Simultaneous Monitoring Cytoplasmic Calcium Ion and Cell Surface Phosphatidylserine in the Necrotic Touch Neurons of Caenorhabditis elegans

Materials and Reagents

1. Reporters

   1. The Ca²⁺ reporter construct: P_mec-7GCaMP5G

   2. The PS reporter: P_dyn-1mfg-e8::mCherry

      Note: The reporter constructs are available upon request (Furuta et al., 2021).




2. The Caenorhabditis elegans strain that carries both reporters

   Strain name: ZH3052

   Genotype: enIs92[P_mec-7GCaMP5G , P_dyn-1mfg-e8::mCherry, punc-76(+)]V unc-76(e911)V; mec-4(e1611)X .

   Note: This strain is available upon request (Furuta et al., 2021).




3. Consumables and Reagents

   1. Microscope slides (Premiere, catalog number: 9101)

   2. Coverslips (22 × 22 mm) (Fisher Scientific, catalog number: 12-542B)

   3. DeltaVision immersion oil N = 1.516 (Cytiva, catalog number: 29162940)

   4. Handmade worm pick, which is a platinum wire (Alfa Aesar, catalog number: 10287) mounted on a Pasteur pipette (Fisher Scientific, catalog number: 13-678-20B) (Figure 2)

      
      

      
      Figure 2. A handmade worm pick

   
   

   5. High vacuum grease (Fisher Scientific, catalog number: 14-635)

   6. Agarose (Fisher Scientific, catalog number: BP160-500)

   7. KH₂PO₄ (MilliporeSigma, catalog number: PX1565)

   8. Na₂HPO₄ (MilliporeSigma, catalog number: 567550)

   9. NaCl (Fisher Scientific, catalog number: S671)

   10. NH₄Cl (Fisher Scientific, catalog number: S671-3)

   11. 4% agarose solution (see Recipes)

   12. M9 buffer (see Recipes)

Equipment

1. Stereomicroscope (Nikon, catalog number: SMZ645) or any stereomicroscope from other manufacturers for handling Caenorhabditis elegans.

2. The DeltaVision Elite Deconvolution Imaging System (GE Healthcare, Inc.), including AP1 F1-Delta Vision microscope (Olympus) equipped with 20×, 63×, and 100× Uplan Apo objectives, excitation/emission filter sets, fluorescent light source, DIC microscopy accessories, motorized stage (X, Y, and Z-axis), and a Coolsnap HQ2 digital camera (Photometrics) (Figure 3). For fluorescent imaging, two sets of fluorescence filters (Chroma Inc.) are used, including the GFP filter (excitation wavelength 475/28 nm; emission wavelength 525/50 nm) and the mCherry filter (excitation wavelength 575/25 nm; emission wavelength 632/60 nm). The DeltaVision microscope is kept in a room where the temperature is maintained at 20°C.

   
   

   
   Figure 3. DeltaVision deconvolution microscope




3. A computer for image processing and analysis

Software

1. SoftWoRx 5.5 Software (for the deconvolution and processing of images) (GE Healthcare, Inc.)

Procedure

1. Mounting Animals on an Agar Pad

   1. Melt the 4% agarose solution in a microwave oven.

   2. Dispense 300 µl of the agarose solution on a glass microscope slide, flatten the drop immediately by placing another glass slide on the top. After agarose is solidified, gently separate the two glass slides by sliding one against the other. The thickness of agarose is approximately 0.2 mm (Figure 4).

      
      

      
      Figure 4. Trim the flattened agar pad into an approximately 12 × 12 mm square

   
   

   3. Place 3 µl of M9 buffer at the center of the agar pad. The M9 buffer is a buffer for collecting/washing worms.

   4. Under the stereotype microscope, transfer embryos with a worm pick from a plate to the drop of M9 buffer. Try not to transfer more embryos than necessary (see Note 1).

   5. Gently squeeze a thin line of high vacuum grease around the agarose pad. Gently place a coverslip over the drop of liquid. Avoid air bubbles. Vacuum grease prevents the drying of the agarose pad. A completed slide is shown in Figure 5.

      
      

      
      Figure 5. A completed slide




2. Time-lapse recording of PLM touch neurons in Caenorhabditis elegans embryos

   1. Set up microscope parameters. For differential interference contrast (DIC) images, the exposure time to white light is usually 0.2 s with a 10% neutral density filter. The neutral density filter partially blocks the light, and the percentage of the filter represents how much light travels through. For recording the signal of the Ca²⁺ reporter GCaMP5G, the exposure time for the GFP channel is 0.1 s with a 5% neutral density filter. For recording the signal of the PS reporter MFG-E8::mCherry, the exposure time for the mCherry channel is also 0.1 s with a 5% neutral density filter.

