Planar Gradient Diffusion System to Investigate Chemotaxis in a 3D Collagen Matrix

Summary

Cell migration is an important part of human development and life. In order to understand the mechanisms that can alter cell migration, we present a planar gradient diffusion system to investigate chemotaxis in a 3D collagen matrix, which allows one to overcome modern diffusion chamber limitations of existing assays.

Abstract

The importance of cell migration can be seen through the development of human life. When cells migrate, they generate forces and transfer these forces to their surrounding area, leading to cell movement and migration. In order to understand the mechanisms that can alter and/or affect cell migration, one can study these forces. In theory, understanding the fundamental mechanisms and forces underlying cell migration holds the promise of effective approaches for treating diseases and promoting cellular transplantation. Unfortunately, modern chemotaxis chambers that have been developed are usually restricted to two dimensions (2D) and have complex diffusion gradients that make the experiment difficult to interpret. To this end, we have developed, and describe in this paper, a direct-viewing chamber for chemotaxis studies, which allows one to overcome modern chemotaxis chamber obstacles able to measure cell forces and specific concentration within the chamber in a 3D environment to study cell 3D migration. More compelling, this approach allows one to successfully model diffusion through 3D collagen matrices and calculate the coefficient of diffusion of a chemoattractant through multiple different concentrations of collagen, while keeping the system simple and user friendly for traction force microscopy (TFM) and digital volume correlation (DVC) analysis.

Introduction

The preferred movement of cells towards a concentration gradient, known as chemotaxis, plays an important role in pathological and physiological processes in the body. Such examples are skin and mucosa wound healing¹, morphogenesis², inflammation³, and tumor growth^4,5. It has also been shown that cancer cells can migrate through both individual and collective cell-migration strategies⁶. Moreover, diffusional instability mechanisms can induce the separation of single or clustered cells from a tumorous body/object and then can immigrate towards a source of nutrients and thus invade wider areas and tissues⁷.

Furthermore, it has been shown that diverse migration mechanisms can be active in 2D and in 3D, due to different roles of adhesion molecules⁸. Therefore, a move to physiologically relevant in vitro assays to investigate cell motility in a measureable and simple way is of significance in understanding cell movement phenomena⁹. Unfortunately, the difficulty in analyzing cell migration, a comprehensive quantifiable chemotaxis assay usually requires a long laborious method, founded on the measurement of impartial cell motility and transport phenomena models.

Past experimental approaches to investigate cell chemotaxis include the Boyden chamber¹⁰ and the under agarose assay¹¹. However, within these early assays, cell migration experiments did not monitor the movement in respect to time. More, importantly, the concentration gradients used for the experiments were not well defined or completely understood while only sustaining the signaling for no more than a few hr. Furthermore, early chemotaxis chamber attempts restricted cell migration to two dimensions and did not allow one to monitor the kinetics of migration¹². Looking at the Boyden chamber, an endpoint assay would not allow the researcher to observe migration visually and could not directly differentiate chemotaxis (directional movement) from chemokinesis (random movement). Additionally, several variables—differences in the pore size and thickness of membranes—made the chamber very difficult to easily reproduce and concealed the migrant reaction of cells to chemokines^13,14.

With the new understanding of microfluidics, new chambers and micro-devices have been investigated as an instrument to investigate cell locomotion under interstitial flow conditions or chemotaxis^15,16. Under these new devices, new cell metrics were introduced and investigated, like the effect of shear stress on a cell^17,18. Unfortunately, past and current microfluidic chemotaxis chambers limited studies of cell migration to 2D substrates—an important setback since many biological processes, including tumor cell invasion and metastasis, and immune cell migration, involve 3D migration.

Direct observation chambers—where a chemoattractant solution is in contact with a 3D gel containing cells have also been also reported^19,20. These chambers have two compartments, one containing a chemoattractant and one containing cells, are joined beside one another horizontally²¹ or as concentric rings²². These systems are pointed in the right direction, but do not keep a chemotaxis system for an extended period of time.

Furthermore, researchers have also examined diffusivity through collagen membranes in dialysis cells, as well as the diffusion of tracer molecules through collagen samples subjected to hydrostatic pressure^23-25. Some diffusion experiments in collagen gels rely on physical and chemical modifications of the gel using magnetic fields and chemical incorporation²⁶. A popular method for modeling diffusivity in collagenous tissues relies on the fluorescence imaging of continuous point photobleaching. This method has revealed anisotropy in the diffusion coefficients of macromolecules in oriented collagenous tissues. Yet, photobleaching has been used in articular cartilage and not collagen matrices. While similar, the necessary modeling experiments must be carried through specifically understanding the diffusion coefficient of collagen gels. More importantly, the systems do not utilize a method for measuring cell force generation.

