This research was supported by the National Research Foundation of Korea (NRF-2015R1A2A1A10053576), and by a grant from the Next-Generation BioGreen 21 Program (SSAC, grant PJ01137901), Rural Development Administration, Republic of Korea. RK, WS, ABB and DK were supported by Brain Korea 21 Plus program (BK21+).

1. Screening of Mutants with Altered Phototropic and Gravitropic Responses
<ol>
	<li>Prepare 1x Murashige and Skoog (MS) Medium, pH 5.7, with 0.8% Agar One Day Before the Experiment.
	<ol>
		<li>Add 800 ml of double distilled water to a 2 L conical flask and stir with a magnetic bar.</li>
		<li>Add 4.4 g of MS salt to the conical flask.</li>
		<li>Add 0.5 g of 2-(N-Morpholino) ethane sulphonic acid (MES) and stir until all of the salts are completely dissolved.</li>
		<li>Adjust the pH of the medium to 5.7 with 1 M KOH.</li>
		<li>Transfer the medium to a mass cylinder and bring final volume to 1 L with ddH2O.</li>
		<li>Pour back the medium into a 2 L conical flask and add 8 g of plant agar.</li>
		<li>Wrap the mouth of the conical flask tightly with aluminum foil.</li>
		<li>Autoclave the MS medium and ddH2O for 15 min at 121 &#176;C, 15 psi, and after autoclaving, keep the medium in a 60 &#176;C incubator and the ddH2O at RT.</li>
		<li>After cooling to 60 &#176;C, pour the medium into 125 x 125 x 20 mm3 square plates on a laminar flow bench (50 ml in each plate).</li>
		<li>Allow the agar to solidify at RT for about 1 hr by keeping the plates partially open. If the plates are not used immediately, seal them by using plastic wrap and store at 4 &#176;C in a refrigerator.</li>
	</ol>
	</li>
	<li>Surface-sterilize the seeds with 1.1% sodium hypochlorite and dot the seeds on 1x MS agar plates that were prepared in section 1.1. 
	Note: Here, Arabidopsis thaliana {Col-0 seeds, dsGSL8 (Col-0)}15 are used for tropic response, callose staining and HPTS loading. Arabidopsis thaliana {Col-0 and dsGSL8 (Col-0) EMS mutant} seeds (unpublished) are used for tropic response in Figure 2.
	<ol>
		<li>Autoclave 300 ml of ddH2O in a bottle.</li>
		<li>Add approximately one hundred seeds for each background, i.e., mutant/over-expression line and wild type (Col-0) seeds, to a 1.5 ml microcentrifuge tube.</li>
		<li>Take out 1x MS agar plates from a 4 &#176;C refrigerator and dry them on a laminar flow bench in a partially open position.</li>
		<li>Surface-sterilize the seeds by adding 1 ml of a 0.2x bleach solution (1.1% sodium hypochlorite) and keep the microcentrifuge tubes on shaker at 250 rpm for 5 min.</li>
		<li>Let the seeds settle to the bottom by gravity and then remove the bleach solution by micropipette.</li>
		<li>Add 1 ml of fresh ddH2O (autoclaved) to the seeds and mix well by inverting the microcentrifuge tube several times. Let the seeds settle again and then remove the water.</li>
		<li>Repeat step 1.2.6 5-6 times.</li>
		<li>Add double the amount of water to the volume of the seeds that were left after the final washing.</li>
		<li>Dot the sterilized seeds on a semi-dried 1x MS agar plate using a 1 ml micropipette tip containing 200 &#181;l of seeds (including water).
		<ol>
			<li>Keep approximately a 0.1 cm distance between two seeds and a minimum of 1.8 cm between two seed rows. Dot the seeds in five horizontal rows per square plate (125 x 125 x 20 mm3). Allow the water to dry slightly before placing the lid onto the plate.</li>
		</ol>
		</li>
		<li>Seal the plates with surgical tape, stack all of the plates vertically, and wrap with aluminum foil.</li>
		<li>Transfer the wrapped plates to a dark box (with no access to light). Then, keep the dark box in a 4 &#176;C room/refrigerator for 3 days.</li>
		<li>Starting from this step, keep the direction of plates unchanged. After 3 days of cold treatment, keep the dark box in a plant culture room at 22 &#176;C for the next 3 days. After 3 days, check the germination status of the seeds under green light in a dark room. 
		NOTE: Usually 3 day-old Col-0 etiolated seedlings can grow up to 1.6 cm in length.</li>
	</ol>
	</li>
	<li>Analyze the altered phototropic and gravitropic response in mutants or over-expression lines of a specific gene. Select only similarly sized and vertically grown straight seedlings under green light in a dark room. Transfer selected seedlings to a fresh 1x MS agar plate using the tip of a sterilized toothpick.
	<ol>
		<li>Gently select the seedlings from the lowest part of their hypocotyl without touching any other parts. Make sure that all of the seedlings have same cotyledon/hook orientation, and after transferring, that the orientation of seedling hooks remain the same. Use a minimum of 20 seedlings of each background in each row and a minimum of two plates for each time point for further analysis. 
		Note: Four different backgrounds can be compared in each plate (4 rows). 
		Optional: While using dexamethasone (dex)-inducible RNAi/over-expression lines, transfer the above seedlings to a 1x MS plate along with the +dex MS plate (plate containing 1x MS, 0.8% agar medium supplemented with 20 &#181;M dex) for 3 hr and keep the plates vertically in dark box.</li>
		<li>To check phototropic response, transfer the above plates vertically to a black box with only one side opened. Transfer the black box containing plates to a plant growth chamber with unilateral white light. To ensure unilateral light, place the edge of the plate toward the light source (not the front side). Refer to the setup in Figure 1.</li>
		<li>Similarly, to check the gravitropic response, keep the plates with transferred seedlings vertical, and cover with aluminum foil. Next, change the plate orientation vertically to 90&#176; and keep it inside the black box covered from all sides. Refer to the setup in Figure 1.</li>
		<li>After the given time points, (usually 1.5 hr, 3 hr, 6 hr, and 12 hr) scan the plates with a scanner, and save the pictures in JPEG format.</li>
		<li>Measure the bending angle of seedlings using ImageJ software&#160;(http://imagej.nih.gov/ij/index.html) (Figure 2).
		<ol>
			<li>Start the ImageJ program by double clicking (Figure 2A). 
			Note: The major tools that were used in the angle measurement are shown in Figure 2B.</li>
			<li>Click the &#34;file&#34; option followed by sub-option &#34;open&#34; in the ImageJ toolbar, and open pictures saved in JPEG file format to measure the tropic bending angle (Figure 2C).</li>
			<li>Click the magnifying tool to zoom in or out on the picture by clicking the left or right mouse button, respectively as shown in Figure 2B.</li>
			<li>Click the scrolling tool to drag and position the picture (Figure 2D).Next, click the angle tool to measure the angle of bending (Figure 2E).
			<ol>
				<li>Make a double left click on the original hypocotyl growing direction point &#39;a&#39;, drag the mouse to the bending initiation point &#39;b&#39; (Figure 2F), and click left button to draw the first line (Figure 2G).</li>
				<li>Drag the mouse from point b to the bending end point &#39;c&#39;, and click the left button to draw the second line (Figure 2H) and form a fixed <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />A. Note: The true bending angle is <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />B, which is equal to 180&#176;-<img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />A. (Figure 2F).</li>
				<li>Measure and record <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />A by pressing &#39;M&#39; on the keyboard. The result file will open separately as shown in Figure 2I. Measure and record all of the seedlings one by one. For example, first measure the bending angle for all of the hypocotyls from Col-0 and then for mutant lines.</li>
			</ol>
			</li>
		</ol>
		</li>
		<li>Transfer the dataset from ImageJ to spreadsheet file to make the average of bending angles of each background.</li>
		<li>For quantitative analysis, make a bar graph diagram with statistical test results, including standard error bars and probability values (See Figure 2).
		<ol>
			<li>Calculate the true bending <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />B, and design a formula using spreadsheet, i.e., <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />B = 180&#176;-<img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />A. Note: <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />A is the value that was derived from ImageJ analysis.</li>
			<li>Measure the average bending angle <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />B for each background using spreadsheet tools (Figure 2J).</li>
			<li>Analyze the standard deviation between replicates for each measurement using the spreadsheet &#34;formulas&#34; tool (Figure 2J).</li>
