This work is supported by the US Army Medical Research Award #81XWH-16-1-0710, University of Mississippi School of Pharmacy and the Department of BioMolecular Sciences.

1. General cell culture
<ol>
	<li>Culture cardiac fibroblasts in Dulbecco&#8217;s Modified Eagles Medium (DMEM) containing 1 g/L glucose, sodium pyruvate, L-glutamine, and supplemented with 14.2 mM NaHCO3, 14.9 mM HEPES, 15% heat-inactivated fetal bovine serum (FBS), 2% L-glutamine, and 0.02% antimicrobial reagent (see Table of Materials) and maintained in CO2 incubator at 37 &#176;C.</li>
	<li>Culture cardiac fibroblasts until 90-95% confluency is reached at passage 0 (P0). At this point the fibroblasts are ready to be split into a 48-well plate, which is used for the migration assay.</li>
</ol>
2. Preparation of the migration plate
<ol>
	<li>Prepare a 48-well cell culture plate by drawing a line, using a yellow or light-colored permanent marker, down the center of the well. Then, draw three hash marks dividing the well into three separate areas of interest. These sections will be used for imaging. 
	NOTE: Using a light color permanent marker will allow for easy imaging of migrating cells. Dark markers such as black or blue will prevent visualization of migrating cells.</li>
	<li>If assessing migration on a substrate (e.g., collagen), coat the well at this time following instructions and concentrations used for the specific substrate.</li>
	<li>Plate ~15,000-20,000 cardiac fibroblasts, P1, into each well and culture cells, under normal culturing conditions (conditions listed in previous section), until they reach 90-95% confluency. Confluency should be reached between 24-48 hours. 
	NOTE: When setting up the migration plate make sure to include a positive control (a known migratory cell, such as 3T3 cells18), a negative control (unscratched cells) and a blank well.</li>
</ol>
3. Scratch migration assay &#38; fixation
<ol>
	<li>Once cells reach 90-95% confluency, remove the media and scratch along the drawn line using a sterile P200 pipette tip. 
	NOTE: A P200 pipette tip is the common pipette tip sized used with the scratch assay10,14,19. Also, only make one pass with the P200 tip as more than one attempt may result in multiple scratch lines.</li>
	<li>Rinse the well with low serum media (1.5% FBS) to remove any unattached cardiac fibroblasts.</li>
	<li>Add 500 &#181;L of low serum media to each well. If using any pharmacological agents, add them at this time. 
	NOTE: Low serum media is used because it allows/promotes cell migration to occur and prevents fibroblasts from proliferating which could skew the results of the migration assay20. For this protocol, 1.5% FBS was used.</li>
	<li>Capture 0 h images before incubating the fibroblasts in a 5% CO2 incubator at 37 &#176;C for 24 h.
	<ol>
		<li>Capture 0 h images using an inverted microscope with a 20x objective. Take two 0 h images per well. This will allow for a more complete coverage of the line of migration.</li>
		<li>Using the markings (line and dashes), position the well to capture the top half of the line of scratch. Avoid imaging the middle dash to ensure that the same area of migration is not imaged twice, which could skew results.</li>
		<li>Use imaging software (Table of Materials) to capture 0 h image #1. Then move the plate to position the bottom half of the well/line of scratch in view of the camera. Again, avoid capturing the middle dash. Once in place, capture 0 h image #2 (Figure 1). 
		NOTE: Avoiding the middle dash in both 0 h images will prevent capturing areas of migration twice which if done could produce repeating results and skew the data.</li>
	</ol>
	</li>
	<li>After incubating for 24 h, remove the media from the well, and wash the well with 1x nonsterile PBS (henceforth all 1x PBS used is nonsterile).</li>
	<li>In the fume hood, add 500 &#181;L of 4% paraformaldehyde to the well and incubate for 10 minutes at room temperature (RT).</li>
	<li>Remove paraformaldehyde and wash 3x with 1x PBS for 5 min each at RT.</li>
	<li>Once cells are washed, proceed to capturing 24 h images or add 1x PBS to each well and place at 4 &#176;C until a later time. Cells can stay at 4 &#176;C for 1-2 weeks until ready to image.
	<ol>
		<li>Permeabilize the cells by adding 300 &#181;L of permeabilizing solution (1x PBS and 0.01% triton X-100) to each well. Incubate cells/plate with gentle, continual rocking for 30 min at RT.</li>
		<li>Remove permeabilizing&#160;solution and add 1% Coomassie Brilliant Blue stain (3% Coomassie Brilliant Blue, 10% acetic acid, 45% methanol, and 45% dH2O) for 10 min with gentle, continual rocking at RT. 
		NOTE: If plates are coated with an extracellular matrix substrate make sure to test a coated plate with Coomassie staining before conducting migration assay. Figure 2 demonstrates that a matrix substrate can be used with this assay and not impact visualization of cells.</li>
		<li>Wash wells 3x with 1x PBS at RT with continual rocking for 5 min each.</li>
