Materials and Reagents

Oris pro cell migration assay plate, 96-well (Platypus Technologies, catalog number: PROCMA1), stored at room temperature
3T3 cells (ATCC, catalog number: CRL-1658), stored in liquid nitrogen
DMEM (Corning, catalog number: 10-101-CV), stored at 4 °C
Fetal Bovine Serum (HyClone, catalog number: SH3039603LR), stored at 4 °C
Antibiotic-antimycotic solution (Corning, catalog number: 30-004-CI), stored at 4 °C
Trypsin 0.25% (Corning, catalog number: 25053CL), stored at 4 °C
PDGF-AA antibody (Millipore, catalog number: 07-1436), stored at -20 °C
Cell culture media (see Recipes)
Fully supplemented media (see Recipes)
Serum free media (see Recipes)

Equipment

Microscope
Zeiss Axio Observer D1 (Carl Zeiss) equipped with a Yocogawa spinning wheel coupled to a photometrics EMCCD camera (Evolve 512 delta)

Software

Zeiss Zen Blue (Carl Zeiss)
Fiji/ImageJ (https://fiji.sc/)
Prism (https://www.graphpad.com/scientific-software/prism/)

Procedure

Establish healthy culture of 3T3 cells in a fully supplemented media (10% serum) according to instructions from ATCC.
On the day of the experiment, trypsinize the cells, count and re-suspend in a pre-warmed serum-free media (100 μl per well). Add approximately 5 x 10⁴ cells per well (100% confluent) to a migration assay plate; this step may need optimization depending on cell size and doubling time. Plan to have 3 wells per condition. Let the cells to adhere for 3 h. Note that the plaque in the center of the well dissolves within 30 min; therefore, it is suitable only for rapidly adherent cells. For example, we found that freshly sorted primary mouse lung fibroblasts needed a longer time to adhere, and we failed to obtain consistent results from primary cells.
Using the light microscope (phase contrast for unlabeled cells), verify the cell attachment and the presence of a circular cell-free zone in each well. Exclude the wells that have an excessive amount of cells in a cell-free zone or have uneven distribution of cells in cell growth area (approximately 5% of wells). Take the 0 h timepoint picture of each well, remembering to number or name the wells and images. We recommend using a microscope with a built-in incubator chamber to avoid additional stress to the cells.
Add 100 μl of pre-warmed media with antibodies/drug or conditioned media. Make sure that all of the wells have the same serum conditions. For example, our conditioned media from mouse macrophages contained 10% serum; we therefore used 10% serum media for blocking antibody and all control wells.
Acquire images at 24 h and, if needed, at later timepoints for each well. We found that at 48 h the gaps in majority of wells were completely closed and the most significant difference of the gap closure occurred during the first 24 h. It is possible that shorter timepoints might be necessary for other cell types, or when using conditions with potent mitogens.

Data analysis

We used Zeiss microscope software Zen Blue to stitch the phase-contrast images of the wells acquired at 20x magnification. Fiji (ImageJ) was used for all further image processing and data analysis. As seen in Figure 1, inverting the colors of the pictures greatly improved clarity of the cell-free zone border. We manually selected the cell-free zones using the circular selection tool for 0 h timepoint images and the circular or manually drawn (if the area was not circular) selection tool for 24 h timepoint images. We took individual pictures of wells at time 0 h, because we noticed slight size variability of the cell free zones between the wells. Next, the area of selection was measured by implementing the commands in Fiji: analyze > measure > compute area. We calculated the migration area as a difference between area at time 0 h and 24 h for each well, averaged the area for triplicate wells, and then normalized the data (i.e., we divided all data points from all groups by a mean of the ‘baseline’ group). We used two-sided Wilcoxon rank-sum test as the statistical test.

Figure 1. Representative images and quantification of fibroblast gap closure assay. Pictures of 3T3 fibroblasts were taken at time 0 h and 24 h. Colors in the image were inverted for clarity, the yellow circle indicates the border of the cell free zone at time 0 h and blue circle at time 24 h. Representative data reproduced from Aran et al., 2019; 3T3 fibroblasts were incubated with conditioned media (CM) from lung macrophages sorted by MHCII expression, with and without PDGF-AA blocking antibody (AB). Wilcoxon test two-sided P values are presented. **P < 0.01.

Recipes

Cell culture media
DMEM
Fetal Bovine Serum
Antibiotic-antimycotic solution
Trypsin
Prepare cell culture media in sterile conditions
Serum free media
DMEM
1% antibiotic-antimycotic
Fully supplemented media
DMEM
10% serum
1% antibiotic-antimycotic

Acknowledgments

This work was supported by a UCSF Marcus Award and a National Institutes of Health grant (HL131560) to Mallar Bhattacharya.
Our assay uses commercially available Oris Pro Migration Assay (https://www.platypustech.com/cell-migration), which has been optimized and modified for this protocol.

Competing interests

The authors declare no competing financial interest.

References

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