			<li>Test the significance of the results by applying a t-test to the average bending angle and standard deviation values calculated as mentioned above.</li>
			<li>Draw a bar diagram using the above values to graphically represent the quantitative difference in the bending angle between two different backgrounds using the spreadsheet &#34;insert&#34; tool (Figure 2K). 
			Note: Mutant/over-expression lines of strong candidate genes would show clear differences with respect to wild type, such as no bending, fast bending or slow bending.</li>
		</ol>
		</li>
	</ol>
	</li>
</ol>
2. Screen Plant Lines with Defective Tropic Responses Due to Changes in PD SEL with an Altered PD Callose Level
<ol>
	<li>Perform a Hypocotyl Loading Assay by 8-hydroxypyrene-1,3,6-trisulfonic acid (HPTS) Dye Loading on the Top of Seedlings with HPTS Agarose Blocks and Compare the Movement of Dye Between Mutant/Over-expression Lines and Col-0.
	<ol>
		<li>Prepare HPTS agarose blocks for the hypocotyl loading assay.
		<ol>
			<li>Take 10 ml of ddH2O in a 50 ml conical flask and add 0.1 g of agarose to prepare a 1% agarose gel. Boil the agarose in a microwave oven for 1-2 min with intermittent shaking, and allow it to cool for 5 min.</li>
			<li>Add 50 mg of HPTS to 10 ml of 1% agarose solution, and mix well until the solution turns green.</li>
			<li>Pour the above mixture to a 10 mm Petri dish, and allow it to solidify for 15 min.</li>
			<li>Cut the solidified HPTS agarose with a sharp dissection blade to make small agarose blocks (0.5 x 2 cm2).</li>
		</ol>
		</li>
		<li>Prepare plant samples for the HPTS dye-loading assay.
		<ol>
			<li>Set a platform for the HPTS dye loading assay; place a microscope cover slide (24 x 50 mm2) on a new MS medium plate as shown in Figure 3A.</li>
			<li>Excise 3 day-old etiolated seedlings from the base of the hook using a sharp surgical scissor.</li>
			<li>Immediately transfer the above seedlings (a minimum of 5 seedlings from each background) to the surface of a microscopic cover glass in such a way that only 0.5 cm of hypocotyl from the excision position should remain on cover slide, and the rest of the hypocotyl should touch the medium as shown in Figure 3B.</li>
			<li>Place the HPTS agarose block on top of the hypocotyl (with an excised hook) for 5 min in such a way that the excised area touches the HPTS agarose block.</li>
			<li>After 5 min of loading, remove the agarose block from the hypocotyl surface, transfer the hypocotyls to the 10 mm Petri dish containing ddH2O and wash hypocotyls in ddH2O for 15 min with continuous shaking.</li>
		</ol>
		</li>
		<li>Prepare Samples for Confocal Microscopy.
		<ol>
			<li>Select a minimum of 5 seedlings from each background for observation under the confocal laser scanning microscope.</li>
			<li>In the laser channel, set the wavelength to 488 nm for specific excitation and 500 to 550 nm for band-pass emission.</li>
			<li>Transfer seedlings in 2 sets (one Col-0 + one mutant) to a new microscopic slide after washing with ddH2O. Add 100-150 &#181;l of double-distilled water to the slide, and cover with a cover slide. Shift the slide to the stage of the confocal microscope.</li>
			<li>Focus the hypocotyl region (with a 20X or 40X objective lens) using bright-field (white light) illumination. Then, scan the slides for fluorescence.</li>
			<li>Take images for a minimum of 10 sets, and compare the two backgrounds by checking the extent of dye movement from the point of loading. 
			Note: Mutant/over-expression lines with altered symplasmic movement will show different patterns of dye loading compared to wild type Col-0.</li>
		</ol>
		</li>
	</ol>
	</li>
	<li>Analyze the Callose Level in Mutant/Over-expression Lines Showing Altered Phototropic and Gravitropic Response and Showing Distinct HPTS Dye Movement Compared to Col-0.
	<ol>
		<li>Prepare aniline blue callose staining dye.
		<ol>
			<li>Make 1 M glycine, pH 9.5 and 0.1% (W/V) aniline blue in autoclaved ddH2O.</li>
			<li>Make the staining buffer by mixing 0.1% aniline blue and 1 M glycine in 2:3 volume ratios. For example, for 50 ml of staining buffer, take 20 ml of 0.1% aniline blue and 30 ml of 1 M glycine. Note: Make the staining buffer a minimum of 48 hr prior to use and store it in the dark.</li>
		</ol>
		</li>
		<li>Stain bended or non-bended seedlings with callose-specific aniline blue dye.
		<ol>
			<li>To inhibit the de novo callose synthesis during the staining process, add the final volume of 1.5 mM 2-deoxy-D-glucose (DDG) to 50 ml of staining buffer.</li>
			<li>Take 3-day-old etiolated seedlings for callose staining (with or without tropic response).</li>
			<li>Cut the seedlings from their hook region using thin surgical scissors.</li>
			<li>Transfer the seedlings in a small Petri dish containing 2 ml of staining buffer using the tip of a toothpick.</li>
			<li>Incubate the seedlings with staining buffer in the dark for 2 hr with continuous shaking at 30 rpm.</li>
			<li>After staining, wash the seedlings with ddH2O for 2 min to remove excess staining buffer.</li>
			<li>Select a minimum of 5 seedlings for each plant background for observation under the confocal laser scanning microscope.</li>
		</ol>
		</li>
		<li>Prepare samples for confocal microscopy:
		<ol>
			<li>Transfer the seedlings in set (one Col-0 + one mutant) to clean the microscope slides after washing with ddH2O.</li>
			<li>Add 100-150 &#181;l of ddH2O and cover with a cover slide. Shift the slide to the stage of the confocal microscope.</li>
			<li>In a laser channel, set the wavelength to 405 nm for specific excitation and 500 to 550 nm emission for the imaging of aniline blue fluorescence.</li>
			<li>Bring the hypocotyl region into focus, first with 10X and later with 20X or 40X objective lenses using bright-field (white light) illumination.</li>
			<li>Then, switch on filtered light, scan the slides for fluorescence, and save the images.</li>
			<li>Measure the callose signal intensity with ImageJ software (http://imagej.nih.gov/ij/index.html) (See Figure 4).
			<ol>
				<li>Change the format of confocal microscopy pictures from Olympus Image Binary format (*.oib) to JPEG file format. Note: Only JPEG format is supported by ImageJ software.</li>
				<li>Start the ImageJ program by double clicking (Figure 4A). Note: Arrows indicate the rectangle tool to be used in the callose intensity measurement (Figure 4B).</li>
				<li>Click the &#34;file&#34; option followed by the sub-option &#34;open&#34; in the ImageJ toolbar, and open microscopy pictures that were saved in JPEG file format to measure the callose intensity (Figure 4C).</li>
				<li>Click the rectangular icon on the ImageJ toolbar (Figure 4D).</li>
				<li>To analyze the signal intensity, drag the cursor over the picture and select the area to be examined (Figure 4E)</li>
				<li>Measure and record the numerical values for signal intensity by pressing &#39;M&#39; on the keyboard (Figure 4E). Note: The result file will open separately (Figure 4F).</li>
				<li>Measure and record the intensity values one by one for all of the seedlings from each plant background. 
				Note: In ImageJ, the result file &#34;Mean&#34; indicates the signal intensity of the selected &#34;Area&#34;.</li>
			</ol>
			</li>
			<li>Copy the mean values from the ImageJ result file, and paste in spreadsheet file for quantitative analysis.</li>
			<li>For quantitative analysis, make a bar graph diagram with statistical tests, including standard error bars and probability values (Figure 4).
			<ol>
				<li>Measure the average signal intensity (mean from ImageJ) for each background using the spreadsheet &#34;formulas&#34; tool (Figure 4G).</li>
				<li>Analyze the standard deviation between replicates for each measurement using the spreadsheet &#34;formulas&#34; tool (Figure 4G).</li>
				<li>Calculate the standard error (SE) using thespreadsheet &#34;formulas&#34; tool. 
				Note: SE = s/&#8730;n, where (s) is the standard deviation of the population, and (n) is the size (number of observations) of the sample.</li>
				<li>Test the significance of the results by applying a t-test to the average signal intensity and standard error values calculated as mentioned above.</li>
				<li>Draw a bar graph diagram using the above values to graphically represent the quantitative difference in the callose level between two different backgrounds using the spreadsheet &#34;insert&#34; tool (Figure 4H). 
				Note: Mutant/over-expression lines of strong candidates will show different levels of callose compared to wild type, such as no callose, little callose or hyper PD callose accumulation.</li>
			</ol>
			</li>
		</ol>
		</li>
	</ol>
	</li>
</ol>

