The authors wish to thank the members of the Dowling lab (Aaron Reifler, Trent Waugh, Angela Busta, and William Telfer) that contributed to the development of the technique and to the production of the manuscript. This work was funded by the Taubman Institute, the Department of Pediatrics at the University of Michigan, and in part from grants from the Muscular Dystrophy Association (JJD MDA186999) and the National Institutes of Health (JJD 1K08AR054835).

1. Preparation of Poly-L-Lysine Coated Coverslips (Time: 1 hr)
Coating coverslips allows for rapid myofiber settling and adhesion. This may be performed during the dissociation step of the myofiber isolation (step 2 below).
<ol>
	<li>Cut and place Parafilm on the bottom of a 60 mm Petri dish (any brand).</li>
	<li>Place microscope cover glass slips (12 mm diameter) on Parafilm in a 60 mm tissue culture dish or place them individually in single wells of 24-well plates.</li>
</ol>
Note 1: These small round coverslips help to concentrate myofiber numbers and reduce excess antibody usage.
Note 2: Other size coverslips will work; however, the volumes of reagents and embryos used will need to be adjusted accordingly.
<ol start="3">
	<li>Pipette 50-200 &#956;l of poly-L-lysine solution (0.01%) on each cover glass in the Petri dish.</li>
	<li>Allow the coverslips to sit at least one hour at 37 &#176;C. Longer incubations will not negatively influence results.</li>
	<li>Remove poly-L-lysine solution from the cover glass and wash twice with a minimum of 100 &#956;l 1x PBS.</li>
	<li>Allow coverslips to dry.</li>
	<li>Coverslips are now ready for myofibers.</li>
</ol>
Note 3: To ensure sterility, coating can be done in a hood and on autoclaved coverslips.
Note 4: Keep the 60 mm Petri dish with Parafilm on the bottom. This setup will be used during myofiber plating and immunolabeling (later steps).
Alternative 1: Instead of coating coverslips immediately prior to use, a coated coverslip stock can be used. A 60 mm Petri dish containing a minimum of 2 ml poly-L-lysine can be stored at 4 &#176;C containing numerous coverslips. With this alternative start at step 1.5 to process the coverslips for myofibers.
Alternative 2: We also coat coverslips in poly-L-ornithine. This is more labor intensive, but is useful for longer term culturing because poly-L-ornithine coated coverslips can be UV treated. With UV treatment and careful sterile technique live myofibers can typically be maintained in culture from 4-7 days.
2. Dissociation of Zebrafish Embryos and Plating of Myofibers (Time: 1 to 3 hr)
Note: the standard protocol applies best to 3 dpf (days post fertilization) embryos.
<ol>
	<li>Transfer zebrafish embryos into a standard 1.5 ml centrifuge tube and remove as much excess fish water as possible. Typically, 10-20 embryos per tube, though less can be used. Using more than 20-25 embryos often results in a preparation of excessive density.
	<ol>
		<li>Remove chorions prior to dissociation, manually using #5 forceps. Alternatively, chemical chorion removal is achieved with a 10-15 min Pronase treatment. Typically, the previous removal of the chorion is only needed when prior confirmation of a mutant phenotype or morphology is required, or when using stages where embryos are naturally hatched from their chorion.</li>
	</ol>
	</li>
	<li>Add 900 &#956;l of CO2&#160;independent media to the tube containing the embryos.</li>
	<li>Add 100 &#956;l of collagenase type II, final concentration 3.125 mg/ml (Stock collagenase solution at 31.25 mg/ml diluted in 1x PBS) to begin dissociation. Collagenase IV can also be used for the dissociation.</li>
	<li>Rotate embryos on an orbital shaker, and triturate every 30 min at RT using a P1000 Pipetman for the trituration.</li>
</ol>
Note 2: Carefully monitor embryo dissociation; over or under dissociation (especially over) are the most common reasons for protocol failure. Times for digestion will vary depending on intensity of trituration, number of embryos per tube, and age of embryos. It is also often less (in comparison to wild types) for embryos from skeletal muscle mutants.
Note 3: Average digestion time per embryo age: 1 dpf = 1 hr, 2 dpf = 1.5 hr, 3 dpf = 2 hr, and 4 dpf = 2-2.5 hr.
<ol start="5">
	<li>Stop digestion when no whole embryos are visible, yet solid pieces are still visible -&#160;this is essential to prevent overdigestion.</li>
	<li>Centrifuge tubes with dissociated embryos at 0.8-2.3 x g for 3-5 min to pellet cells.</li>
	<li>Remove supernatant from pelleted cells and wash 2x with CO2&#160;independent media.</li>
	<li>Add fresh CO2&#160;independent media to resuspend cells. 1 ml is typically used for preps of 10-20 embryos. The volume can be scaled based on embryo number.</li>
	<li>Using a P1000 pipette, pass embryo suspension through a 70 &#956;m filter . This helps remove unwanted debris from the prep.</li>
</ol>
Note 4: Embryo suspension can be filtered a second time through a 40 &#956;m filter to further remove unwanted debris. From a double filtration, recovery is approximately 800 &#956;l from a starting volume of 1 ml.
<ol start="10">
	<li>Add approximately 50-100 &#956;l of myofiber suspension to each poly-L-lysine coated coverslip.</li>
</ol>
Note 5: Perform step 2.9 in the Petri dishes with Parafilm on the bottom, previously prepared. The Parafilm keeps the myofiber suspension from running off the coated coverslips. Keep Petri dishes covered to prevent evaporation.