		<li>After washes, added 300 &#181;L of 1x PBS and capture 24 h images.</li>
		<li>Capture 24 h images by aligning the well into the same position that was used to capture the 0 h images. In order to accomplish this, open the previously captured 0 h images and using the marking made with the permanent marker, align the well into the same position. The line down the middle and additional dash marks should allow close alignment between the 24 h image and the 0 h image (Figure 1).</li>
	</ol>
	</li>
</ol>
4. Preparation of 0 h and 24 h images
<ol>
	<li>Open 0 h and 24 h images taken of the same well and position in imaging software (Table of Materials).</li>
	<li>Create a new layer on the 0 h image. Then, click the new layer and change the name of the layer to &#8220;line layer&#8221; by double clicking on the text. 
	NOTE: This layer will be referred to as line layer from this point forth.</li>
	<li>Click the Brush Tool (brush icon) and set the size at 10 px and the color to red.</li>
	<li>With the line layer selected, draw two, separate lines that outline the area of the scratch. The lines should not touch any cells due to these lines marking the area of migration.</li>
	<li>Click the Move Tool (arrow icon) and then press down Ctrl button and click on both the line and background layers.</li>
	<li>Click in the center of the 0 h image and drag both these layers to the middle of the 24 h image.</li>
	<li>Now using the 24 h image, click on the 0 h background layer and change the opacity to 50%.</li>
	<li>Holding the Ctrl button, click on both the 0 h background and line layer and then free transform the layers (Edit&#62;Free Transform). Using free transformation, align the 0 h background and line image to the 24 h background image. This step results in the overlaying of the 0 h and 24 h image, which is necessary to position the lines that mark the area of migration in the correct position on the 24 h image.</li>
	<li>After successful overlaying of the 0 h background and line layers onto the 24 h background image, delete the 0 h background layer. Delete by clicking the 0 h background layer, then right click, and click delete layer.</li>
	<li>Deleting the 0 h background image will leave just the line and the 24 h background layer (now referred to as migration image). The line layer will indicate the area of migration/scratch on the 24 h image and can be used for determining the number of migrating cells.</li>
	<li>Save as the new migration image as both a photoshop file and a TIFF/JPEG. NOTE: a representative figure that depicts this process is presented in Figure 3.</li>
</ol>
5. Counting the number of migrating cells
<ol>
	<li>Open the migration image. This can be done in a program that accepts TIFF/JPEG files (Table of Materials).</li>
	<li>Count the number of cells that are located in between as well as touching the two red lines.</li>
	<li>Record the number of migrating cells per image. There will be two migrating images per well, and these values should not be combined until after the values have been corrected for area of migration (detailed in next section).</li>
</ol>
6. Determine area of migration
<ol>
	<li>Open the 24 h image that contains the lines of migration in the imaging software program in section 5 (Table of Materials).</li>
	<li>Save As this image as &#8220;Migration Area Image&#8221;.</li>
	<li>After saving, click the background layer, right click, and click delete layer. This should leave only the scratch lines on the image (Figure 3).</li>
	<li>Using the Brush Tool (brush icon) fill in the area between the lines of scratch. Match the color of the brush with the color used to draw the lines for migration.</li>
	<li>Change the image to a grayscale to generate a black and white image (Image&#62;Mode&#62;Grayscale) and then save the image (Figure 4).</li>
	<li>Start the analysis software (Table of Materials) and then open the &#8220;Area of Migration&#8221; file within analysis software.</li>
	<li>To determine the area of the line of migration, click Image&#62;Adjust&#62;Threshold. The black migration area will turn red and the percent area will be indicated in the Threshold box. The area will be reported as the percent of area the line of migration covers compared to the entire area captured in the image.</li>
	<li>Record the percent area for the line of migration and make sure that this value is paired with the number of migrating cells for the same image.</li>
</ol>
7. Data analysis
<ol>
	<li>Normalize the number of migrating cells to the percent area of the scratch. Divide the number of migrating cells by the percent area of the line of migration (# migrated cells % Area of migration). Do this per image and not an average based on migration per well.</li>
	<li>After normalizing values per image, add the values of the two images, which represents an individual well. This value will be used for graphical and statistical analysis. If the experimental design contained multiple replicates. Average replicate values before statistical analysis.</li>
</ol>