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The authors have no disclosures.

In this manuscript, a strategy to screen mutant/over-expression lines that are defective in phototropic and gravitropic responses due to altered PD callose and, hence, PD SEL is described in detail. PD callose synthesis and degradation is mainly accomplished by callose synthases and &#946;-1,3-Glucanases, but regulation of these enzymes is controlled by many upstream factors. To search for such upstream factors or candidates which are directly involved in PD regulation, we have set up this method for screening. This set up has some limitations as mutants of some key enzymes regulating PD callose biosynthesis (gsl8) are lethal15 and to sort out such mutants would be limited by this set up. Also, if the candidate gene shows faster or slower tropic response along with open or closed PD, but the callose level remains unchanged, then detailed analysis is needed to further characterize such candidates. The critical factors and troubleshooting processes in each step are also elaborated. First, in medium preparation, a critical factor that can affect the plant growth is the pH of the media, which should range from 5.7-5.8. Second, appropriate surface drying of agar plates is important; it would be difficult to lift the 3 day-old seedlings without any damage from agar plates with high water content. However, too much drying of agar plates may cause some cracks in the media during incubation and result in asymmetric seedling growth. During the surface sterilization of seeds using sodium hypochlorite solution, care must be taken to remove sodium hypochlorite completely by repetitive washing with autoclaved ddH2O, as it is a strong bleaching agent. Autoclaved ddH2O should be prepared freshly and handled aseptically, as old stocks might cause fungal contamination in MS plates. After sterilization, seeds are stratified by cold treatment to synchronize germination. This process can be performed either by transferring sterilized wet seeds directly to a cold room in dark conditions or first dotting the seeds onto MS plates and then transferring the plates to a cold room in dark conditions. However, we prefer the latter because it gives a more uniform growth of seedlings. While dotting seeds, the distance between two adjacent seeds should be at least of 0.1 cm because very closely dotted seeds would result in the growth of overlapping seedling, which are very difficult to transfer in subsequent experiments.
For proper phototropic and gravitropic responses, seedlings should not be exposed to light and should remain undamaged. To avoid the background effects of white light, carefully select the seedlings under a green light source in the dark room as plants do not respond to green light. Green light source can be generated by covering the white light source using transparent green vinyl sheets. For selecting the seedlings, a sterilized toothpick is the best option. Touch the very lower part of the hypocotyl with the toothpick to lift the seedlings so that they can be easily transferred to a new plate. All of the seedlings should be similar in size and hook orientation. During our experiments, we saw that if the hook direction is on the opposite side of the light source, plants will show a faster tropic response than plants with the same hook direction as the light source. Normally, in the case of phototropism, one can see a clear difference in the bending angle between true candidates and Col-0 within 3 hr, while in the case of gravitropism, it usually takes 6-12 hr. Finally, to have statistically relevant data, a minimum of three biological replicates and 20 seedlings are needed each time.
To test the extent of symplasmic movement between different plant backgrounds, HPTS dye loading is a convenient technique, as it does not need sophisticated tools and instrumentation. For the HPTS loading assay, the percentage of gel in HPTS agarose blocks is of great importance, as a very brittle or hard gel will not give optimum results. It is better to use a 50 ml conical flask with loose rubber and not to use a large-volume flask for boiling agarose with 10 ml of water. HPTS agarose blocks can be used for one week after preparation if kept wrapped with aluminum foil at 4 &#176;C. Another key factor in the HPTS loading assay is the excision of the hypocotyl hook region. Excision should be performed with sharp dissection scissors and at a similar position for all of the seedlings. Excision with blunt scissors can cause unwanted damage to seedlings and can hinder HPTS loading. Additionally, the seedling growth conditions and developmental stages might play a crucial role in dye movement, as callose accumulation is more prone to respond to such changes, which finally account for the hindrance in dye movement. Thus, growing the seedlings under optimum conditions is necessary. Callose at PD plays a key role in the tropic responses of etiolated seedlings by regulating PD SEL, which is important for auxin gradient formation15. Callose levels can be detected by staining with aniline blue or immunogold labeling. Staining with aniline blue is a simple and rapid method for detecting the callose level. Because hypocotyl cells have high turgor pressure and an epi-cuticle layer, it is not easy for the dye to penetrate the cells. Therefore, we developed the cut-staining method to allow aniline blue dye to penetrate easily. However, there is a risk of synthesis of new callose that can influence the staining results, which is a limitation of the normal callose staining method. To avoid such effects, the staining protocol is modified by adding the callose synthase inhibitor 2-D-deoxy glucose (DDG) to the staining buffer. Thus, this protocol involves the measurement of pre-existing callose only in the lower region of the hypocotyl that is exactly below the cut site. Avoid the use of freshly prepared aniline blue, and keep the aniline blue solution at RT for a minimum of 48 hr prior to use. We noticed that staining with fresh aniline blue solution does not give optimum callose staining results.
Overall, we have presented a set of strategies that can be used for the rapid screening of mutants/over-expression lines with a defective or enhanced tropic response by altering PD SEL by directly or indirectly modulating PD callose. An earlier fact about tropic responses was majorly restricted to the action of auxin carriers and signaling players, such as PINIOD2-14. In addition, we have also established a critical role of symplasmic movement of auxin in maintaining an auxin gradient in the hypocotyl system15. The simplicity and versatility of this method undoubtedly reinforce its utility in investigating candidate genes for their regulation of PD SEL, thereby playing a vital role in plant development, including tropic responses.