Unfortunately, most systems seem to be missing one or two key elements for an ideal system: the allowing of cell tracking, a diffusion gradient understanding with a chemotactic factor through the matrix, a relatively simple set up with an ease of reproducibility, the minimization of cell-cell interactions, and the ability to measure dimensional units for quantification (i.e., velocity, force, specific concentration). Moghe et al.²⁷ proposed a system that fulfilled most of these requirements in which cells were initially dispersed throughout the gel rather than concentrated on the filter surface, but was difficult to measure forces that the cell generates.

To this purpose, we present a planar gradient diffusion system to investigate chemotaxis in a 3D collagen matrix, which allows one to overcome modern diffusion chamber limitations of existing assays, which is based on time-lapse microscopy, coupled with image analysis techniques to measure cell forces in a 3D environment. This protocol provides a simple, yet innovative way of creating a simple 3D diffusion chamber that can be used to investigate 3D chemotaxis in different cells.

Protocol

1. 3D Mold Design and Parts

1. Mold
   1. Before working, obtain a silicone elastomer kit, a live cell imaging chamber, a 22 mm glass coverslip, and a machined aluminum metal cube with dimensions 10.07 mm x 3.95 mm x 5.99 mm. Prepare the live cell imaging chamber for molding by placing the coverslip in the bottom holder and assembling the rest of the chamber as directed by the vendor.
   2. Next, using forceps, place the machined aluminum metal cube in the middle of the live cell imaging chamber housing and on top of the coverslip, and then set aside.
   3. Mix silicone elastomer solutions according to manufacturer’s protocol to make 5 ml of elastomer.
   4. Using a disposable lab spatula, pour silicone elastomer solution into live cell imaging chamber setup and ensure not to move placed machined aluminum metal cube. Place the system on the lab bench, in a safe location O/N for curing.
   5. The next morning, deconstruct the live cell imaging chamber, as recommended by the manufacturer and pull out mold using forceps. Using forceps, carefully extract the machined aluminum metal cube from mold. Go to the sink and rinse the mold with deionized water. Place the mold on a paper towel to dry.
   6. Once dry, using a hobby utility knife, cut slits through the mold, spaced 2.34 mm apart from each longitudinal end, inside the silicone mold. Ensure the mold stays in a safe and dry place until you are ready to construct the system for an experiment.
2. Hydrophilic and Hydrophobic Glass Coverslips Preparation
   1. To allow the collagen matrix to adhere to a surface, create hydrophilic coverslips:
      1. Using a disposable pipette, measure out 150 µl of 3-aminopropyl-trimethoxysilane and pour solution in a 50 ml tube. Add 30 ml of 100% ethanol to the 50 ml tube with a second disposable pipette and close the lid. Vortex the solution for 2 min, ensuring complete mixing. Pour solution in a glass Petri dish and set aside.
      2. Pour 15 ml of 100% ethyl alcohol in a second Petri dish and set aside (make sure to label dishes).
      3. Using a new disposable pipette, measure out 30 ml of deionized water and pour solution into a 50 ml tube. Next, using a new disposable pipette measure out 1,875 µl of glutaraldehyde and pour solution into the same 50 ml tube and close the lid. Vortex the solution for 2 min, ensuring complete mixing. Pour mixture into third Petri dish, and set aside.
      4. Using forceps, take out one 22 mm round glass coverslip and rinse both sides with 100% ethanol mixture using a disposable pipette.
      5. Place rinsed glass coverslip into 3-aminopropyl-trimethoxysilane with 30 ml of 100% ethanol solution dish and allow to sit in solution for 5 min.
      6. With forceps, take out glass coverslip and rinse again with 100% ethanol solution with disposable pipette.
      7. Drop rinsed glass coverslip into 1,875 µl of glutaraldehyde and 30 ml of deionized water mixture and set aside for 30 min.
      8. After 30 min, remove glass coverslip with forceps and rinse with deionized water and place onto dry tissue O/N to dry at RT.
      9. Repeat coverslip dipping and moving for as many coverslips as needed with the same generated solutions.
   2. Make hydrophobic coverslips by the given protocol.
      1. Add 500 µl of tridecafluoro-1,1,2,2-tetrahydrooctyl, 100 µl of acetic acid and 19.4 ml of hexane in a 50 ml tube and vortex for 2 min. Pour solution in glass Petri dish and set aside.
      2. Using clean forceps, take out one glass coverslip and drop into prepared mixed solution for 2 min. After 2 min have passed, take out glass coverslip with forceps and rinse with deionized water using a disposable pipette and place coverslip onto dry tissue O/N to dry at RT. Store coverslip in plastic Petri dishes until used.
      3. Repeat coverslip dipping and moving for as many coverslips as needed with the same generated solutions.