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The authors have nothing to disclose.

This new approach to the scratch migration assay provides a more accessible method for researchers to examine changes in cell migration. While this assay follows the same procedure for administering a scratch similar to other scratch assays, it does provide a new method for imaging and accurate analysis of cell migration10. Instead of using equipment-intensive methods of time-lapse microscopy and live cell imaging chambers, this method details the use of commonly available lab equipment. Utilizing...

Cell migration is crucial for many physiological as well as pathological events. It is required during development, for mounting an immune response, and for proper wound healing1,2,3. Many of these cell migration events can be triggered by physical or chemical signals. For example, during an immune response, leukocytes will migrate towards a site of injury in response to a chemoattractant2. Additionally, leukocytes will also release cytokines to induce migration of additional immune cells, as well as other cell types, such as fibroblasts, which are involved in the wound healing process, and thus, initiating a multicellular response4. The ability of cells to migrate is essential for proper physiological function; however, when cell migration goes unchecked, it can have an adverse response and contribute to pathological events, such as chronic inflammation, vascular disease, cancer metastasis, and impaired wound healing2,3,4,5,6,7. Impaired wound healing is a common affliction of diabetics due to defects in cell migration, and if these defects are not addressed, it could lead to further complications (e.g., amputation8,9). This study, as well as others, have indicated the need to further understand the process by which cell migration occurs, either under normal physiological or pathological conditions, and it is vital for furthering this field of research. In order to accomplish this, there needs to be migration assays available that are both accessible and affordable to those researchers, who may not possess the equipment needed to conduct these assays.
Currently, there are a variety of migration assays available to examine a wide range of topics regarding cell migration. Both 2D and 3D migration models have been developed, each targeting specific areas impacting cell migration. 3D migration models are typically associated with cell invasion studies and assess the impact of extracellular matrix on cell migration10,11,12, whereas 2D migration assays have a greater range of application and are primarily used to study chemotactic migration, wound healing, and functional changes during cell migration13,14,15,16. Several of these assays require additional equipment, such as Boyden chambers or exclusion rings, which can reduce the availability of these assays to certain researchers. One of the more cost-efficient assays is the scratch assay, which is typically used to assess wound healing and general changes in cell migration14,17. While most laboratories are equipped to conduct a scratch assay, the equipment used to track cell migration tend to either be unavailable or too expensive to purchase. This includes time-lapse microscopy, which requires an inverted microscope and a live imaging system. These expensive pieces of equipment are not commonly accessible to every laboratory. Therefore, this observation highlights the need for a new protocol that allows assessment of cell migration with more readily available equipment.
The protocol presented here provides a new and affordable way to assess cell migration. This method follows the same procedure associated with scratch assays but differs in the analysis of examining cell migration by utilizing equipment more commonly available in a basic sciences laboratory setting. This protocol using common equipment allows for a more accurate determination of cell migration without the use of time-lapse microscopy. In addition to determining migration, this method also accounts for variable factors in the scratch area that has been noted to greatly impact cell migration. Overall, this new protocol for cell migration analysis provides an opportunity for more laboratories to explore and contribute to the field of cell migration.