   2. Align the DIC light path carefully for optimal DIC effect according to the manufacturer's instruction.

   3. Under the 63× or 100× objectives, find embryos and mark the positions by using the “point marking” and “position visiting” functions of the software. It is recommended not to mark too many embryos at the same time (see Note 2). Carefully choose the embryos that are younger than the 2-fold stage (460 min post the 1^st embryonic cell division).

   4. Set up the positions for the serial z-section recording. The serial z-section recording is performed from the ventral surfaces and proceeding inwards. The setting of 10-15 z-sections at 0.5 μm/section is sufficient to cover the necessary region.

   5. Set up the time-lapse recording parameters. We found no striking Ca²⁺ or PS signal prior to the 560 min post-1^st embryonic cell division. The starting point of time-lapse recording is set at 560 min-post the 1^st embryonic cell division, which is 100 min after an embryo reaches the 2-fold stage (Figure 6). Recording of the Caenorhabditis elegans tail, where the touch neurons PLML and PLMR reside, in the strain ZH3052, is set in the 2.5-min interval for the first 2 h of recording and in the 5-min interval for the next 4 h.

      
      

      
      Figure 6. DIC image of a 2-fold stage Caenorhabditis elegans embryo. The scale bar is 10 µm.

   
   

   6. Start recording DIC, GFP, and mCherry images once the embryos reach 560 min post-1^st embryonic cell division, which is 100 min post the 2-fold stage.

   7. Keep observing the images during the recording process. Adjust the starting focal plane during the interval of recording if any change of focal place takes place. Abort recording if an embryo slows down in motion or stops its development due to photo-damage. Examples of time-lapse images of cytoplasmic Ca²⁺ and cell surface PS in the necrotic PLML touch neurons are shown in Figure 7.

      
      

      
      Figure 7. Example of images of cytoplasmic Ca²⁺ and cell surface PS in necrotic PLML touch neuron caused by the mec-4(e1611) mutation. The top row shows DIC images depicting morphological changes of the PLML touch neuron undergoing necrosis (marked by arrowhead). The middle row shows cytoplasmic Ca²⁺ signal in the PLML neuron. The bottom row shows cell surface PS in the PLML neuron. Recording was started at 100 min after the embryo reached the 2-fold stage. The scale bar is 10 µm. Images are adapted from Furuta et al. (2021) .

Data analysis

Images are deconvolved using the SoftWoRx software. For the quantification of Ca²⁺ signal intensity, the cell bodies of the PLML and PLMR neurons are outlined by polygons, and the total signal intensity (Ca_x) is obtained. The total signal of Ca²⁺ in the neighboring region of the same size is also measured by moving the same polygon to the neighboring region in the tail (Ca_Background). The relative Ca²⁺ intensity is calculated as Ca_R = Ca_x/Ca_Background. To maintain the quality of quantification of Ca²⁺ dynamics, images out of focus or obscure images that are results of the fast-moving embryos should be avoided (see Note 3). For measuring Ca²⁺ dynamics, we excluded the embryos with fewer than 10 time points with images of good quality. For quantification of PS intensity, the cell surface area containing the MFG-E8::mCherry signal is outlined by two closed polygons. The total signal intensity, as well as the area size of each polygon, is recorded. The unit PS signal intensity (UPS) of the “donut shape” area between the two polygons is calculated as follows: UPS = (PS_{externalpolygon}−PS_{internalpolygon})/(Area_{externalpolygon}−Area_{internalpolygon}). The background mCherry signal (PS_background) of a “circular” area nearby and the area size (Area_background) are obtained, and the unit intensity is calculated as UPS_background = PS_background/Area_background. The relative PS signal intensity RPS = UPS/UPS_background. The value 1 indicates that there is no enrichment of signal comparing to the non-specific background signal.

Notes

1. For time-lapse imaging, it is strongly recommended to place up to 10 embryos on one slide to reduce oxygen consumption by embryos during the recording period. Additionally, transfer the embryos at the stage close to a developmental stage of choice [e.g., if you want to start recording from the 2-fold stage, transfer 1.5-fold stage embryos (Figure 8)].

   
   

   
   Figure 8. A DIC image of a 1.5-fold stage Caenorhabditis elegans embryo. The scale bar is 10 µm.




2. To capture images in 2.5 or 5 min intervals, and to reduce the fluorescent light damage, it is recommended to record no more than 6 embryos in one experiment.

