This research was supported by grants F31DC017053-01A1 (Lenell, PI) and K23DC014517 (Johnson, PI) from the National Institute on Deafness and other Communication Disorders of the National Institutes of Health.

This study was performed in compliance with the Institutional Animal Care and Use Committee of New York University School of Medicine.
1. Dissect rat larynx
<ol>
	<li>Euthanize rat according to the institutionally approved protocol. Shave the ventral neck from the mandible to manubrium and swab with alcohol to prevent fur contamination in the tissue specimens.</li>
	<li>Under a dissecting scope with 10x magnification excise the entire larynx by creating a midline neck incision with a scalpel until the trachea is exposed.</li>
	<li>Separate the ventral extrinsic laryngeal muscles at the midline to expose the larynx using forceps and dissecting scissors or a scalpel.</li>
	<li>Sever the trachea caudal to the third tracheal ring and make an incision rostral to the hyoid bone to excise the whole larynx using dissecting scissors.</li>
	<li>Remove the extrinsic laryngeal tissues (esophagus, thyroid gland, and extrinsic laryngeal muscles) from the larynx using microdissection tools (tweezers, pins, and microscissors) under magnification.</li>
	<li>With microscissors, bisect the larynx dorsally between the arytenoids using the midline between the posterior cricoarytenoid muscles as a landmark. Pin lateral walls of the larynx to expose the vocal folds and then bisect ventrally through the midline of the thyroid cartilage between the anterior commissure of the vocal folds with microscissors (Figure 1). 
	NOTE: This step can be optional; it can be skipped to keep the larynx whole. Bisection of larynges allow multiple immunostaining techniques by separately using the right and left sides of the same larynx.</li>
	<li>Rinse each hemi-larynx in phosphate buffered solution (PBS) for ~10 s and delicately dry with a task wiper to reduce ice crystal formation during freezing.</li>
</ol>
2. Fix and/or flash-freeze laryngeal tissue
NOTE: Fixation may not be ideal for all immunostaining protocols. Often laryngeal tissues are flash-frozen fresh immediately following dissection. Skip step 2.1 to flash-freeze laryngeal tissue without fixation.
<ol>
	<li>To fix hemi-larynges place tissues in centrifuge tube filled with 4% formaldehyde in PBS for 1 h at room temperature on an orbital shaker at 70 rpm. Transfer tissues to a clean centrifuge tube and rinse 3x for 20 min in PBS. Then transfer to a clean centrifuge tube and submerge in a 20% sucrose/5% glycerol solution (~18 h or until tissue sinks) at 4 &#176;C. 
	CAUTION: Formaldehyde is hazardous and should be used in a fume hood along with appropriate personal protective equipment.</li>
	<li>Place all hemi-larynges in a uniform position into a cryo-mold filled with optimal cutting temperature (OCT) compound. For a hemilarynx, place the tissue with the medial surface of the vocal fold facing the bottom of the cryomold and the longitudinal aspect of the vocal fold parallel to the lower edge of the cryomold opening. For whole larynges, place the tissue with the posterior cricoarytenoids facing the bottom of the cryomold and the longitudinal aspect of the vocal fold parallel to the lower edge of the cryomold opening. 
	NOTE: Consistent laryngeal orientation within OCT compound is critical for cryosectioning of the rat vocal fold. Once the hemilarynx is embedded and frozen, it must be thawed to change its orientation, thereby introducing risks of tissue damage from multiple thaw-freeze cycles.</li>
	<li>Flash-freeze tissues using isopentane (2-methylbutane) chilled in a steel beaker surrounded by liquid nitrogen. 
	NOTE: The isopentane reaches optimal temperature for tissue freezing when white precipitates start to form on the sides and bottom of the beaker13. Isopentane is used because it has a higher thermal conductivity than liquid nitrogen, which helps prevent cracking of the tissue block during rapid freezing. For a more detailed description of freezing tissue in OTC refer to Kumar et al.13.</li>