<table>
	<tbody>
		<tr>
			<td>Adobe All Apps</td>
			<td>Adobe</td>
			<td></td>
			<td>This includes Adobe photoshop which is the imaging software used with this protocol</td>
		</tr>
		<tr>
			<td>Avant Pipette Tips 200ul Binding non-sterile</td>
			<td>MIDSCI</td>
			<td>AVR1</td>
			<td>Tips are autoclaved to sterilize</td>
		</tr>
		<tr>
			<td>AxioCam Erc 5s Camera</td>
			<td>Zeiss</td>
			<td>426540-9901-000</td>
			<td></td>
		</tr>
		<tr>
			<td>Coomassie Brilliant Blue R-250</td>
			<td>Fisher Scientific</td>
			<td>BP101-25</td>
			<td></td>
		</tr>
		<tr>
			<td>Costar Flat Bottom Cell Culture Plates 48 Wells</td>
			<td>Fisher Scientific</td>
			<td>07-200-86</td>
			<td></td>
		</tr>
		<tr>
			<td>DMEM with L-Glutamine, 1g/L glucose and sodium pyruvate</td>
			<td>Fisher Scientific</td>
			<td>MT10014CM</td>
			<td></td>
		</tr>
		<tr>
			<td>Image J</td>
			<td>NIH</td>
			<td></td>
			<td>This is a free software offered by the US government and is the analysis software used with this protocol</td>
		</tr>
		<tr>
			<td>Paraformaldehyde</td>
			<td>Fisher Scientific</td>
			<td>AC416785000</td>
			<td></td>
		</tr>
		<tr>
			<td>Premium US origin fetal bovine serum</td>
			<td>Innovative Research</td>
			<td>IFBS-HU</td>
			<td></td>
		</tr>
		<tr>
			<td>Primocin</td>
			<td>InvivoGEN</td>
			<td>ant-pm-2</td>
			<td>This is the anitmicrobial used for with this procotol to culture cardiac fibroblasts</td>
		</tr>
		<tr>
			<td>Zeiss Primovert Microscope</td>
			<td>Zeiss</td>
			<td>491206-0002-000</td>
			<td></td>
		</tr>
		<tr>
			<td>Zen Blue Edition 2.3 software</td>
			<td>Zeiss</td>
			<td></td>
			<td>software comes with camera purchase</td>
		</tr>
	</tbody>
</table>

a cost effective and adaptable scratch migration assay

Cell migration is a key component in both physiological and pathological events. Normal cell migration is required for essential functions such as development and mounting an immune response. When a defect or alteration occurs with the cell migration process, it can have detrimental outcomes (i.e., cancer metastasis, wound healing, and scar formation). Due to the importance of cell migration, it is necessary to have access to a cell migration assay that is affordable, adaptable, and repeatable. Utilizing the common scratch migration assay, we have developed a new approach to analyzing cell migration that uses general laboratory equipment. The method described uses visual markers that allow for recapturing specific areas of interest without the use of time-lapse microscopy. In addition, it provides flexibility in the experimental design, ranging from altering the migration matrix substrate to the addition of pharmacological modifiers. Furthermore, this protocol outlines a way to account for the area of cell migration, which is not considered by several methods when examining cell migration. This new approach offers a scratch migration assay to a larger audience and will provide greater opportunity for researchers to examine the physiological and pathophysiological impact of cell migration.

This procedure documents a new approach to studying cell migration that is both cost-effective and easily adaptable for most labs. Many studies have used time-lapse microscopy to assess cell migration, but the equipment required for this method is not readily available to many laboratories. Whereas utilizing lines and dashes for demarcation allows for the ability to recapture specific areas of interest at different time points without the use of expensive equipment (Figure 1 &#38; <strong cl...

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A Cost Effective and Adaptable Scratch Migration Assay

We present a cost-effective method to the scratch migration assay that provides a new approach for determining cell migration without the use of equipment-intensive methods. While fibroblasts were used in this protocol, it can be adapted and utilized to study additional cell types and influences on cell migration.

Cell migration is a key component in both physiological and pathological events. Normal cell migration is required for essential functions such as ...

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5.2K Views.  University of Mississippi. We present a cost-effective method to the scratch migration assay that provides a new approach for determining cell migration without the use of equipment-intensive methods. While fibroblasts were used in this protocol, it can be adapted and utilized to study additional cell types and influences on cell migration.