2. Mold Assembly

1. Before using molds, using a disposable pipette rinse the mold with 90% ethyl alcohol over a chemical waste container. Next, place the mold in a Petri dish filled with deionized water and allow to sit O/N.
2. Take mold out of solution using forceps and place on a towel to air dry before starting the mold assembly.
3. While the mold is air-drying, cut the square hydrophilic coverslips into two rectangles slightly larger than 3.95 mm x 5.99 mm using a high-precision diamond-scribing tool. Slide each cut rectangle coverslip into the slots cut into the silicone mold.
4. Flip the mold upside down and apply vacuum grease along the bottom of the silicone mold using a disposable pipette. Next, flip the mold back right-side up and press the bottom of the mold onto the circular hydrophilic glass coverslip to create a seal.
5. With disposable gloves, pick up the assembled mold and place into a disposable Petri dish and then into a bio-hood. Turn on UV Bio-hood lamp for 1 hr to sterilize the mold before experimentation occurs.

3. Collagen Mixture and 3D Matrix

1. Before preparing the collagen mixture, stain and prepare cells for imaging according to standard protocols²⁸.
2. Using standard laboratory techniques and protocols^29,30, in a bio-hood, mix cell media and chemoattractant in a 15 ml tube to desired chemoattractant concentration. Pipette 5 ml of specific cell media-chemoattractant concentration solution into a 15 ml tube and move the solution into a heated water bath.
3. Using a pipette, extract 5 ml of just cell media into a second 15 ml tube and place in a heated water bath to heat up the solution for microscopy experiments.
4. In a bio-hood, pipette 30 µl of 10x phosphate buffered solution (PBS) into micro centrifuge tube. Add 6 µl of 1 N sodium hydroxide (NaOH) into same micro centrifuge tube and vortex for 15 sec.
5. Obtain collagen I rat tail solution from the fridge and move to the bio-hood using standard laboratory techniques and protocols²⁹. Ensure the collagen is still cold. Pipette 168.3 µl of collagen into same micro centrifuge tube.
6. Next, add 18 µl of yellow-green fluorescent carboxylate-modified microspheres using a pipette to the same micro centrifuge tube. Vortex the micro centrifuge tube with all the solutions for 30 sec.
7. Add 77.7 µl of desired cell media-cell mixture (approximately 2 x 10⁶ cells/ml concentration) into micro centrifuge tube and mix using pipette tip for 20 sec. As necessary, alter the matrix density by following the custom collagen mixture adapted for the addition of fluorescent beads and cell viability table (Table 1).
8. Pipette 300 µl of collagen-cell mixture into the center well (well #2) of the prepared mold assembly. Place the mold onto a disposable Petri dish and move it into a standard incubator for 20 min at 37 °C with 5% CO₂.
9. Remove system from incubator and place back into bio-hood. Using forceps, remove both hydrophobic cover slips by clamping onto the top of each coverslip and pulling up and away from the mold.
10. Move the whole system to the desired microscopy and image to ensure collagen mold sides are still straight to allow for a planar diffusion gradient.
11. With the system still under the microscope, using a 100 µl single-channel pipette, add 100 µl of cell media into well #1. Next, using a 100 µl single-channel pipette add 100 µl of cell media with desired chemoattractant concentration into well #3.
12. Immediately after adding solutions into both wells, commence imaging.

4. Imaging and Diffusion Modeling

1. If one wants to find the diffusion coefficient for the specific collagen density to calculate the specific concentration, follow the protocol below:
   1. Follow the given protocol above titled “Collagen Mixture and 3D Matrix,” instead of generating cell media with desired chemoattractant concentration, make 5 µM rhodamine in a 15 ml tube using standard calculations and protocols³⁰.
   2. Image the 3D collagen matrices with a confocal system mounted on an inverted microscope using an argon laser (488 nm) to capture the fluorescence. Image every 2 or 3 sec for up to 7 hr.
2. For Diffusion Modeling: Using the mathematical model shown below, write a computational software code for processing and analysis with these general steps.
   
   1. Import images into computational software for rescaling and normalizing by the maximum intensity. Convert images to a gray color-map of the image to select the edge. Pick an axis along the center of the image, to the right of the center and to the left of the center.
   2. Using the computational software code, plot the normalized intensity, along with the true intensity and the difference between the two.
   3. Next, input the parameters necessary for fitting (concentration, time, and length).
   4. Plot the normalized concentration versus time and the concentration profile across the x-axis with a polynomial fit to the data.
   5. Calculate the coefficient of diffusion using the computational software code.