	<li>Wrap each mold in prelabeled foil and place in an individual freezer bag to prevent dehydration and immediately store on dry ice until transferred for storage in a -80 &#176;C freezer.</li>
</ol>
3. Cryosection hemilarynx in cross-sectional plane
<ol>
	<li>Set chamber temperature in the cryostat to -20 &#176;C, which is in the middle of the temperature range (15&#8722;25 &#176;C) recommended for muscle tissue sectioning by the manufacturer&#8217;s manual.</li>
	<li>Set cryostat section thickness to 10 &#181;m thick sections. 
	NOTE: For muscle fiber cross-sectional analysis, 10 &#181;m thick sections are optimal to allow for complete staining and robust imaging intensity of the labeled muscle fibers for fiber typing analysis14,15,16. Some protocols may require different section thickness depending on neuromuscular targets.</li>
	<li>Transfer tissues to the cryostat chamber, add a uniform layer of OCT compound on the cryostat specimen disk (chuck), and place the embedded tissue block on top of the OCT compound on the specimen disk. To obtain cross-sections of the vocal fold for thyroarytenoid (TA) muscle fiber analysis, affix the specimen to the chuck so that the ventral thyroid cartilage faces the cryostat blade and the arytenoid cartilage faces the specimen disk. 
	NOTE: It is critical to note that these landmarks are not visible at this stage, due to the OCT compound becoming white and opaque when frozen. This lack of visibility is why it is critical to note the orientation of the hemilarynx during the flash freezing stage.</li>
	<li>Trim OCT compound by advancing the specimen head by 100 &#181;m until the ventral portion of the thyroid cartilage appears.</li>
	<li>Then trim and track 30 &#181;m sections from the onset of the thyroid cartilage until the lamina propria, medial TA muscles, and lateral TA muscle are exposed. 
	NOTE: Laryngeal landmarks should be tracked and noted from the onset of the thyroid cartilage every 100 &#181;m to ensure the angle of sectioning is not oblique. Figure 2 represents the two sets of laryngeal landmarks in the cross-sectional plane at 10x magnification.</li>
	<li>Once the target TA muscle is reached, collect sections on positively charged slides at 10 &#181;m.</li>
	<li>Store sections in PBS at 4 &#176;C to retain moisture until they are ready to be stained. 
	NOTE: Fixed tissue can be stored in PBS up to one week depending on IHC target whereas unfixed tissue should be immediately processed.</li>
</ol>
4. Cryosection hemilarynx in longitudinal plane
<ol>
	<li>With the cryostat chamber again set to -20 &#176;C, change the section thickness to 30 &#181;m. 
	NOTE: For NMJ analysis, a tissue thickness between 30&#8722;60 &#181;m can be used to capture several complete NMJs within the laryngeal muscles without fragmentation of either the nerve terminal or motor endplate11,12,17.</li>
	<li>To obtain longitudinal vocal fold sections for NMJ analysis of the TA muscle, affix the specimens to the chuck so that the epiglottis is oriented towards the cryostat blade and the tracheal lumen faces down towards the specimen disk.</li>
	<li>Trim the OCT compound by advancing the specimen head by 100 &#181;m until the thyroid cartilage appears.</li>
	<li>Trim and track sections of 30 &#181;m from the onset of the thyroid until the lamina propria and medial and lateral divisions of the TA muscle are exposed. 
	NOTE: Five sets of laryngeal landmarks in the longitudinal plane are recommended to track tissue depth progression towards the target TA muscle. Figure 3 represents the laryngeal landmarks in the longitudinal plane at 10x magnification.</li>
	<li>Once the target TA muscle is reached, collect sections on positively charged slides at 30 &#181;m.</li>
	<li>Store sections in PBS at 4 &#176;C to retain moisture until they are ready to be stained.</li>
</ol>