Plants, as sessile living organisms, have developed a highly sophisticated network of cell-to-cell signaling to address various environmental stimuli. Tropic responses are one of the phenomena by which plants respond to environmental stimuli. Plants show two main tropic responses, phototropism and gravitropism. Photosynthetic plants bend toward the light source by phototropism to harvest maximum energy. Similarly, gravitropism makes the plants to grow toward the gravity center. The fundamental mechanism leading to such tropic responses involves asymmetric gradient formation of the phytohormone auxin1. The act of local auxin gradient formation is well characterized; the genes that are involved in this mechanism provide a roadmap for hormone action2-8. The specific position of auxin efflux carriers, such as PIN-FORMED (PIN) and P-glycoproteins, executes the movement of auxin from the cytoplasm to the cell wall of donor cells9,10. Furthermore, by the active H+/IAA symport activity of auxin influx carriers, such as AUX1/LAX family proteins, auxin is finally delivered to the adjacent receiver cells2,11,12. This directional movement of auxin is known as polar auxin transport (PAT). PAT leads to a differential auxin distribution during various developmental stages and in response to different environmental stimuli13,14. Moreover, the disruption in localization or expression of any of these auxin influx or efflux carriers leads to severe alteration in PAT, which causes a disruption of the auxin gradient, leading to developmental defects. Recently, Han et al. reported that plasmodesmal regulation is also necessary to maintain the auxin gradient15. To date, more than 30 plasmodesmal proteins have been identified16. Among these proteins, AtGSL8 has been reported as a key enzyme for callose synthesis at plasmodesmata (PD) and hence plays a vital role in maintaining the PD size exclusion limit (SEL). Repressed AtGSL8 expression resulted in a distorted auxin gradient pattern leading to no tropic response in contrast to wild type seedlings15.
In this manuscript, methods to explore new candidate genes that are involved in PD regulation are provided. AtGSL8 was used as a model protein to test these methods, as it is a key enzyme contributing to PD callose biosynthesis. Due to the seedling-lethality of gsl8 knock-out mutants17, dexamethasone (dex)-inducible RNAi lines were used in accordance with a previously published report15. The strategy provided here can be adapted to screen genes that are implicated in hypocotyl tropic response controlled by PD SEL.

<table><tbody><tr><td>HPTS (8-Hydroxypyrene -1,3,6-trisulfonic acid trisodium salt)</td><td>Sigma</td><td>H1529-1G</td><td>Fluorescent dye as symplasmic tracer</td></tr><tr><td>LE Agarose</td><td>Dongin-Genomic</td><td>GEL001-500G</td><td>Used for HPTS agarose block</td></tr><tr><td>Microwave oven</td><td>LG-Goldstar</td><td></td><td>Machine for boiling agarose gel</td></tr><tr><td>100 ml glass conical flask</td><td>Dong Kwang</td><td>A0205</td><td>Used to boil HPTS agarose gel</td></tr><tr><td>Petri dish (35 mm x 10 mm)</td><td>SPL life sciences</td><td>SPL10035</td><td>Used to make HPTS agarose blocks and wash plant samples&amp;nbsp;</td></tr><tr><td>Microscope cover slides and glass slides (24 mm x 50 mm)</td><td>Marienfeld Laboratory Glassware</td><td>101222</td><td>Used for HPTS agarose blocks and microscopic sample preparation</td></tr><tr><td>MS medium plates 125 mm x 125 mm x 20 mm</td><td>SPL life sciences</td><td>SPL11125</td><td>Plates to make MS agar medium</td></tr><tr><td>Scissors</td><td>Germany Stainless</td><td>HSB 942-11</td><td>Used to excise hook region of plant samples</td></tr><tr><td>Murashige and Skoog (MS) basal salt mixture</td><td>Duchefa</td><td>P10453.01</td><td>MS medium including vitamins.</td></tr><tr><td>(N-morpholino) ethanesulfonic acid (MES) monohydrate</td><td>Bioshop</td><td>3G30212</td><td>To make MS media.</td></tr><tr><td>Plant agar</td><td>Duchefa</td><td>P1001.1000</td><td>To solidify MS media.</td></tr><tr><td>Autoclave</td><td>ALP</td><td>CL-40L</td><td></td></tr><tr><td>Shaker</td><td>Wise Mix</td><td>SHO-1D</td><td>To wash off the aniline blue staining buffer and HPTS dye in a placid way.</td></tr><tr><td>1 ml Blue tips</td><td>Sorenson</td><td>10040</td><td></td></tr><tr><td>1 ml pipette</td><td>BioPette</td><td>L-1101-2</td><td></td></tr><tr><td>Surgical tape</td><td>MIcropore</td><td>1530-0</td><td>To seal the MS plate</td></tr><tr><td>Aniline blue (Methyl blue)</td><td>Sigma</td><td>M5528-25G</td><td>Used to prepare aniline blue staining buffer.</td></tr><tr><td>Glycine</td><td>Bioshop</td><td>GLN001</td><td>Used to prepare aniline blue staining buffer.</td></tr><tr><td>DDG</td><td>Sigma</td><td>D8375-1G</td><td>Used for the inhibition of callose synthases.</td></tr><tr><td>Confocal microscope</td><td>Olympus</td><td>FV1000MPE SIM</td><td>To check aniline blue staining and HPTS dye loading result.</td></tr><tr><td>Stirrer&amp;nbsp;</td><td>I lab&amp;nbsp;</td><td>K400</td><td>To mix media solution.</td></tr><tr><td>Aluminium foil</td><td>SW cooking foil</td><td></td><td>To wrap plates in a dark condition.</td></tr><tr><td>Sodium hypochlorite</td><td>Samjin Industry</td><td></td><td>To surface-sterilized seeds</td></tr></tbody></table>

a strategy to validate the role of callose-mediated plasmodesmal gating in the tropic response

The plant hormone auxin plays an important role in many growth and developmental processes, including tropic responses to light and gravity. The establishment of an auxin gradient is a key event leading to phototropism and gravitropism. Previously, polar auxin transport (PAT) was shown to establish an auxin gradient in different cellular domains of plants. However, Han et al. recently demonstrated that for proper auxin gradient formation, plasmodesmal callose-mediated symplasmic connectivity between the adjacent cells is also a critical factor. In this manuscript, the strategy to elucidate the role of particular genes, which can affect phototropism and gravitropism by altering the symplasmic connectivity through modulating plasmodesmal callose synthesis, is discussed. The first step is to screen aberrant tropic responses from 3-day-old etiolated seedlings of mutants or over-expression lines of a gene along with the wild type. This preliminary screening can lead to the identification of a range of genes functioning in PAT or controlling symplasmic connectivity. The second screening involves the sorting of candidates that show altered tropic responses by affecting symplasmic connectivity. To address such candidates, the movement of a symplasmic tracer and the deposition of plasmodesmal callose were examined. This strategy would be useful to explore new candidate genes that can regulate symplasmic connectivity directly or indirectly during tropic responses and other developmental processes.