<ol start="11">
	<li>Allow myofibers to settle approximately 1 hr onto the coated coverslips at room temperature.</li>
</ol>
Note 6: Myofibers will begin to settle within 5-10 min. However, for good myofiber attachment, a minimum of 1 hr (1-2 hr) is recommended. Allowing myofibers to settle for longer will not harm the prep. For longer incubations (including overnight), antibiotics can be added to the media. With antibiotics and sterile technique live cultures can typically be maintained for 1-2 days.
<ol start="12">
	<li>Live myofibers can be observed at this point. Myofibers from embryos 2 dpf and later will be seen as striated and elongated cells (Figure 1). At this point, myofibers are now ready for live analysis or for immunolabeling.</li>
</ol>
Note 7: Skeletal muscle from 1 dpf embryos does not plate as elongated and clearly striated fibers. Instead, large myoballs are visible. In addition, during the pelleting phase post dissociation (step 2.6), 1 dpf myoballs need to be centrifuged for a minimum of 8 min at 5,000 x g to achieve a pellet. For analysis of embryos at this stage, it is recommended to use the transgenic line expressing EGFP specifically in skeletal muscle23. This will allow identification of cells from muscle origin versus other sources.
3. Fluorescence Immunostaining of Dissociated Zebrafish Myofibers (Time: approximately 1 day)
3.1.&#160;Immunolabeling
<ol>
	<li>Remove a portion of media from myofibers adhered to the coated coverslip</li>
	<li>Fix cells using 4% paraformaldehyde or methanol. For PFA, remove &#189; the volume of media and replace with the same amount of PFA. Fix for 10 min at RT, then remove total volume, replace with 50-100 &#956;l of PFA, and fix for an additional 10 min. For alcohol fixation, ice cold methanol or acetone can be applied at 4 &#176;C for 10 min or 5 min, respectively.</li>
	<li>Wash myofibers at least 3-5x with 1x PBS or 1x PBS plus 0.1% TWEEN. Average wash volume is 50-100 &#956;l per coverslip.</li>
	<li>Add blocking solution to myofibers (working stock) and incubate 20-60 min at room temperature. Blocking solution will vary depending on the primary and secondary antibodies. The two most common used in the lab are (1) 1x PBS, 2 mg/ml BSA, 1% sheep serum, 0.25% Triton X-100 final and (2) 0.2% Triton X-100, 2 mg/ml (0.2% BSA) and 5% sheep/goat serum.</li>
	<li>Remove blocking solution and add primary antibody diluted in either blocking solution or PBS. Incubate myofibers overnight at 4 &#176;C. Make sure to either Parafilm or wrap in saran wrap the Petri dish containing the myofiber-loaded coverslips coated with antibody. Small pieces of moistened paper towel can be added to create a humidified chamber.</li>
	<li>Remove primary antibody from coverslips and wash coverslips 3-5x for 5 min with PBS or blocking solution.</li>
	<li>Add secondary antibody at appropriate concentration diluted in 1x PBS or blocking solution for 1-2 hr at RT.</li>
	<li>Remove secondary antibody and wash myofibers 3-5x in PBS for 5 min each at RT.</li>
</ol>
3.2.&#160;Mounting coverslips
<ol start="9">
	<li>Apply 1-2 drops of antifade reagent to a microscope slide.</li>
	<li>Carefully pick-up the coated and immunolabled coverslip using forceps and place (myofibers down) the coverslip on the antifade reagent on the microscope slide.</li>
</ol>
Note 1: Attention to the orientation of the coated coverslip is critical.
<ol start="11">
	<li>Lay 1-2 Kimwipes on a hard solid surface. Quickly invert the slide with the coated coverslips resting on the antifade reagent and place it (coverslip down) on the Kimwipes.</li>
	<li>Apply light pressure to the corners of the microscope slide to remove excess antifade and form a tight seal between the slide and coverslip</li>
	<li>Allow the antifade remaining to dry for 5-10 min at RT, then the myofibers are ready to image (Figures 2A and&#160;B) or store at 4 &#176;C.</li>
</ol>
4. Live Cell Calcium Imaging Using GCaMP3
Live cell experiments can be performed on myofibers prior to fixation (following step 2.10). The following protocol describes live imaging in myofibers expressing GCaMP324, a genetically encoded calcium indicator, expressed by the skeletal muscle specific zebrafish &#945;-actin promoter (pSKM)23. Alternatively, this technique can be readily adapted to use calcium indicator dyes such as Fura-2.
<ol>
	<li>Inject embryos with pSKM: GCaMP3 construct at the 1-2 cell stage</li>
	<li>At 3 dpf, collect larvae and prepare myofibers as described in sections 1 and 2. Allow myofibers to adhere for a minimum of 1 hr. For this technique, preparing coverslips in 24-well dishes is required.</li>
	<li>Carefully remove any excess media, and add 300 &#956;l of fresh CO2&#160;independent media at RT.</li>
	<li>Observe cells under an inverted microscope. GCaMP3 positive myofibers should be visible under green fluorescence.</li>
	<li>Set up camera for recording, if desired.</li>
	<li>Prepare a 30 mM caffeine solution in CO2&#160;independent media. To stimulate cells, gently pipette 300 &#956;l of caffeine solution into the well under magnification. Within 5-10 sec, GCaMP positive myofibers should respond to caffeine with a rapid increase in fluorescence (Figure 3). Myofibers may also contract. Of note, caffeine induces calcium release from the sarcoplasmic reticulum stores25. Other agents, such as KCl26&#160;and ryanodine4, can be used to study inducible calcium release.</li>
</ol>