<ol>
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R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Changes+in+Rat+50-kHz+Ultrasonic+Vocalizations+During+Dopamine+Denervation+and+Aging:+Relevance+to+Neurodegeneration.">Changes in Rat 50-kHz Ultrasonic Vocalizations During Dopamine Denervation and Aging: Relevance to Neurodegeneration.</a> Current Neuropharmacology. 13 (2), 211-219 (2015).</li><li>Wright, J. M., Gourdon, J. C., Clarke, P. B. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Identification+of+multiple+call+categories+within+the+rich+repertoire+of+adult+rat+50-kHz+ultrasonic+vocalizations:+effects+of+amphetamine+and+social+context.">Identification of multiple call categories within the rich repertoire of adult rat 50-kHz ultrasonic vocalizations: effects of amphetamine and social context.</a> Psychopharmacology. 211 (1), 1-13 (2010).</li><li>Bowers, J. M., Perez-Pouchoulen, M., Edwards, N. S., McCarthy, M. M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Foxp2+mediates+sex+differences+in+ultrasonic+vocalization+by+rat+pups+and+directs+order+of+maternal+retrieval.">Foxp2 mediates sex differences in ultrasonic vocalization by rat pups and directs order of maternal retrieval.</a> Journal of Neuroscience. 33 (8), 3276-3283 (2013).</li><li>Basken, J. N., Connor, N. P., Ciucci, M. R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Effect+of+aging+on+ultrasonic+vocalizations+and+laryngeal+sensorimotor+neurons+in+rats.">Effect of aging on ultrasonic vocalizations and laryngeal sensorimotor neurons in rats.</a> Experimental Brain Research. 219 (3), 351-361 (2012).</li><li>Ciucci, M. R., 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=Reduction+of+dopamine+synaptic+activity:+degradation+of+50-kHz+ultrasonic+vocalization+in+rats.">Reduction of dopamine synaptic activity: degradation of 50-kHz ultrasonic vocalization in rats.</a> Behavioral Neuroscience. 123 (2), 328-336 (2009).</li><li>Ciucci, M. R., Vinney, L., Wahoske, E. J., Connor, N. P. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=A+translational+approach+to+vocalization+deficits+and+neural+recovery+after+behavioral+treatment+in+Parkinson+disease.">A translational approach to vocalization deficits and neural recovery after behavioral treatment in Parkinson disease.</a> Journal of Communication Disorders. 43 (4), 319-326 (2010).</li><li>Nagai, H., Ota, F., Konopacki, R., Connor, N. P. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Discoordination+of+laryngeal+and+respiratory+movements+in+aged+rats.">Discoordination of laryngeal and respiratory movements in aged rats.</a> American Journal of Otolaryngology. 26 (6), 377-382 (2005).</li><li>Ma, S. T., Maier, E. Y., Ahrens, A. M., Schallert, T., Duvauchelle, C. L. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Repeated+intravenous+cocaine+experience:+development+and+escalation+of+pre-drug+anticipatory+50-kHz+ultrasonic+vocalizations+in+rats.">Repeated intravenous cocaine experience: development and escalation of pre-drug anticipatory 50-kHz ultrasonic vocalizations in rats.</a> Behavioural Brain Research. 212 (1), 109-114 (2010).</li><li>Inagi, K., Schultz, E., Ford, C. N. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=An+anatomic+study+of+the+rat+larynx:+establishing+the+rat+model+for+neuromuscular+function.">An anatomic study of the rat larynx: establishing the rat model for neuromuscular function.</a> Otolaryngology and Head and Neck Surgery. 118 (1), 74-81 (1998).</li><li>Lenell, C., Newkirk, B., Johnson, A. M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Laryngeal+Neuromuscular+Response+to+Short-+and+Long-Term+Vocalization+Training+in+Young+Male+Rats.">Laryngeal Neuromuscular Response to Short- and Long-Term Vocalization Training in Young Male Rats.</a> Journal of Speech, Language, and Hearing Research. 62 (2), 247-256 (2019).</li><li>Kumar, A., Accorsi, A., Rhee, Y., Girgenrath, M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Do's+and+don'ts+in+the+preparation+of+muscle+cryosections+for+histological+analysis.">Do's and don'ts in the preparation of muscle cryosections for histological analysis.</a> Journal of Visualized Experiments. (99), e52793 (2015).</li><li>McMullen, C. A., Andrade, F. H. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Functional+and+morphological+evidence+of+age-related+denervation+in+rat+laryngeal+muscles.">Functional and morphological evidence of age-related denervation in rat laryngeal muscles.</a> Journals of Gerontology. Series A: Biological Sciences and Medical Sciences. 64 (4), 435-442 (2009).</li><li>McMullen, C. A., 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=Chronic+stimulation-induced+changes+in+the+rodent+thyroarytenoid+muscle.">Chronic stimulation-induced changes in the rodent thyroarytenoid muscle.</a> Journal of Speech, Language, and Hearing Research. 54 (3), 845-853 (2011).</li><li>Lenell, C., Johnson, A. M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Sexual+dimorphism+in+laryngeal+muscle+fibers+and+ultrasonic+vocalizations+in+the+adult+rat.">Sexual dimorphism in laryngeal muscle fibers and ultrasonic vocalizations in the adult rat.</a> Laryngoscope. 127 (8), 270-276 (2017).</li><li>Johnson, A. M., Ciucci, M. R., Connor, N. P. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Vocal+training+mitigates+age-related+changes+within+the+vocal+mechanism+in+old+rats.">Vocal training mitigates age-related changes within the vocal mechanism in old rats.</a> Journals of Gerontology. Series A: Biological Sciences and Medical Sciences. 68 (12), 1458-1468 (2013).</li><li>Feng, X., Zhang, T., Ralston, E., Ludlow, C. L. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Differences+in+neuromuscular+junctions+of+laryngeal+and+limb+muscles+in+rats.">Differences in neuromuscular junctions of laryngeal and limb muscles in rats.</a> Laryngoscope. 122 (5), 1093-1098 (2012).</li></ol>