In the current setup, dexamethasone (dex)-inducible RNAi lines of AtGSL8 [hereafter dsGSL8 (+dex/-dex)] were used, as homozygous gsl8 T-DNA insertion mutants are seedling lethal18. Three-day-old etiolated seedlings of dsGSL8 and wild type seedlings with &#177;dex were exposed to phototropic and gravitropic stimuli. We found that dsGSL8 (+dex) seedlings were defective in phototropism and gravitropism15. Figure 5 clearly shows that dsGSL8 (+dex) exhibits no bending under the influence of both phototropism and gravitropism. Furthermore, alteration in symplasmic movement in dsGSL8 (+dex) and dsGSL8 (-dex) or Col-0 was analyzed by a HPTS loading assay. Consistent with our previous finding, the HPTS dye movement in dsGSL8 (+dex) was substantially more extensive than in dsGSL8 (-dex) or Col-0, as shown in Figure 6. Callose is one of the key regulators of PD SEL, and AtGSL8 is known as a PD callose synthase16. Furthermore, callose aniline blue staining was carried out, and dsGSL8 (+dex) have persistently shown a low PD callose level before and after tropic responses, as shown in Figure 7.

<img alt="Figure 1" src="/files/ftp_upload/53513/53513fig1.jpg" /> 
Figure 1. Flow chart of the steps that are involved in the stimulation of phototropic and gravitropic responses. (A) Transfer vertically grown seedlings from different plant backgrounds to one plate but in separate lines. (B) For phototropism, keep the plates facing towards unilateral white light in a dark box that is opened on one side. For gravitropism, first wrap the plates with aluminum foil, rotate 90&#176;, and transfer to a dark box (covered from all sides). (C) Using a scanner, scan the plates after different intervals of time, such as 1.5 hr, 3 hr, 6 hr and 12 hr. (D and E) These panels show data generation from ImageJ and data analysis using spreadsheet files, respectively. <a href="https://www-jove-com.bdigitaluss.remotexs.co/files/ftp_upload/53513/53513fig1large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 2" src="/files/ftp_upload/53513/53513fig2.jpg" /> 
Figure 2. Measurement of the bending angle by ImageJ. (A) View the Image J program by double clicking. (B) The major tools that were used in the angle measurement. (C) Open the &#34;File&#34; option followed by the sub-option &#34;open&#34; in the Image J toolbar to open microscopy pictures that were saved in JPEG file format. (D) Use the magnifying tool to zoom in or out on the picture by clicking the left or right mouse button, respectively. (E) Use the angle tool to measure the angle of bending. (F) Outline of the angle measurement: <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />abc defines a fixed <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />A, and the true bending angle is calculated as <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />B, which is equal to 180&#176;-<img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />A. (G) Line representing the distance from point a to point b. (H) Continuity of line a-b to point c making <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />A. (I) Result file of Image J showing <img alt="angle" src="/files/ftp_upload/53513/angle.jpg" />A value. (J) Representative spreadsheet file displaying the average bending angle measurements, standard deviations, standard errors and t-test calculations. (K) Bar graph diagram displaying the bending angle measurements between two different plant backgrounds Col-0 and dsGSL8 EMS mutant. Error bars are SEM (standard error of the mean +) and *** represents the significance by T-test (p value &#62;0.001). <a href="https://www-jove-com.bdigitaluss.remotexs.co/files/ftp_upload/53513/53513fig2large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 3" src="/files/ftp_upload/53513/53513fig3.jpg" /> 
Figure 3. Outline of the steps that are involved in the HPTS loading assay. (A) Panel showing the preparation of HPTS agarose blocks. (B) Panel representing the excision and transfer of seedlings and the loading of HPTS agarose blocks. (C) Panel displaying the steps that are involved in sample preparation for confocal imaging. <a href="https://www-jove-com.bdigitaluss.remotexs.co/files/ftp_upload/53513/53513fig3large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 4" src="/files/ftp_upload/53513/53513fig4.jpg" /> 
Figure 4. Measurement of the callose intensity by ImageJ. (A) View the ImageJ program by double clicking. (B) The major tools that were used in the callose intensity measurement. (C) Open the &#34;File&#34; option followed by the sub-option &#34;open&#34; in the ImageJ toolbar to open microscopy pictures that were saved in JPEG file format. (D) The rectangular icon on ImageJ toolbar. (E) The selected area of the image for analyzing the callose intensity. (F) ImageJ result file displaying the callose intensity value as &#34;Mean&#34;. (G) Representative spreadsheet file displaying the average callose intensity measurements, standard deviations, standard errors and t-test calculations. (H) Bar graph diagram representing the callose intensity difference between the two plant backgrounds. Error bars are SEM (standard error of the mean +) and *** represents the significance by T-test (p value &#62;0.001). <a href="https://www-jove-com.bdigitaluss.remotexs.co/files/ftp_upload/53513/53513fig4large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 5" src="/files/ftp_upload/53513/53513fig5.jpg" /> 
Figure 5. Reduction of AtGSL8 expression leads to defective tropic responses. (A) Phototropic response showed by dsGSL8 (&#177;dex) along with Col-0. (B) Gravitropic response shown by dsGSL8 (&#177;dex) along with Col-0. dsGSL8 (+dex) shows no phototropic or gravitropic responses. dsGSL8 (+dex) and dsGSL8 (-dex) symbolize dexamethasone-treated and untreated dsGSL8-inducible RNAi lines, respectively. Scale bar represents 0.2 cm. <a href="https://www-jove-com.bdigitaluss.remotexs.co/files/ftp_upload/53513/53513fig5large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 6" src="/files/ftp_upload/53513/53513fig6.jpg" /> 
Figure 6. The symplasmic movement increased after the suppression of AtGSL8. Fluorescence images were taken after HPTS loading to dsGSL8&#177;dex hypocotyl cut surfaces along with wild type Col-0. dsGSL8 (+dex) showed more extensive movement of HPTS dye, demonstrating increased symplasmic movement. Scale bar represents 0.2 mm. <a href="https://www-jove-com.bdigitaluss.remotexs.co/files/ftp_upload/53513/53513fig6large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 7" src="/files/ftp_upload/53513/53513fig7.jpg" /> 
Figure 7. AtGSL8 suppressed lines showed symmetric PD callose distribution between illuminated and shaded sides of the hypocotyl. (A) Fluorescence image showing aniline blue callose staining for dsGSL8 (-dex) at 0 hr. (B) Fluorescence image showing aniline blue callose staining for dsGSL8 (-dex) after 6 hr of phototropism. (C) Fluorescence image showing aniline blue callose staining for dsGSL8 (+dex) after 6 hr of phototropism. Yellow arrows indicate the callose accumulation on shaded region of hypocotyl. Scale bar represents 50 &#181;m. (D) Bar graph diagram representing the amount of PD callose that accumulated in dsGSL8 (&#177;dex) hypocotyls before and after 3 hr and 6 hr of phototropism. Fluorescence foci intensities were measured from ten independent hypocotyls (data are mean &#177; SD; Student&#39;s t-test, *p &#60;0.01). This figure has been modified from (Han et al., 2014) 15. <a href="https://www-jove-com.bdigitaluss.remotexs.co/files/ftp_upload/53513/53513fig7large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>