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E., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Novel+deletion+of+lysine+7+expands+the+clinical,+histopathological+and+genetic+spectrum+of+TPM2-related+myopathies.">Novel deletion of lysine 7 expands the clinical, histopathological and genetic spectrum of TPM2-related myopathies.</a> Brain. 136, 508-521 (2013).</li><li>Schredelseker, J., Shrivastav, M., Dayal, A., Grabner, M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Non-Ca2+-conducting+Ca2++channels+in+fish+skeletal+muscle+excitation-contraction+coupling.">Non-Ca2+-conducting Ca2+ channels in fish skeletal muscle excitation-contraction coupling.</a> Proc. Natl. Acad. Sci. U.S.A. 107, 5658-5663 (2010).</li></ol>

The authors declare no conflicting interests.

Zebrafish are a powerful vertebrate model system for studying muscle development and function&#160;in vivo25,27,28&#160;. They have also emerged as a valuable asset for modeling human muscle diseases14,15,20,29&#160;. While great strides have been taken to advance the use and application of zebrafish for the study of muscle function and muscle disease, there is a constant critical need to develop tools that will allow more in depth analysis that compliments the genetic, morphologic, behavio...

Skeletal muscle is a highly specialized tissue responsible for generating the contractile forces necessary for motility. Contraction is initiated through a process known as excitation-contraction (EC) coupling that converts electric signals to calcium release from intracellular stores1,2 . Intracellular calcium release activates the sarcomere to shorten and generate force. The many specific components of the molecular machinery responsible for mediating neuromuscular junction transmission3, EC coupling4,5 , and actin-myosin dependent contractions6 continue to be the ongoing subject of intense research. In addition, proteins that stabilize the muscle membrane during contraction7,8 and that mediate signaling between the myofiber and the extracellular matrix7,9 have been identified and studied in great detail.
Mutations in a number of genes important for muscle structure and function have been identified as causes of human skeletal muscle diseases (<a href="http://www.musclegenetable.org/" target="_blank">http://www.musclegenetable.org/</a>). These diseases, classified broadly as skeletal myopathies and muscular dystrophies based on clinical and histopathologic features, are associated with muscle weakness, lifelong disability, and early mortality10,11 . The zebrafish has proven to be an outstanding system for modeling and studying human skeletal muscle diseases8,12,13 . It has been employed to validate new gene mutations8, define new aspects of disease pathophysiology14,15 , and identify new therapeutic approaches15,16 . The power of the zebrafish for studying human muscle disease relates to the large number of offspring, the rapid development of muscle structure and function, the optical clarity of the zebrafish embryo, and the ease of genetic and pharmacologic manipulation of the developing zebrafish17.