The authors have nothing to disclose.

Preparing rat vocal folds for neuromuscular analysis can present with various challenges. Not only are laryngeal muscles small and surrounded by cartilage, thereby making it difficult to directly extract target muscle, high variability was also found between animals in the depth of laryngeal anatomical landmarks. For muscle the cross-section plane protocol, complete vocal fold sections appeared between 21&#8722;85 sections (10 &#181;m per section) after the initial appearance of the ventral thyroid cartilage, which is qu...

The rat larynx is a well-established model to investigate structural and functional neuromuscular laryngeal adaptations to development, aging, disease, and pharmacological agents1,2,3,4,5. Consistency of histological methods is critical to this line of work, as there are multiple intricacies involved in muscle preparation and analysis as well as challenges associated with laryngeal size, shape, and topography of the muscles encapsulated within the laryngeal cartilages1,6,7,8,9,10,11. Due to the small size of the rat intrinsic laryngeal muscles, systematic embedding, freezing, and cryosectioning are critical to achieve consistent and accurate results. For example, when sectioning the rat vocal fold in the coronal plane, the neuromuscular junctions (NMJs) of four of the intrinsic laryngeal muscles are located within less than 1.8 mm of tissue depth11. Therefore, precise monitoring of laryngeal muscle anatomy during cryosectioning is imperative to accurately identify the section(s) of interest and prevent oversectioning of tissue. Oversectioning of the target muscle can result in inaccurate identification of number and topography of NMJs11 or can result in overall reductions in sample size if the target muscle is discarded due to landmark orientation confusion12. As novel models for the study of laryngeal muscle and their respective adaptations are developed, standard operating procedures are essential to ensure results are precise, reliable, and reproducible across studies.
The objective of this article is to detail preparation of the rat vocal fold for optimal longitudinal and cross-sectional analysis. Detailed methods used regularly in our laboratory are described to identify target muscle landmarks during cryosectioning. Although similar methods are used in several laboratories, greater detail is provided here than in the literature to ensure reliable and accurate replication when implemented by novice investigators. The goal of this tutorial is to provide a standard methodology for immunohistochemical (IHC) evaluation of the rat vocal fold to improve consistency across laboratories and investigations.