Watch this Scientific Journal Video about A Strategy to Validate the Role of Callose-mediated Plasmodesmal Gating in the Tropic Response at JoVE.com

A Strategy to Validate the Role of Callose-mediated Plasmodesmal Gating in the Tropic Response

This article describes the methods for screening the genes controlling plasmodesmal permeability and hence auxin gradient during tropic response. This includes the measurement of the degree of tropic response in hypocotyl of Arabidopsis thaliana and checking plasmodesmal permeability by 8-hydroxypyrene-1,3,6-trisulfonic acid (HPTS) loading and finally callose level assessment.

The plant hormone auxin plays an important role in many growth and developmental processes, including tropic responses to light and gravity. The ...

a-strategy-to-validate-role-callose-mediated-plasmodesmal-gating

Universidad San Sebastian

Research

JoVE Journal

Biology

10.2K Views.  Gyeongsang National University. This article describes the methods for screening the genes controlling plasmodesmal permeability and hence auxin gradient during tropic response. This includes the measurement of the degree of tropic response in hypocotyl of Arabidopsis thaliana and checking plasmodesmal permeability by 8-hydroxypyrene-1,3,6-trisulfonic acid (HPTS) loading and finally callose level assessment.

Video: A Strategy to Validate the Role of Callose-mediated Plasmodesmal Gating in the Tropic Response

Use of Label-free Optical Biosensors to Detect Modulation of Potassium Channels by G-protein Coupled Receptors

Ion channels control the electrical properties of neurons and other excitable cell types by selectively allowing ions to flow through the plasma membrane1. To regulate neuronal excitability, the biophysical properties of ion channels are modified by signaling proteins and molecules, which often bind to the channels themselves to form a heteromeric channel complex2,3. Traditional assays examining the interaction between channels and regulatory proteins require exogenous labels that can potentially alter the protein&#39;s behavior and decrease the physiological relevance of the target, while providing little information on the time course of interactions in living cells. Optical biosensors, such as the X-BODY Biosciences BIND Scanner system, use a novel label-free technology, resonance wavelength grating (RWG) optical biosensors, to detect changes in resonant reflected light near the biosensor. This assay allows the detection of the relative change in mass within the bottom portion of living cells adherent to the biosensor surface resulting from ligand induced changes in cell adhesion and spreading, toxicity, proliferation, and changes in protein-protein interactions near the plasma membrane. RWG optical biosensors have been used to detect changes in mass near the plasma membrane of cells following activation of G protein-coupled receptors (GPCRs), receptor tyrosine kinases, and other cell surface receptors. Ligand-induced changes in ion channel-protein interactions can also be studied using this assay. In this paper, we will describe the experimental procedure used to detect the modulation of Slack-B sodium-activated potassium (KNa) channels by GPCRs.

Optical biosensor techniques can detect changes in mass near the plasma membrane in living cells and allow one to follow cellular responses in both individual cells and populations of cells. This protocol will describe detection of the modulation of potassium channels by G-protein coupled receptors in intact cells using this approach.

Ion channels control the electrical properties of neurons and other excitable cell types by selectively allowing ions to flow through the plasma ...

Bioengineering

Identification of Plasmodesmal Localization Sequences in Proteins In Planta

Plasmodesmata (Pd) are cell-to-cell connections that function as gateways through which small and large molecules are transported between plant cells. Whereas Pd transport of small molecules, such as ions and water, is presumed to occur passively, cell-to-cell transport of biological macromolecules, such proteins, most likely occurs via an active mechanism that involves specific targeting signals on the transported molecule. The scarcity of identified plasmodesmata (Pd) localization signals (PLSs) has severely restricted the understanding of protein-sorting pathways involved in plant cell-to-cell macromolecular transport and communication. From a wealth of plant endogenous and viral proteins known to traffic through Pd, only three PLSs have been reported to date, all of them from endogenous plant proteins. Thus, it is important to develop a reliable and systematic experimental strategy to identify a functional PLS sequence, that is both necessary and sufficient for Pd targeting, directly in the living plant cells. Here, we describe one such strategy using as a paradigm the cell-to-cell movement protein (MP) of the Tobacco mosaic virus (TMV). These experiments, that identified and characterized the first plant viral PLS, can be adapted for discovery of PLS sequences in most Pd-targeted proteins.

Identification of Plasmodesmal Localization Sequences in Proteins In Planta

Plant intercellular connections, the plasmodesmata (Pd), play central roles in plant physiology and plant-virus interactions. Critical to Pd transport are sorting signals that direct proteins to Pd. However, our knowledge about these sequences is still in its infancy. We describe a strategy to identify Pd localization signals in Pd-targeted proteins.

Plasmodesmata (Pd) are cell-to-cell connections that function as gateways through which small and large molecules are transported between plant cells. ...

Immunology and Infection

Examining Monosynaptic Connections in Drosophila Using Tetrodotoxin Resistant Sodium Channels

Here, a new technique termed Tetrotoxin (TTX) Engineered Resistance for Probing Synapses (TERPS) is applied to test for monosynaptic connections between target neurons. The method relies on co-expression of a transgenic activator with the tetrodotoxin-resistant sodium channel, NaChBac, in a specific presynaptic neuron. Connections with putative post-synaptic partners are determined by whole-cell recordings in the presence of TTX, which blocks electrical activity in neurons that do not express NaChBac. This approach can be modified to work with any activator or calcium imaging as a reporter of connections. TERPS adds to the growing set of tools available for determining connectivity within networks. However, TERPS is unique in that it also reliably reports bulk or volume transmission and spillover transmission.

Examining Monosynaptic Connections in Drosophila Using Tetrodotoxin Resistant Sodium Channels

This article features a method to test the monosynaptic connections between neurons by employing tetrodotoxin and the tetrodotoxin-resistant sodium channel, NaChBac.

Here, a new technique termed Tetrotoxin (TTX) Engineered Resistance for Probing Synapses (TERPS) is applied to test for monosynaptic connections between ...