We and others12,18,19 have recently developed a simple technique for the rapid and efficient isolation of myofibers from the developing zebrafish. This methodology has enabled the examination of myofibers in greater detail than can be provided by whole embryo analysis. The technique has been exploited for the characterization of protein subcellular localization20 as well as for the identification of important histopathologic characteristics as part of validation studies in newly developed disease models21. Furthermore, isolated myofibers can additionally be used for live imaging and for electrophysiological studies22, techniques that allow for the interrogation of key aspects of muscle function. The specific protocol for myofiber isolation, along with two examples of subsequent analytic experiments, is detailed in the remaining parts of this manuscript.

<table border="1">
	<tbody>
		<tr>
			<td>Name of the reagent</td>
			<td>Company</td>
			<td>Catalogue number</td>
			<td>Comments (optional)</td>
		</tr>
		<tr>
			<td>24-well culture plate</td>
			<td>Corning</td>
			<td>3524</td>
			<td></td>
		</tr>
		<tr>
			<td>10x PBS</td>
			<td>Invitrogen Gibco</td>
			<td>70011</td>
			<td></td>
		</tr>
		<tr>
			<td>CO2 Independent medium</td>
			<td>Invitrogen Gibco</td>
			<td>18045</td>
			<td></td>
		</tr>
		<tr>
			<td>Collagenase Type II</td>
			<td>Worthington Biochemical</td>
			<td>LS004186</td>
			<td>Lot 41H12764</td>
		</tr>
		<tr>
			<td>Collagenase Type IV</td>
			<td>Worthington Biochemical</td>
			<td>L5004188</td>
			<td></td>
		</tr>
		<tr>
			<td>8% Paraformaldehyde</td>
			<td>Electron Microscopy Sciences</td>
			<td>157-8</td>
			<td></td>
		</tr>
		<tr>
			<td>Methanol</td>
			<td>Sigma</td>
			<td>322415</td>
			<td></td>
		</tr>
		<tr>
			<td>Triton X-100</td>
			<td>Sigma</td>
			<td>X100</td>
			<td></td>
		</tr>
		<tr>
			<td>BSA</td>
			<td>Sigma</td>
			<td>A2153</td>
			<td></td>
		</tr>
		<tr>
			<td>Sheep serum</td>
			<td>Sigma</td>
			<td>S3772</td>
			<td></td>
		</tr>
		<tr>
			<td>Goat serum</td>
			<td>Sigma</td>
			<td>G9023</td>
			<td></td>
		</tr>
		<tr>
			<td>Glass coverslips</td>
			<td>Fischerbrand</td>
			<td>12-545-82 12CIR-1D</td>
			<td></td>
		</tr>
		<tr>
			<td>Poly-L-Lysine</td>
			<td>Sigma</td>
			<td>P4707</td>
			<td></td>
		</tr>
		<tr>
			<td>Pronase</td>
			<td>Sigma</td>
			<td>P5147</td>
			<td></td>
		</tr>
		<tr>
			<td>40 &#956;m Filter</td>
			<td>BD Biosciences</td>
			<td>352340</td>
			<td></td>
		</tr>
		<tr>
			<td>70 &#956;m Filter</td>
			<td>BD Biosciences</td>
			<td>352350</td>
			<td></td>
		</tr>
		<tr>
			<td>Prolong Gold antifade reagent</td>
			<td>Invitrogen</td>
			<td>P36931</td>
			<td></td>
		</tr>
		<tr>
			<td>Anti-&#945;-Actinin antibody</td>
			<td>Sigma</td>
			<td>A5044</td>
			<td></td>
		</tr>
		<tr>
			<td>Anti-RYR antibody</td>
			<td>Abcam</td>
			<td>34C</td>
			<td></td>
		</tr>
		<tr>
			<td>Alexa Fluor antibody</td>
			<td>Invitrogen</td>
			<td>A-21425</td>
			<td></td>
		</tr>
		<tr>
			<td>TWEEN 20</td>
			<td>Sigma</td>
			<td>P1379</td>
			<td></td>
		</tr>
		<tr>
			<td>60 mm Petri dish</td>
			<td>Fischerbrand</td>
			<td>0875713A</td>
			<td></td>
		</tr>
		<tr>
			<td>Poly-L-Ornithine</td>
			<td>Sigma</td>
			<td>P4957</td>
			<td></td>
		</tr>
		<tr>
			<td>Microscope slide</td>
			<td>Fischerbrand</td>
			<td>12-550-15</td>
			<td></td>
		</tr>
		<tr>
			<td>Caffeine</td>
			<td>Sigma</td>
			<td>C0750</td>
			<td></td>
		</tr>
	</tbody>
</table>