<table>
	<tbody>
		<tr>
			<td>2-Methylbutane Certified</td>
			<td>Fisher Chemical</td>
			<td>35514</td>
			<td></td>
		</tr>
		<tr>
			<td>Aluminum Foil</td>
			<td>Fisherbrand</td>
			<td>1213101</td>
			<td></td>
		</tr>
		<tr>
			<td>Cryo Tongs SS</td>
			<td>Thermo Scientific</td>
			<td>11679123</td>
			<td></td>
		</tr>
		<tr>
			<td>Cryostat</td>
			<td>Leica Biosystems</td>
			<td>CM3050</td>
			<td></td>
		</tr>
		<tr>
			<td>Cryostat blades</td>
			<td>C.L. Sturkey D554X50</td>
			<td>22-210-045</td>
			<td></td>
		</tr>
		<tr>
			<td>Disposable Base Molds 15mm x 15mm</td>
			<td>Thermo Scientific</td>
			<td>41-741</td>
			<td></td>
		</tr>
		<tr>
			<td>Disposable Underpads</td>
			<td>Medline</td>
			<td>23-666-062</td>
			<td></td>
		</tr>
		<tr>
			<td>Dissection kit</td>
			<td>Thermo Scientific</td>
			<td>9996969</td>
			<td></td>
		</tr>
		<tr>
			<td>DPBS - Dulbecco&#39;s Phosphate-Buffered Saline</td>
			<td>Gibco</td>
			<td>14190136</td>
			<td></td>
		</tr>
		<tr>
			<td>Frozen Section Medium</td>
			<td>Fisher Healthcare</td>
			<td>23-730-571</td>
			<td></td>
		</tr>
		<tr>
			<td>Ice Bucket</td>
			<td>Bel-Art</td>
			<td>11999054</td>
			<td></td>
		</tr>
		<tr>
			<td>Immunostain Moisture Chamber</td>
			<td>Ted Pella Inc</td>
			<td>NC9425474</td>
			<td></td>
		</tr>
		<tr>
			<td>Needle holders</td>
			<td>Assi</td>
			<td>ASSI.B148</td>
			<td></td>
		</tr>
		<tr>
			<td>Non-Woven Sponges, 4 Ply</td>
			<td>Quick Medical</td>
			<td>9023</td>
			<td></td>
		</tr>
		<tr>
			<td>Orbital shaker</td>
			<td>Troemner</td>
			<td>02-217-987</td>
			<td></td>
		</tr>
		<tr>
			<td>Pap pen</td>
			<td></td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>Paraformaldehyde, 16% w/v aq. soln., methanol free</td>
			<td>Alfa Aesar</td>
			<td>50-00-0</td>
			<td></td>
		</tr>
		<tr>
			<td>Premium Microcentrifuge Tubes</td>
			<td>Fisherbrand</td>
			<td>5408129</td>
			<td></td>
		</tr>
		<tr>
			<td>Specimen Storage Bags</td>
			<td>Fisherbrand</td>
			<td>19240093</td>
			<td></td>
		</tr>
		<tr>
			<td>Stainless Steel Graduated Measure 32 oz/100 mL</td>
			<td>Polar Ware</td>
			<td>114231B</td>
			<td></td>
		</tr>
		<tr>
			<td>Superfrost Plus Microscope Slides</td>
			<td>Fisherbrand</td>
			<td>12-550-15</td>
			<td></td>
		</tr>
		<tr>
			<td>Task wiper</td>
			<td>Kimberly-Clark Professional&#8482; 34155</td>
			<td>06666A</td>
			<td></td>
		</tr>
		<tr>
			<td>Timer</td>
			<td>Fisherbrand</td>
			<td>2261840</td>
			<td></td>
		</tr>
		<tr>
			<td>Vannas Pattern Scissors</td>
			<td>Assi</td>
			<td>ASSI.SAS15RV</td>
			<td></td>
		</tr>
		<tr>
			<td colspan="4">NOTE: For all supplies, these are examples of equipment to purchase. The exact model is not necessary to complete our methods.</td>
		</tr>
	</tbody>
</table>

