to select electrodes leads to electroporation of the targeted cells adhered on top of the electrodes.This leads to the creation of pores in the cell membrane that allow the entry of exogenous molecules into the cell. The targeted cells can then be screened to detect the resultant phenotype using an appropriate assay. The microscale transfect technique we described here has several key advantages over conventional transfect techniques such as bulk electroporation or chemical transfect.A, it allows us to achieve exquisite spatial control over the transfect process itself and helps us to transfect single cells or cluster of cells with high efficiency even in difficult to transfect cell lines. B, it is an approach that scales up readily and helps us to realize high throughput molecular assays. One of the key advantages of using a micro electrode area for site-specific transfection is that it enables simultaneous functional assessment of targeted cells such as quantitative electrophysiology and morphological changes.To begin the procedure, sterilize the MEA in an autoclave, then transfer the autoclave MEA to a laminar flow hood, and place it in a standard sterile polystyrene Petri dish prior to seeding the cells on the MEA, sterilize the laminar flow hood by turning on the UV light for 20 minutes. If the MEA is sensitive to UV light, cover the Petri dish containing the MEA with sterile aluminum foil while the flow hood is under UV illumination. Next, treat the MEA surface with 10 micrograms per milliliter of fibronectin for one to two hours for helo cells.Perform a wash with DI water and let the MEA air dry in the laminar flow hood. After that, harvest the cells from a running cell line of adherent mammalian cells using trypsin ETTA and raise them to the concentration of 100 to 200 cells per microliter in one milliliter of cell media for plating. Then place a 20 to 30 microliter drop of media with cells on the MEA.Make sure that it is large enough to cover all the electrodes on the MEA. Subsequently transfer the Petri dish with the MEA to a humidified incubator at 37 degrees Celsius and 5%carbon dioxide. Two to four hours.After seeding the cells, transfer the Petri dish with the MEA from the incubator to the laminar flow hood. After that, gently add 400 to 500 microliters of 37 degrees Celsius pre warmed media to the MEA well next check under the microscope to ensure that the cells are still attached and evenly spread on the MEA surface. Then transfer the MEA back to the incubator eight to 12 hours after seeding the cells, perform one to two washes with PBS to remove any dead cells.In a typical experiment, the cells are usually ready for transfection 24 to 48 hours after seating. To maintain consistency in electroporation efficiencies, it is recommended to wait until the culture is near co fluency before electroporation. In order to achieve highly efficient sarna transfection, it is necessary to first determine the optimal electroporation voltage pulse parameters for a given MEA.Here we describe a sequence of experimental steps involving the use of propidium iodide to determine the optimal electroporation parameters prior to the electroporation. Prepare a 300 to 500 microliter solution of 30 micrograms per milliliter PI in ice cold electroporation buffer, and 400 microliters of four micromolar calcium AM solution in PBS. Then transfer the MEA from the incubator to the laminar flow hood.Remove the cell media from the MEA and perform a wash with PBS. Then at 300 to 500 microliters of the ice cold electroporation buffer with pi. Next place a one millimeter high spacer in the MEA.Well, it is extremely important to ensure that it does not touch the cells in the center of the MEA. Afterwards connect the MEA with the electrical interconnect and select the desired electrodes for electroporation. Subsequently, apply the electric pulses with the desired pulse amplitude and duration to the targeted electrodes for the electroporation step.Lower the steel cathode covered in aluminum foil in the MEA well until it makes contact with the one millimeter spacer. Immediately afterwards, apply electric pulses to the targeted electrodes. Next, repeat the step with a different set of electrodes depending upon the experimental design.In our experiments with helo cells, we observed that a single voltage pulse of an amplitude from three volts to nine volts and a duration from one millisecond to 10 milliseconds. For an electrode the size of 100 micrometers led to successful electroporation with minimal cell death. Immediately after applying the voltage pulses, transfer the MEA to the incubator for five minutes.After a five to 10 minute incubation period, gently remove the spacer from the MEA. Well then remove 75%of the electroporation buffer from the MEA well and replace it with warm cell media. Then transfer the MEA back to the incubator.After an incubation period of two to four hours, replace the cell media in the MEA well with 300 to 500 microliters of four micromolar calcium AM solution in PBS. Transfer the MEA back to the incubator for another 30 minutes following the incubation of the cells with calcium am. Replace the calcium AM in the well with PBS after a wash step, then obtain the fluorescent images of cells using an optical microscope with filters for pi.The uptake of PI due to electroporation causes the cells to fluoresce red, and the calcium am causes the cells that are alive to fluoresce green. The cell viability for each electrode can be estimated by this equation, and the electroporation efficiency for each electrode can be estimated by this equation. Once the optimal electroporation parameters are determined, they can be used for site-specific delivery of an a molecule, and the electroporation procedure for siRNA molecules is the same as the electroporation procedure for pi.Shown here is the site specific delivery of propidium iodide in helo cells on a 200 micrometer electrode. The calcium-based live assay was performed two hours post electroporation. The live cells are indicated by green fluorescence here, and the red fluorescence here demonstrates the uptake of pi by cells on the electrode.Here is the superimposed image. These cells are electroporated and alive while these cells are dead. This figure shows the transfection of rumine tagged irna on a 200 micrometer diameter electrode, and this figure shows the transfection of hela cells with Alexa 4 88 tagged irna on a 100 micrometer diameter electrode.The white arrows indicate the cells transfected with irna while the black arrows indicate the dead cells. The technique we have demonstrated here can be extended to different cell lines, including hard to transfect primary cell lines, and to transfect them with larger molecules such as plasmids and proteins.

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Research

JoVE Journal

Bioengineering

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