Neuroscience

Automated Stomatal Response Measurement to Bacterial Invasion in Arabidopsis

Direct Observation and Automated Measurement of Stomatal Responses to Pseudomonas syringae pv. tomato DC3000 in Arabidopsis thaliana

Stomata are microscopic pores found in the plant leaf epidermis. Regulation of stomatal aperture is pivotal not only for balancing carbon dioxide uptake for photosynthesis and transpirational water loss but also for restricting bacterial invasion. While plants close stomata upon recognition of microbes, pathogenic bacteria, such as Pseudomonas syringae pv. tomato DC3000 (Pto), reopen the closed stomata to gain access into the leaf interior. In conventional assays for assessing stomatal responses to bacterial invasion, leaf epidermal peels, leaf discs, or detached leaves are floated on bacterial suspension, and then stomata are observed under a microscope followed by manual measurement of stomatal aperture. However, these assays are cumbersome and may not reflect stomatal responses to natural bacterial invasion in a leaf attached to the plant. Recently, a portable imaging device was developed that can observe stomata by pinching a leaf without detaching it from the plant, together with a deep learning-based image analysis pipeline designed to automatically measure stomatal aperture from leaf images captured by the device. Here, building on these technical advances, a new method to assess stomatal responses to bacterial invasion in Arabidopsis thaliana is introduced. This method consists of three simple steps: spray inoculation of Pto mimicking natural infection processes, direct observation of stomata on a leaf of the Pto-inoculated plant using the portable imaging device, and automated measurement of stomatal aperture by the image analysis pipeline. This method was successfully used to demonstrate stomatal closure and reopening during Pto invasion under conditions that closely mimic the natural plant-bacteria interaction.

Author Spotlight: Advancing Stomatal Research with Automated Aperture Measurement

Here, we present a simple method for direct observation and automated measurement of stomatal responses to bacterial invasion in Arabidopsis thaliana. This method leverages a portable stomatal imaging device, together with an image analysis pipeline designed for leaf images captured by the device.

Stomata are microscopic pores found in the plant leaf epidermis. Regulation of stomatal aperture is pivotal not only for balancing carbon dioxide uptake ...

Assessment of Dictyostelium discoideum Response to Acute Mechanical Stimulation

Chemotaxis, or migration up a gradient of a chemoattractant, is the best understood mode of directed migration. Studies using social amoeba Dictyostelium discoideum revealed that a complex signal transduction network of parallel pathways amplifies the response to chemoattractants, and leads to biased actin polymerization and protrusion of a pseudopod in the direction of a gradient. In contrast, molecular mechanisms driving other types of directed migration, for example, due to exposure to shear flow or electric fields, are not known. Many regulators of chemotaxis exhibit localization at the leading or lagging edge of a migrating cell, as well as show transient changes in localization or activation following global stimulation with a chemoattractant. To understand the molecular mechanisms of other types of directed migration we developed a method that allows examination of cellular response to acute mechanical stimulation based on brief (2 - 5 s) exposure to shear flow. This stimulation can be delivered in a channel while imaging cells expressing fluorescently-labeled biosensors to examine individual cell behavior. Additionally, cell population can be stimulated in a plate, lysed, and immunoblotted using antibodies that recognize active versions of proteins of interest. By combining both assays, one can examine a wide array of molecules activated by changes in subcellular localization and/or phosphorylation. Using this method we determined that acute mechanical stimulation triggers activation of the chemotactic signal transduction and actin cytoskeleton networks. The ability to examine cellular responses to acute mechanical stimulation is important for understanding the initiating events necessary for shear flow-induced motility. This approach also provides a tool for studying the chemotactic signal transduction network without the confounding influence of the chemoattractant receptor.

Assessment of Dictyostelium discoideum Response to Acute Mechanical Stimulation

Here we describe methods for assessing cellular response to acute mechanical stimulation. In the microscopy-based assay, we examine localization of fluorescently-labeled biosensors following brief stimulation with shear flow. We also test activation of various proteins of interest in response to acute mechanical stimulation biochemically.

Chemotaxis, or migration up a gradient of a chemoattractant, is the best understood mode of directed migration. Studies using social amoeba Dictyostelium ...

Wide-Field, Real-Time Imaging of Local and Systemic Wound Signals in Arabidopsis

Plants respond to mechanical stresses such as wounding and herbivory by inducing defense responses both in the damaged and in the distal undamaged parts. Upon wounding of a leaf, an increase in cytosolic calcium ion concentration (Ca2+ signal) occurs at the wound site. This signal is rapidly transmitted to undamaged leaves, where defense responses are activated. Our recent research revealed that glutamate leaking from the wounded cells of the leaf into the apoplast around them serves as a wound signal. This glutamate activates glutamate receptor-like Ca2+ permeable channels, which then leads to long-distance Ca2+ signal propagation throughout the plant. The spatial and temporal characteristics of these events can be captured with real-time imaging of living plants expressing genetically encoded fluorescent biosensors. Here we introduce a plant-wide, real-time imaging method to monitor the dynamics of both the Ca2+ signals and changes in apoplastic glutamate that occur in response to wounding. This approach uses a wide-field fluorescence microscope and transgenic Arabidopsis plants expressing Green Fluorescent Protein (GFP)-based Ca2+ and glutamate biosensors. In addition, we present methodology to easily elicit wound-induced, glutamate-triggered rapid and long-distance Ca2+ signal propagation. This protocol can also be applied to studies on other plant stresses to help investigate how plant systemic signaling might be involved in their signaling and response networks.

Wide-Field, Real-Time Imaging of Local and Systemic Wound Signals in Arabidopsis

Extracellular glutamate-triggered systemic calcium signaling is critical for the induction of plant defense responses to mechanical wounding and herbivore attack in plants. This article describes a method to visualize the spatial and temporal dynamics of both these factors using Arabidopsis thaliana plants expressing calcium- and glutamate-sensitive fluorescent biosensors.

Plants respond to mechanical stresses such as wounding and herbivory by inducing defense responses both in the damaged and in the distal undamaged parts. ...

A Fluorescence-Based Assay of Membrane Potential for High-Throughput Functional Study of Two Endogenous Ion Channels in Two Epithelial Cell Lines

Fluorescence-based studies are suitable for high-throughput plate reader assays of cells in culture. They have been commonly employed for drug discovery campaigns targeting recombinant ion channel proteins overexpressed in cells such as HEK-293 cells. However, there is increasing emphasis on the use of tissue-relevant cell lines for studying the effects of small molecule interventions. The following protocol describes the adaptation of a fluorescence-based membrane potential assay for the study of ion channels endogenously expressed in epithelial cell lines. The membrane potential assay details a high-throughput assay for chloride channel activity of the Cystic Fibrosis Transmembrane Conductance Regulator (CFTR) in two commonly studied epithelial cell lines, Caco-2 and Calu-3. In addition, this paper describes a novel application of this system to measure the activity of the Epithelial Sodium Channel (ENaC) in a high-throughput format in the same epithelial cell lines. Together, these fluorescence-based assays provide a robust and flexible platform for studying small molecule modulators, targeting two epithelial channels in a relevant cellular context.

This protocol describes a method for the study of electrogenic membrane proteins by measuring changes in membrane potential. This assay provides a platform for the functional readout of multiple ion channels endogenously expressed in epithelial cell lines.

Fluorescence-based studies are suitable for high-throughput plate reader assays of cells in culture. They have been commonly employed for drug discovery ...