Video: A Cost Effective and Adaptable Scratch Migration Assay

Agrobacterium-Mediated Virus-Induced Gene Silencing Assay In Cotton

Cotton (Gossypium hirsutum) is one of the most important crops worldwide. Considerable efforts have been made on molecular breeding of new varieties. The large-scale gene functional analysis in cotton has been lagged behind most of the modern plant species, likely due to its large size of genome, gene duplication and polyploidy, long growth cycle and recalcitrance to genetic transformation1. To facilitate high throughput functional genetic/genomic study in cotton, we attempt to develop rapid and efficient transient assays to assess cotton gene functions.
Virus-Induced Gene Silencing (VIGS) is a powerful technique that was developed based on the host Post-Transcriptional Gene Silencing (PTGS) to repress viral proliferation2,3. Agrobacterium-mediated VIGS has been successfully applied in a wide range of dicots species such as Solanaceae, Arabidopsis and legume species, and monocots species including barley, wheat and maize, for various functional genomic studies3,4. As this rapid and efficient approach avoids plant transformation and overcomes functional redundancy, it is particularly attractive and suitable for functional genomic study in crop species like cotton not amenable for transformation.
In this study, we report the detailed protocol of Agrobacterium-mediated VIGS system in cotton. Among the several viral VIGS vectors, the tobacco rattle virus (TRV) invades a wide range of hosts and is able to spread vigorously throughout the entire plant yet produce mild symptoms on the hosts5. To monitor the silencing efficiency, GrCLA1, a homolog gene of Arabidopsis Cloroplastos alterados 1 gene (AtCLA1) in cotton, has been cloned and inserted into the VIGS binary vector pYL156. CLA1 gene is involved in chloroplast development6, and previous studies have shown that loss-of-function of AtCLA1 resulted in an albino phenotype on true leaves7, providing an excellent visual marker for silencing efficiency. At approximately two weeks post Agrobacterium infiltration, the albino phenotype started to appear on the true leaves, with 100% silencing efficiency in all replicated experiments. The silencing of endogenous gene expression was also confirmed by RT-PCR analysis. Significantly, silencing could potently occur in all the cultivars we tested, including various commercially grown varieties in Texas. This rapid and efficient Agrobacterium-mediated VIGS assay provides a very powerful tool for rapid large-scale analysis of gene functions at genome-wide level in cotton.

We present the detailed protocol for Agrobacterium-mediated virus-induced gene silencing (VIGS) assay in cotton. The tobacco rattle virus (TRV)-derived VIGS vectors were deployed to induce RNA silencing of cotton GrCLA1, Cloroplastos alterados 1 gene. The albino phenotype caused by silencing GrCLA1 was observed at the seedling stage within 2 weeks after inoculation.

Cotton (Gossypium hirsutum) is one of the most important crops worldwide. Considerable efforts have been made on molecular breeding of new varieties.  The ...

Quantitative Analysis of Random Migration of Cells Using Time-lapse Video Microscopy

Cell migration is a dynamic process, which is important for embryonic development, tissue repair, immune system function, and tumor invasion 1, 2. During directional migration, cells move rapidly in response to an extracellular chemotactic signal, or in response to intrinsic cues 3 provided by the basic motility machinery. Random migration occurs when a cell possesses low intrinsic directionality, allowing the cells to explore their local environment.
Cell migration is a complex process, in the initial response cell undergoes polarization and extends protrusions in the direction of migration 2. Traditional methods to measure migration such as the Boyden chamber migration assay is an easy method to measure chemotaxis in vitro, which allows measuring migration as an end point result. However, this approach neither allows measurement of individual migration parameters, nor does it allow to visualization of morphological changes that cell undergoes during migration.
Here, we present a method that allows us to monitor migrating cells in real time using video - time lapse microscopy. Since cell migration and invasion are hallmarks of cancer, this method will be applicable in studying cancer cell migration and invasion in vitro. Random migration of platelets has been considered as one of the parameters of platelet function 4, hence this method could also be helpful in studying platelet functions. This assay has the advantage of being rapid, reliable, reproducible, and does not require optimization of cell numbers. In order to maintain physiologically suitable conditions for cells, the microscope is equipped with CO2 supply and temperature thermostat. Cell movement is monitored by taking pictures using a camera fitted to the microscope at regular intervals. Cell migration can be calculated by measuring average speed and average displacement, which is calculated by Slidebook software.