preparation of the rat vocal fold for neuromuscular analyses

The purpose of this tutorial is to describe the preparation of the rat vocal fold for histochemical neuromuscular study. This protocol outlines procedures for rat laryngeal dissection, flash-freezing, and cryosectioning of the vocal folds. This study describes how to cryosection vocal folds in both longitudinal and cross-sectional planes. A novelty of this protocol is the laryngeal tracking during cryosectioning that ensures accurate identification of the intrinsic laryngeal muscles and reduces the chance of tissue loss. Figures demonstrate the progressive cryosectioning in both planes. Twenty-nine rat hemi-larynges were cryosectioned and tracked from the emergence of the thyroid cartilage to the appearance of the first section that included the full vocal fold. The full vocal fold was visualized for all animals in both planes. There was high variability in the distance from the appearance of the thyroid cartilage to the appearance of the full vocal fold in both planes. Weight was not correlated to depth of laryngeal landmarks, suggesting individual variability and other factors related to tissue preparation may be responsible for the high variability in the appearance of landmarks during sectioning. This study details a methodology and presents morphological data for preparing the rat vocal fold for histochemical neuromuscular investigation. Due to high individual variability, laryngeal landmarks should be closely tracked during cryosectioning to prevent oversectioning tissue and tissue loss. The use of a consistent methodology, including adequate tissue preparation and awareness of landmarks within the rat larynx, will assist with consistent results across studies and aid new researchers interested in using the rat vocal fold as a model to investigate laryngeal neuromuscular mechanisms.

The representative results were part of an ongoing investigation of the effects of vocal exercise on the laryngeal neuromuscular system. Twenty-nine male Fischer 344/brown Norway rats (12 9-month-old, 17 24-month-old) were weighed and euthanized with CO2 inhalation followed by a bilateral thoracotomy.
The procedures followed the outlined protocol to label NMJs and fiber size of the lateral and medial TA muscles. The distance between laryngeal landmarks was tracked in both longitudin...

Watch this Scientific Journal Video about Preparation of the Rat Vocal Fold for Neuromuscular Analyses at JoVE.com

Preparation of the Rat Vocal Fold for Neuromuscular Analyses

This protocol describes methods used to prepare rat vocal folds for histochemical neuromuscular study.

The purpose of this tutorial is to describe the preparation of the rat vocal fold for histochemical neuromuscular study. This protocol outlines procedures ...

preparation-of-the-rat-vocal-fold-for-neuromuscular-analyses

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2.6K Views.  New York University School of Medicine. This protocol describes methods used to prepare rat vocal folds for histochemical neuromuscular study.

Video: Preparation of the Rat Vocal Fold for Neuromuscular Analyses

Morphometric Analyses of Retinal Sections

Morphometric analyses of retinal sections have been used in examining retinal diseases. For examples, neuronal cells were significantly lost in the retinal ganglion cell layer (RGCL) in rat models with N-methyl-D-aspartate (NMDA)&#x2013;induced excitotoxicity1, retinal ischemia-reperfusion injury2 and glaucoma3. Reduction of INL and inner plexiform layer (IPL) thicknesses were reversed with citicoline treatment in rats' eyes subjected to kainic acid-mediated glutamate excitotoxicity4. Alteration of RGC density and soma sizes were observed with different drug treatments in eyes with elevated intraocular pressure3,5,6. Therefore, having objective methods of analyzing the retinal morphometries may be of great significance in evaluating retinal pathologies and the effectiveness of therapeutic strategies.
The retinal structure is multi-layers and several different kinds of neurons exist in the retina. The morphometric parameters of retina such as cell number, cell size and thickness of different layers are more complex than the cell culture system. Early on, these parameters can be detected using other commercial imaging software. The values are normally of relative value, and changing to the precise value may need further accurate calculation. Also, the tracing of the cell size and morphology may not be accurate and sensitive enough for statistic analysis, especially in the chronic glaucoma model. The measurements used in this protocol provided a more precise and easy way. And the absolute length of the line and size of the cell can be reported directly and easy to be copied to other files. For example, we traced the margin of the inner and outer most nuclei in the INL and formed a line then using the software to draw a 90 degree angle to measure the thickness. While without the help of the software, the line maybe oblique and the changing of retinal thickness may not be repeatable among individual observers. In addition, the number and density of RGCs can also be quantified. This protocol successfully decreases the variability in quantitating features of the retina, increases the sensitivity in detecting minimal changes.
 	This video will demonstrate three types of morphometric analyses of the retinal sections. They include measuring the INL thickness, quantifying the number of RGCs and measuring the sizes of RGCs in absolute value. These three analyses are carried out with Stereo Investigator (MBF Bioscience &mdash; MicroBrightField, Inc.). The technique can offer a simple but scientific platform for morphometric analyses.