Combining Clearing and Fluorescence Microscopy for Visualising Changes in Gene Expression and Physiological Responses to Plasmodiophora brassicae

Infection of Brassica crops by the soilborne protist Plasmodiophora brassicae leads to gall formation on the underground organs. The formation of galls requires cellular reprogramming and changes in the metabolism of the infected plant. This is necessary to establish a pathogen-oriented physiological sink toward which the host nutrients are redirected. For a complete understanding of this particular plant-pathogen interaction and the mechanisms by which host growth and development are subverted and repatterned, it is essential to track and observe the internal changes accompanying gall formation with cellular resolution. Methods combining fluorescent stains and fluorescent proteins are often employed to study anatomical and physiological responses in plants. Unfortunately, the large size of galls and their low transparency act as major hurdles in performing whole-mount observations under the microscope. Moreover, low transparency limits the employment of fluorescence microscopy to study clubroot disease progression and gall formation. This article presents an optimized method for fixing and clearing galls to facilitate epifluorescence and confocal microscopy for inspecting P. brassicae-infected galls. A tissue-clearing protocol for rapid optical clearing was used followed by vibratome sectioning to detect anatomical changes and localize gene expression with promoter fusions and reporter lines tagged with fluorescent proteins. This method will prove useful for studying cellular and physiological responses in other pathogen-triggered structures in plants, such as nematode-induced syncytia and root knots, as well as leaf galls and deformations caused by insects.

Combining Clearing and Fluorescence Microscopy for Visualising Changes in Gene Expression and Physiological Responses to Plasmodiophora brassicae

The present protocol describes an optimized method for the histological observation of galls induced by Plasmodiophora brassicae. Vibratome sections of hypocotyls are cleared before fluorescence imaging to study the involvement of transcription factors and phytohormones during disease progression. This protocol overcomes resin embedding limitations, enabling in planta visualization of fluorescent proteins.

Infection of Brassica crops by the soilborne protist Plasmodiophora brassicae leads to gall formation on the underground organs. The formation of galls ...

Spatiotemporal Investigation of ERL1 Dynamics via Confocal Imaging

Image-Based Methods to Study Membrane Trafficking Events in Stomatal Lineage Cells

In eukaryotic cells, membrane components, including proteins and lipids, are spatiotemporally transported to their destination within the endomembrane system. This includes the secretory transport of newly synthesized proteins to the cell surface or the outside of the cell, the endocytic transport of extracellular cargoes or plasma membrane components into the cell, and the recycling or shuttling transport of cargoes between the subcellular organelles, etc. Membrane trafficking events are crucial to the development, growth, and environmental adaptation of all eukaryotic cells and, thus, are under stringent regulation. Cell-surface receptor kinases, which perceive ligand signals from the extracellular space, undergo both secretory and endocytic transport. Commonly used approaches to study the membrane trafficking events using a plasma membrane-localized leucine-rich-repeat receptor kinase, ERL1, are described here. The approaches include plant material preparation, pharmacological treatment, and confocal imaging setup. To monitor the spatiotemporal regulation of ERL1, this study describes the co-localization analysis between ERL1 and a multi-vesicular body marker protein, RFP-Ara7, the time series analysis of these two proteins, and the z-stack analysis of ERL1-YFP treated with the membrane trafficking inhibitors brefeldin A and wortmannin.

Author Spotlight: Image-Based Methods to Study Membrane Trafficking Events in Stomatal Lineage Cells  

Several commonly used methods are introduced here to study the membrane trafficking events of a plasma membrane receptor kinase. This manuscript describes detailed protocols including the plant material preparation, pharmacological treatment, and confocal imaging setup.

In eukaryotic cells, membrane components, including proteins and lipids, are spatiotemporally transported to their destination within the endomembrane ...

Laser Induced Thermoplasmonic Puncture for the Study of Plasma Membrane Repair

A Thermoplasmonic Approach for Investigating Plasma Membrane Repair in Living Cells and Model Membranes

The cell membrane is crucial for cell survival, and ensuring its integrity is essential as the cell experiences injuries throughout its entire life cycle. To prevent damage to the membrane, cells have developed efficient plasma membrane repair mechanisms. These&#160;repair mechanisms can be studied by combining confocal microscopy and nanoscale thermoplasmonics to identify and investigate the role of key proteins, such as annexins, involved in surface repair in living cells and membrane model systems.
The puncturing method employs a laser to induce highly localized heating upon nanoparticle irradiation. The use of near-infrared light minimizes phototoxicity in the biological sample, while the majority of the absorption takes place in the near-infrared resonant plasmonic nanoparticle. This thermoplasmonic method has been exploited for potential photothermal and biophysical research to enhance the understanding of intracellular mechanisms and cellular responses through vesicle and cell fusion studies. The approach has shown to be complementary to existing methods for membrane disruption, such as mechanically, chemically, or optically induced injuries, and provides a high level of control by inflicting extremely localized injuries. The extent of the injury is limited to the vicinity of the spherical nanoparticle, and no detrimental damage occurs along the beam path as opposed to pulsed lasers using different wavelengths. Despite certain limitations, such as the formation of nanobubbles, the thermoplasmonic method offers a unique tool for investigating cellular responses in plasma membrane repair in an almost native environment without compromising cell viability.
When integrated with confocal microscopy, the puncturing method can provide a mechanistic understanding of membrane dynamics in model membrane systems as well as quantitative information on protein responses to membrane damage, including protein recruitment and their biophysical function. Overall, the application of this method to reduced model systems can enhance our understanding of the intricate plasma membrane repair machinery in living cells.

Author Spotlight: Exploring Plasma Membrane Repair Mechanisms with Innovative Thermoplasmonic Puncturing 

The thermoplasmonic puncture method integrates confocal microscopy, optical tweezers, and gold nanoparticles to study protein responses during plasma membrane repair in cells and giant unilamellar vesicles. The technique enables rapid and localized membrane puncture, allowing the identification of key proteins and their functional roles in the intricate plasma membrane repair machinery.

The cell membrane is crucial for cell survival, and ensuring its integrity is essential as the cell experiences injuries throughout its entire life cycle. ...

A Strategy to Validate the Role of Callose-mediated Plasmodesmal Gating in the Tropic Response

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Chapters in this video

Use of Label-free Optical Biosensors to Detect Modulation of Potassium Channels by G-protein Coupled Receptors

Identification of Plasmodesmal Localization Sequences in Proteins In Planta

Examining Monosynaptic Connections in Drosophila Using Tetrodotoxin Resistant Sodium Channels

Direct Observation and Automated Measurement of Stomatal Responses to Pseudomonas syringae pv. tomato DC3000 in Arabidopsis thaliana

Assessment of Dictyostelium discoideum Response to Acute Mechanical Stimulation

Wide-Field, Real-Time Imaging of Local and Systemic Wound Signals in Arabidopsis

A Fluorescence-Based Assay of Membrane Potential for High-Throughput Functional Study of Two Endogenous Ion Channels in Two Epithelial Cell Lines

Combining Clearing and Fluorescence Microscopy for Visualising Changes in Gene Expression and Physiological Responses to Plasmodiophora brassicae

Image-Based Methods to Study Membrane Trafficking Events in Stomatal Lineage Cells

A Thermoplasmonic Approach for Investigating Plasma Membrane Repair in Living Cells and Model Membranes