This method allows monitoring of cells in real time and quantitative measurements of different cell migration parameters such as speed, displacement, and velocity. Unlike the traditional methods, this real time approach is not based on endpoint quantitative migration measurements; instead it allows monitoring and calculating different parameters continuously.

Cell migration is a dynamic process, which is important for embryonic development, tissue repair, immune system function, and tumor invasion 1, 2. During ...

In vitro Cell Migration and Invasion Assays

Migration is a key property of live cells and critical for normal development, immune response, and disease processes such as cancer metastasis and inflammation. Methods to examine cell migration are very useful and important for a wide range of biomedical research such as cancer biology, immunology, vascular biology, cell biology and developmental biology. Here we use tumor cell migration and invasion as an example and describe two related assays to illustrate the commonly used, easily accessible methods to measure these processes. The first method is the cell culture wound closure assay in which a scratch is generated on a confluent cell monolayer. The speed of wound closure and cell migration can be quantified by taking snapshot pictures with a regular inverted microscope at several time intervals. More detailed cell migratory behavior can be documented using the time-lapse microscopy system. The second method described in this paper is the transwell cell migration and invasion assay that measures the capacity of cell motility and invasiveness toward a chemo-attractant gradient. It is our goal to describe these methods in a highly accessible manner so that the procedures can be successfully performed in research laboratories even just with basic cell biology setup.

In vitro Cell Migration and Invasion Assays

Commonly used, highly accessible methods for examining cell migration and invasion in vitro are described. The first method is the cell wound closure assay that measures cell motility. The second method is the transwell migration and invasion assay that assesses the chemotactic and invasive capacity of cells.

Migration is a key property of live cells and critical for normal development, immune response, and disease processes such as cancer metastasis and ...

A High Yield and Cost-efficient Expression System of Human Granzymes in Mammalian Cells

When cytotoxic T lymphocytes (CTL) or natural killer (NK) cells recognize tumor cells or cells infected with intracellular pathogens, they release their cytotoxic granule content to eliminate the target cells and the intracellular pathogen. Death of the host cells and intracellular pathogens is triggered by the granule serine proteases, granzymes (Gzms), delivered into the host cell cytosol by the pore forming protein perforin (PFN) and into bacterial pathogens by the prokaryotic membrane disrupting protein granulysin (GNLY). To investigate the molecular mechanisms of target cell death mediated by the Gzms in experimental in-vitro settings, protein expression and purification systems that produce high amounts of active enzymes are necessary. Mammalian secreted protein expression systems imply the potential to produce correctly folded, fully functional protein that bears posttranslational modification, such as glycosylation. Therefore, we used a cost-efficient calcium precipitation method for transient transfection of HEK293T cells with human Gzms cloned into the expression plasmid pHLsec. Gzm purification from the culture supernatant was achieved by immobilized nickel affinity chromatography using the C-terminal polyhistidine tag provided by the vector. The insertion of an enterokinase site at the N-terminus of the protein allowed the generation of active protease that was finally purified by cation exchange chromatography. The system was tested by producing high levels of cytotoxic human Gzm A, B and M and should be capable to produce virtually every enzyme in the human body in high yields.

We describe here a cost-efficient granzyme expression system using HEK293T cells that produces high yields of pure, fully glycosylated and enzymatically active protease.

When cytotoxic T lymphocytes (CTL) or natural killer (NK) cells recognize tumor cells or cells infected with intracellular pathogens, they release their ...

A Customizable Chamber for Measuring Cell Migration

Cell migration is a vital part of immune responses, growth, and wound healing. Cell migration is a complex process that involves interactions between cells, the extracellular matrix, and soluble and non-soluble chemical factors (e.g., chemoattractants). Standard methods for measuring the migration of cells, such as the Boyden chamber assay, work by counting cells on either side of a divider. These techniques are easy to use; however, they offer little geometric modification for different applications. In contrast, microfluidic devices can be used to observe cell migration with customizable concentration gradients of soluble factors1,2. However, methods for making microfluidics based assays can be difficult to learn.
Here, we describe an easy method for creating cell culture chambers to measure cell migration in response to chemical concentration gradients. Our cell migration chamber method can create different linear concentration gradients in order to study cell migration for a variety of applications. This method is relatively easy to use and is typically performed by undergraduate students.
The microchannel chamber was created by placing an acrylic insert in the shape of the final microchannel chamber well into a Petri dish. After this, poly(dimethylsiloxane) (PDMS) was poured on top of the insert. The PDMS was allowed to harden and then the insert was removed. This allowed for the creation of wells in any desired shape or size. Cells may be subsequently added to the microchannel chamber, and soluble agents can be added to one of the wells by soaking an agarose block in the desired agent. The agarose block is added to one of the wells, and time-lapse images can be taken of the microchannel chamber in order to quantify cell migration. Variations to this method can be made for a given application, making this method highly customizable.