5. Experimental Measurements

1. Referring back to the diffusion equation, rewrite the equation to find the specific concentration at any location within the system as shown in below.
   
   Where:
   L = Length of the collagen matrix
   x = location under investigation
   D = coefficient of diffusion
   t = elapsed time
2. During chemotaxis experiments, ensure to record the specific time that the moment chemokine was added to system. Once cell migration movement is found, ensure to record confocal time-lapse recording, and note the specific time and location from edge where imaging occurred.
3. During data analysis, plug the noted elapsed time, location and coefficient of diffusion for the specific cell into the equation to find the normalized specific concentration at any point within the collagen for both diffusion and cell experiments.

6. Tracking Cell Migration Utilizing TFM

1. To track cell migration using TFM/DVC techniques follow the protocol below:
   1. After the addition of desired chemoattractant concentration into well #3, start imaging the 3D collagen matrices with a confocal system mounted on an inverted microscope to find a cell to investigate.
   2. Once a moving cell is found, place the cell in the middle of the field of view and utilize a piezoelectric motor (to image in the z-axis), image every 1 or 2 min.
   3. For calculating cell force generation and deformation, generate a computational code to find the displacements of the fluorescence beads following the TFM/DVC protocols³¹.

Results

The ability of this assay to accurately assess the migration of the cell relies upon a good setup of the system. Therefore, it is critical for make sure to design the diffusion system mold accurately and take great care in placing both hydrophobic and hydrophilic coverslips, as illustrated in Figure 1. If the system is properly designed and during the diffusion modeling stage ensuring to find a very good linear starting line, one is able to achieve nice fluoresces images, as depicted in Figure 2<...

Discussion

The most critical steps for successful diffusion experiments with or without cells are: correctly setting up the mold assembly; developing the necessary manual dexterity to prevent damage during extraction of hydrophobic coverslips; ensuring to find a very good linear starting line to correctly calculate the diffusion coefficient; correct experimental calculations of both collagen and chemoattractant; correctly use of live cell imaging system to ensure matrix does not dry out; and maintaining a sterile, healthy culture.<...

Materials

Name	Company	Catalog Number	Comments
Silicone elastomer kit	Dow Corning Corp	182 SIL ELAST KIT .5KG	a two-part misture with a 10:1 mix
Live cell imaging chamber	Live Cell Instrument	CM-B18-1	CMB for 18 mm round coverslips
22 mm Glass Coverslip	Fisher Scientific	NC0180281	Neuvitro Corp. cover slip 22 mm 1.5
Machined aluminum metal cube
Hobby utility knife	X-Acto	X3201
3-(aminopropyl) trimethoxysilane	Sigma-Aldrich	281778-5ML
Glutaraldehyde	Polysciences, Inc	00216A-10	Glutaraldehyde, EM Grade, 8%
50 ml tube	Fisher Scientific	14-432-22	Standard floor model and tabletop centrifuges
Glass Petri dish	Fisher Scientific	08-747A	Reusable Petri Dishes: Complete (60 x 15 mm)
Forceps	Fisher Scientific	22-327-379	Fine Point Forceps
Cover glasses	Fisher Scientific	12-518-105A	Rectangle; 30 x 22 mm; Thickness No. 1
Tridecafluoro-1,1,2,2-tetrahydrooctyl	Gelest	SIT8174.0
Acetic acid	Sigma-Aldrich	320099	Acetic acid ACS reagent, ≥99.7%
Hexane	Sigma-Aldrich	296090	anhydrous, 95%
Ethyl alcohol	Sigma-Aldrich	E7023	200 proof, for molecular biology
High-precision diamond scribing tool	Lunzer	PV-081-3	Straight extended tip scribe, .020" (.50 mm) diameter by .200" (5.0 mm) tip length
Vacuum grease	Dow Corning	14-635-5C	High-Vacuum Grease
15 ml tube	Fisher Scientific	14-959-49D	15 ml conical centrifuge tubes with hydrophobic, biologically inert surface
10x phosphate buffered solution	Fisher Scientific	BP399-500	1.37 M Sodium Chloride, 0.027 M Potassium Chloride, and 0.119 M Phosphate Buffer
1 N sodium hydroxide	Sigma-Aldrich	38215	Sodium hydroxide concentrate
Collagen I, rat tail	BD Biosciences	354236	Rat tail
Micro centrifuge tube	Fisher Scientific	02-681-332	Volume: 2.0 ml; O.D. x L: 13 x 40 mm; sterile; single-wrapped
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Carboxylate-modified microspheres	Invitrogen	F-8813	Carboxylate-modified microspheres, 0.5 µm, yellow-green fluorescent (505/515), 2% solids
Rhodamine	Sigma-Aldrich	83689	Rhodamine B for fluorescence