analysis of embryonic and larval zebrafish skeletal myofibers from dissociated preparations

The zebrafish has proven to be a valuable model system for exploring skeletal muscle function and for studying human muscle diseases. Despite the many advantages offered by in vivo analysis of skeletal muscle in the zebrafish, visualizing the complex and finely structured protein milieu responsible for muscle function, especially in whole embryos, can be problematic. This hindrance stems from the small size of zebrafish skeletal muscle (60 &mu;m) and the even smaller size of the sarcomere. Here we describe and demonstrate a simple and rapid method for isolating skeletal myofibers from zebrafish embryos and larvae. We also include protocols that illustrate post preparation techniques useful for analyzing muscle structure and function. Specifically, we detail the subsequent immunocytochemical localization of skeletal muscle proteins and the qualitative analysis of stimulated calcium release via live cell calcium imaging. Overall, this video article provides a straight-forward and efficient method for the isolation and characterization of zebrafish skeletal myofibers, a technique which provides a conduit for myriad subsequent studies of muscle structure and function.

Fluorescent immunolabeling of myofibers (Figure 2) 
Images showing expected fluorescent labeling pattern from myofibers immunostained after successful isolation and plating. The myofibers have been labeled with either anti-ryanodine receptor (1:100) (Figure 2A) or anti-&#945;-actinin (1:100) (Figure 2B) antibodies, and reveal immunostaining of the triad and the Z-band respectively. Secondary antibodies used were Alexa Fluor 555 (1:500...

Watch this Scientific Journal Video about Analysis of Embryonic and Larval Zebrafish Skeletal Myofibers from Dissociated Preparations at JoVE.com

Analysis of Embryonic and Larval Zebrafish Skeletal Myofibers from Dissociated Preparations

Zebrafish are an emerging system for modeling human disorders of the skeletal muscle. We describe a fast and efficient method to isolate skeletal muscle myofibers from embryonic and larval zebrafish. This method yields a high-density myofiber preparation suitable for study of single skeletal muscle fiber morphology, protein subcellular localization, and muscle physiology.

The zebrafish has  proven to be a valuable model system for exploring skeletal muscle function and  for studying human muscle diseases. Despite  the many ...

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11.5K Views.  University of Michigan. Zebrafish are an emerging system for modeling human disorders of the skeletal muscle. We describe a fast and efficient method to isolate skeletal muscle myofibers from embryonic and larval zebrafish. This method yields a high-density myofiber preparation suitable for study of single skeletal muscle fiber morphology, protein subcellular localization, and muscle physiology.