This protocol details a customizable method to measure cell migration in response to chemoattractants that may also be used to determine the diffusion rate of a drug out of a polymer matrix.

Cell migration is a vital part of immune responses, growth, and wound healing. Cell migration is a complex process that involves interactions between ...

Imaging Intermediate Filaments and Microtubules with 2-dimensional Direct Stochastic Optical Reconstruction Microscopy

The cytoskeleton, composed of actin microfilaments, microtubules, and intermediate filaments (IF), plays a key role in the control of cell shape, polarity, and motility. The organization of the actin and microtubule networks has been extensively studied but that of IFs is not yet fully characterized. IFs have an average diameter of 10 nm and form a network extending throughout the cell cytoplasm. They are physically associated with actin and microtubules through molecular motors and cytoskeletal linkers. This tight association is at the heart of the regulatory mechanisms that ensure the coordinated regulation of the three cytoskeletal networks required for most cell functions. It is therefore crucial to visualize IFs alone and also together with each of the other cytoskeletal networks. However, IF networks are extremely dense in most cell types, especially in glial cells, which makes its resolution very difficult to achieve with standard fluorescence microscopy (lateral resolution of ~250 nm). Direct STochastic Optical Reconstruction Microscopy (dSTORM) is a technique allowing a gain in lateral resolution of one order of magnitude. Here, we show that lateral dSTORM resolution is sufficient to resolve the dense organization of the IF networks and, in particular, of IF bundles surrounding microtubules. Such tight association is likely to participate in the coordinated regulation of these two networks and may, explain how vimentin IFs template and stabilize microtubule organization as well as could influence microtubule dependent vesicular trafficking. More generally, we show how the observation of two cytoskeletal components with dual-color dSTORM technique brings new insight into their mutual interaction.

The overall goal of this methodology is to give the optimal experimental conditions from sample preparation to image acquisition and reconstruction in order to perform 2D dual color dSTORM images of microtubules and intermediate filaments in fixed cells

The cytoskeleton, composed of actin microfilaments, microtubules, and intermediate filaments (IF), plays a key role in the control of cell shape, ...

Simple and Effective Administration and Visualization of Microparticles in the Circulatory System of Small Fishes Using Kidney Injection

The systemic administration of micro-size particles into a living organism can be applied for vasculature visualization, drug and vaccine delivery, implantation of transgenic cells and tiny optical sensors. However, intravenous microinjections into small animals, which are mostly used in biological and veterinary laboratories, are very difficult and require trained personnel. Herein, we demonstrate a robust and efficient method for the introduction of microparticles into the circulatory system of adult zebrafish (Danio rerio) by injection into the fish kidney. To visualize the introduced microparticles in the vasculature, we propose a simple intravital imaging technique in fish gills. In vivo monitoring of the zebrafish blood pH was accomplished using an injected microencapsulated fluorescent probe, SNARF-1, to demonstrate one of the possible applications of the described technique. This article provides a detailed description of the encapsulation of pH-sensitive dye and demonstrates the principles of the quick injection and visualization of the obtained microcapsules for in vivo recording of the fluorescent signal. The proposed method of injection is characterized by a low mortality rate (0-20%) and high efficiency (70-90% success), and it is easy to institute using commonly available equipment. All described procedures can be performed on other small fish species, such as guppies and medaka.

This article demonstrates the principles of a quick, minimally invasive injection of fluorescent microparticles into the circulatory system of small fishes and the in vivo visualization of the microparticles in fish blood.

The systemic administration of micro-size particles into a living organism can be applied for vasculature visualization, drug and vaccine delivery, ...

