Iodine Staining of Glycogen Storage in Caenorhabditis elegans

Materials and reagents

Biological materials

1. C. elegans N2 strain [Caenorhabditis Genetics Center (CGC)]

2. C. elegans COP2008; agl-1(knu864) strain (CGC)

Note: These are the strains presented in this protocol. They can be changed based on the strains of interest.

Reagents

1. Iodine (Sigma-Aldrich, catalog number: 207772-100G)

2. Agarose (Life Technologies, catalog number: 16500-500)

Laboratory supplies

1. Erlenmeyer flask (ThermoFisher Scientific, catalog number: 4103-0125)

2. P1000 pipette (Mandel Scientific, catalog number: GF-F167360)

3. P1000 pipette tips (Mettler & Toledo, catalog number: RC-L1000/10)

Equipment

1. 3D printer (FormLabs, model: Form 3B)

2. Resin (FormLabs, model: Amber Biomed)

3. Leica S6E microscope

4. iPhone 6 (Apple)

5. LabCam Microscope Adapter for iPhone 6/6S Plus (Idu Optics, Directnine)

6. Microscope slides (Cedarlane, catalog number: A547100-5, Fisherbrand^TM Premium Clipped-Corner Microscope Slides)

7. Coverslips (Mandel Scientific, NEU-GG-15-PRE, #15mm)

8. Micro-dissecting forceps

9. Scissors

10. Worm pick

Software and datasets

1. Fiji software (ImageJ2, version: 2.16.0/1.54p, Build: 26d66057dd, Date: 2014-10-15T19:41:44+0000)

2. Prism 9 software (GraphPad, version: 9.0.2)

Procedure

A. 3D pad printing

1. Use the template presented in the Graphical overview to print the 3D pad. Outer circle: 30 mm diameter, 6 mm height. Inner circle: 5 mm diameter and 0.83 mm height.

Caution: We used the formal surgical guide resin. Here is some information from the supplier: Surgical guide resin is an autoclavable, biocompatible resin for 3D printing surgical guides, drilling templates, pilot drill guides, and device sizing templates that exceed dental demands in accuracy, part quality, and performance. Surgical guide resin was formulated specifically for FormLabs printers and rigorously tested to meet solvent disinfection and autoclave sterilization standards for implant systems.

Caution: The inner chamber dimensions can be adapted based on the diameter of the microscope’s lens. The provided template is suitable for a Leica S6E microscope or equivalent. To adjust the size of the inner chamber, a ruler can be used under the objective lens to measure the required diameter. The inner chamber can be separated into 2–4 sub-chambers to simultaneously test different conditions.

Caution: The outer circumference of the pad can be adjusted to match the diameter of the iodine bottle. The provided template is suitable for a 100 g bottle of iodine.

B. Preparing 3D pads

Note: 3D pads should be prepared just before image acquisition.

1. Place a microscope slide underneath each 3D pad.

2. Cut the end of a P1000 pipette tip.

3. Prepare a 2% agarose solution.

4. Using a P1000 pipette with a cut tip, pipette and transfer the agarose into the chambers of the 3D pad.

5. Using micro-dissection forceps, place a coverslip on top of the poured agarose.

Caution: Coverslips should be put directly on the agarose as it solidifies quickly (3–45 s).

Critical: Avoid air bubbles when pouring agarose into the chambers.

C. Image acquisition

Note: All these steps require the microscope slide to stay underneath the pad. Any other high-resolution smartphone can be used for acquisition.

1. Place the iPhone and its adapter on one of the microscope objectives.

2. Place the prepared 3D pad under a binocular microscope.

3. Remove the coverslip with the forceps.

4. Synchronize the C. elegans strains of interest and maintain them in standard conditions [6].

5. Transfer 15–20 worms per chamber using a worm pick.

Caution: This step might be challenging and requires practice, as worms may stick to the pick and not go onto the agarose. To help with the transfer, a second pick can be used to slide worms on the pad.

6. Open the iodine bottle and flip the pad into it (see Figure 1C).

Critical: The diameter of the pad should fit in the lid of the bottle. In this case, the diameter is 3 cm.

7. Wait 45–60 s.

8. Place the 3D pad back on the microscope and capture the image using the iPhone.

Figure 1. Visual representation of the iodine staining steps

D. Image processing

1. Export images in a folder (format .tiff).

2. Open Fiji and use the following macro to process the images:

run("Invert"); run("RGB Stack"); run("8-bit"); run("Stack to Images"); run("Subtract Background"," OK");

3. Select individual worms and measure the integrated density (Analyze → Measure → Integrated density).

4. Normalize the “integrated density” of the test worm on the control worms.

5. Perform the appropriate statistical analysis using Prism software. In this example, where we compare two groups, we performed a Welch t-test. We recommend using a minimum of 15 worms per replicate.

Data analysis

Data analysis requires the “integrated density” of processed worms (section D). The percentage of staining can be obtained by normalizing test worms to controls. One-way ANOVA or t-test nonparametric analysis can be performed, depending on the sample groups. Further details can be found in [7,8].

Validation of protocol

In Figure 2, we show that the iodine staining technique replicates the quantitative measure of glycogen when using the gold standard colorimetric kit [Glycogen Assay Kit II (Colorimetric), Abcam, catalog number: AB169558]. Significant glycogen buildup is measured in the agl-1 mutant compared to the wild type (Figure 2). We were also able to show the accuracy of this method in conditions in which glycogen storage is decreased [7,8].

Figure 2. Comparison between iodine staining and quantitative measure of glycogen. (A) Iodine staining quantification shows significantly increasing glycogen buildup in agl-1 mutant (S1444R) compared to the wild type at day 1 of adulthood (n ≈ 30). (B) Glycogen quantification using a colorimetric kit shows significantly increased levels of glycogen in mutant compared to wild type at day 1 of adulthood. In both plots, each dot represents 1 pellet of 20 mg of worms (N = 3). Data are shown as mean ± SEM. Welch t-test was performed for both tests: (A) t = 3; df = 51.00; (B) t = 3.556; df = 51.00.

This protocol (or parts of it) has been used and validated in the following research article(s):

• Daghar et al. [7]. CHK1 inhibition rescues abnormal glycogen buildup in a Caenorhabditis elegans model for glycogen storage disease III. Commun Biol. (Figure 1C–F). https://doi.org/10.1038/s42003-026-09535-9

• Daghar et al. [8]. Repurposing the HMG-CoA Reductase Inhibitor Atorvastatin for SRD5A3-CDG. bioRxiv: 2026 (Figure 3G). https://doi.org/10.64898/2026.01.18.699766

Acknowledgments

Conceptualization, H.D., E.S.; Investigation, H.D.; Writing—Original Draft, H.D.; Writing—Review & Editing, H.D., J.A.P., and E.S.; Funding acquisition, J.A.P.; Supervision, J.A.P. This study was co-funded by The Rare Diseases: Models & Mechanisms Network and Grand Défi Pierre Lavoie. The protocol was described and validated in https://doi.org/10.64898/2026.01.18.699766 [8].

Competing interests

E.S. is a co-founder of DanioDesign Inc. (Qc, Canada) and of Osta Therapeutics (France). A.P. is a co-founder of Esport Biosciences (Qc, Canada). These commercial affiliations did not play any role in investigational design, data collection and analysis, the decision to publish, or the preparation of the manuscript. The remaining authors declare no competing interests.

References

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