3. Embryos are constantly moving inside the eggshell during recording, and thus PLM neurons go out of focus from time to time. Furthermore, due to the fast-moving of embryos, some images are blurred. The number of good images captured largely depends on the embryo movement.

Recipes

1. 4% agarose solution

   Place 2.0 g agarose in 50 ml deionized water and microwave until agarose is completely melted. After usage, the solidified solution can be stored at room temperature and melted in a microwave oven again.

2. M9 buffer (1 L)

   Dissolve 3.0 g KH₂PO₄ (22.0 mM), 5.8 g Na₂HPO₄ (40.9 mM), 0.5 g NaCl (8.6 mM), and 1.0 g NH₄Cl (18.7mM) in deionized water. Adjust volume to 1 L with deionized water. Autoclave.

Acknowledgments

This work is supported by NIH R01GM104279. This protocol was adapted from Furuta et al. (2021).

Competing interests

The authors have declared that no competing interests exist.

References

1. Akerboom, J., Chen, T. W., Wardill, T. J., Tian, L., Marvin, J. S., Mutlu, S., Calderon, N. C., Esposti, F., Borghuis, B. G., Sun, X. R., et al. (2012). Optimization of a GCaMP calcium indicator for neural activity imaging. J Neurosci 32(40): 13819-13840.
2. Chalfie, M. and Sulston, J. (1981). Developmental genetics of the mechanosensory neurons of Caenorhabditis elegans. Dev Biol 82(2): 358-70.
3. Clapham, D. E. (2007). Calcium signaling. Cell 131(6): 1047-1058.
4. Danese, A., Patergnani, S., Bonora, M., Wieckowski, M. R., Previati, M., Giorgi, C. and Pinton, P. (2017). Calcium regulates cell death in cancer: Roles of the mitochondria and mitochondria-associated membranes (MAMs). Biochim Biophys Acta Bioenerg 1858(8): 615-627.
5. Driscoll, M. and Chalfie, M. (1991). The mec-4 gene is a member of a family of Caenorhabditis elegans genes that can mutate to induce neuronal degeneration. Nature 349(6310): 588-93.
6. Furuta, Y., Pena-Ramos, O., Li, Z., Chiao, L. and Zhou, Z. (2021). Calcium ions trigger the exposure of phosphatidylserine on the surface of necrotic cells. PLoS Genet. 17(2): e1009066.
7. Ghosh-Roy, A., Wu, Z., Goncharov, A., Jin, Y. and Chisholm, A. D. (2010). Calcium and cyclic AMP promote axonal regeneration in Caenorhabditis elegans and require DLK-1 kinase. J Neurosci 30(9): 3175-83.
8. Li, Z., Venegas, V., Nagaoka, Y., Morino, E., Raghavan, P,. Audhya, A., Nakanishi, Y. and Zhou, Z. (2015). Necrotic Cells Actively Attract Phagocytes through the Collaborative Action of Two Distinct PS-Exposure Mechanisms. PLoS Genet 11(6): e1005285.
9. Nakayama, H., Chen, X., Baines, C. P., Klevitsky, R., Zhang, X., Zhang, H., Jaleel, N., Chua, B. H., Hewett, T. E., Robbins, J., et al. (2007). Ca²⁺- and mitochondrialdependent cardiomyocyte necrosis as a primary mediator of heart failure. J Clin Invest 117: 2431-2444.
10. Suzuki, H., Kerr, R., Bianchi, L., Frøkjaer-Jensen, C., Slone, D., Xue, J., Gerstbrein, B., Driscoll, M. and Schafer, W. R. (2003). In vivo imaging of C. elegans mechanosensory neurons demonstrates a specific role for the MEC-4 channel in the process of gentle touch sensation. Neuron 39(6): 1005-17.
11. Tian, L., Hires, S. A., Mao, T., Huber, D., Chiappe, M. E., Chalasani, S. H., Petreanu, L., Akerboom, J., McKinney, S. A., Schreiter, E. R., et al. (2009). Imaging neural activity in worms, flies and mice with improved GCaMP calcium indicators. Nat Methods 6(12): 875-881.
12. Wojda, U., Salinska, E. and Kuznicki, J. (2008). Calcium ions in neuronal degeneration. IUBMB Life 60(9): 575-590.
13. Yamashima, T. (2004). Ca²⁺-dependent proteases in ischemic neuronal death: a conserved ’calpain-cathepsin cascade’ from nematodes to primates. Cell Calcium 36(3-4): 285-293.