Optimized Scratch Assay for In Vitro Testing of Cell Migration with an Automated Optical Camera

Cell migration is an important process that influences many aspects of health, such as wound healing and cancer, and it is, therefore, crucial for developing methods to study the migration. The scratch assay has long been the most common in vitro method to test compounds with anti- and pro-migration properties because of its low cost and simple procedure. However, an often-reported problem of the assay is the accumulation of cells across the edge of the scratch. Furthermore, to obtain data from the assay, images of different exposures must be taken over a period of time at the exact same spot to compare the movements of the migration. Different analysis programs can be used to describe the scratch closure, but they are labor intensive, inaccurate, and forces cycles of temperature changes. In this study, we demonstrate an optimized method for testing the migration effect, e.g. with the naturally occurring proteins Human- and Bovine-Lactoferrin and their N-terminal peptide Lactoferricin on the epithelial cell line HaCaT. A crucial optimization is to wash and scratch in PBS, which eliminates the aforementioned accumulation of cells along the edge. This could be explained by the removal of cations, which have been shown to have an effect on keratinocyte cell-cell connection. To ensure true detection of migration, pre-treating with mitomycin C, a DNA synthesis inhibitor, was added to the protocol. Finally, we demonstrate the automated optical camera, which eliminates excessive temperature cycles, manual labor with scratch closure analysis, while improving on reproducibility and ensuring analysis of identical sections of the scratch over time.

Optimized Scratch Assay for In Vitro Testing of Cell Migration with an Automated Optical Camera

Here we describe a procedure to test the cell migration in vitro with an automated optical camera microscope. The scratch assay has been widely used where the closure of the scratch is followed for a set period. The optical microscope enables dependable and cheap detection of cell migration.

Cell migration is an important process that influences many aspects of health, such as wound healing and cancer, and it is, therefore, crucial for ...

Detecting Migration and Infiltration of Neutrophils in Mice

Neutrophils are a major member of the innate immune system and play pivotal roles in host defense against pathogens and pathologic inflammatory reactions. Neutrophils can be recruited to inflammation sites via the guidance of cytokines and chemokines. Overwhelming infiltration of neutrophils can lead to indiscriminate tissue damage, such as in rheumatoid arthritis (RA). Neutrophils isolated from peritoneal exudate respond to a defined chemoattractant, N-formyl-Met-Leu-Phe (fMLP), in vitro in Transwell or Zigmond chamber assays. The air pouch experiment can be used to evaluate the chemotaxis of neutrophils towards lipopolysaccharide (LPS) in vivo. The adjuvant-induced arthritis (AA) mouse model is frequently used in RA research, and immunohistochemical staining of joint sections with anti-myeloperoxidase (MPO) or anti-neutrophil elastase (NE) antibodies is a well-established method to measure neutrophil infiltration. These methods can be used to discover promising therapies targeting neutrophil migration.

Here, we present three methods to assess neutrophil migration and infiltration both in vivo and in vitro. These methods can be used to discover promising therapeutics targeting neutrophil migration.

Neutrophils are a major member of the innate immune system and play pivotal roles in host defense against pathogens and pathologic inflammatory reactions. ...

At-Risk Butterfly Captive Propagation Programs to Enhance Life History Knowledge and Effective Ex Situ Conservation Techniques

Improving knowledge of ex situ best practices for at-risk butterflies is important for generating successful conservation and recovery program outcomes. Research on such captive populations can also yield valuable data to address key information gaps about the behavior, life history, and ecology of the target taxa. We describe a protocol for captive propagation of the federally endangered Cyclargus thomasi bethunebakeri that can be used as a model for other at-risk butterfly ex situ programs, especially those in the family Lycaenidae. We further provide a simple and straightforward protocol for recording various life history metrics that can be useful for informing ex situ methodologies as well as adapted for laboratory studies of other lepidoptera.

Here, we present protocols for 1) the laboratory captive propagation of the federally endangered Miami blue butterfly (Cyclargus thomasi bethunebakeri), and 2) assessing basic life history information such as immature development time and number of larval stadia. Both methods can be adapted for use with other ex situ conservation programs.

Improving knowledge of ex situ best practices for at-risk butterflies is important for generating successful conservation and recovery program outcomes. ...