This video demonstrates three types of morphometric analyses of the retina, which include measuring the inner nuclear layer thickness, quantifying the number of retinal ganglion cells (RGCs) and measuring the sizes of RGCs. The technique can offer a simple but scientific platform for morphometric analyses.

Morphometric analyses of retinal sections have been used in examining retinal diseases. For examples, neuronal cells were significantly lost in the ...

Sequential Photo-bleaching to Delineate Single Schwann Cells at the Neuromuscular Junction

Sequential photo-bleaching provides a non-invasive way to label individual SCs at the NMJ. The NMJ is the largest synapse of the mammalian nervous system and has served as guiding model to study synaptic structure and function. In mouse NMJs motor axon terminals form pretzel-like contact sites with muscle fibers. The motor axon and its terminal are sheathed by SCs. Over the past decades, several transgenic mice have been generated to visualize motor neurons and SCs, for example Thy1-XFP1 and Plp-GFP mice2, respectively.
Along motor axons, myelinating axonal SCs are arranged in non-overlapping internodes, separated by nodes of Ranvier, to enable saltatory action potential propagation. In contrast, terminal SCs at the synapse are specialized glial cells, which monitor and promote neurotransmission, digest debris and guide regenerating axons. NMJs are tightly covered by up to half a dozen non-myelinating terminal SCs - these, however, cannot be individually resolved by light microscopy, as they are in direct membrane contact3.
Several approaches exist to individually visualize terminal SCs. None of these are flawless, though. For instance, dye filling, where single cells are impaled with a dye-filled microelectrode, requires destroying a labelled cell before filling a second one. This is not compatible with subsequent time-lapse recordings3. Multi-spectral "Brainbow" labeling of SCs has been achieved by using combinatorial expression of fluorescent proteins4. However, this technique requires combining several transgenes and is limited by the expression pattern of the promoters used. In the future, expression of "photo-switchable" proteins in SCs might be yet another alternative5. Here we present sequential photo-bleaching, where single cells are bleached, and their image obtained by subtraction. We believe that this approach - due to its ease and versatility - represents a lasting addition to the neuroscientist's technology palette, especially as it can be used in vivo and transferred to others cell types, anatomical sites or species6.
In the following protocol, we detail the application of sequential bleaching and subsequent confocal time-lapse microscopy to terminal SCs in triangularis sterni muscle explants. This thin, superficial and easily dissected nerve-muscle preparation7,8 has proven useful for studies of NMJ development, physiology and pathology9. Finally, we explain how the triangularis sterni muscle is prepared after fixation to perform correlated high-resolution confocal imaging, immunohistochemistry or ultrastructural examinations.

Visualizing individual cells in densely packed tissues, such as terminal Schwann cells (SCs) at neuromuscular junctions (NMJs), is challenging. "Sequential photo-bleaching" allows delineating single terminal SCs, for instance in the triangularis sterni muscle explant, a convenient nerve-muscle preparation, where sequential bleaching can be combined with time-lapse imaging and post-hoc immunostainings.

Sequential photo-bleaching provides a non-invasive way to label individual SCs at the NMJ. The NMJ is the largest synapse of the mammalian nervous system ...

Dissection of the Transversus Abdominis Muscle for Whole-mount Neuromuscular Junction Analysis

Analysis of neuromuscular junction morphology can give important insight into the physiological status of a given motor neuron. Analysis of thin flat muscles can offer significant advantage over traditionally used thicker muscles, such as those from the hind limb (e.g. gastrocnemius). Thin muscles allow for comprehensive overview of the entire innervation pattern for a given muscle, which in turn permits identification of selectively vulnerable pools of motor neurons. These muscles also allow analysis of parameters such as motor unit size, axonal branching, and terminal/nodal sprouting. A common obstacle in using such muscles is gaining the technical expertise to dissect them. In this video, we detail the protocol for dissecting the transversus abdominis (TVA) muscle from young mice and performing immunofluorescence to visualize axons and neuromuscular junctions (NMJs). We demonstrate that this technique gives a complete overview of the innervation pattern of the TVA muscle&#160;and can be used to investigate NMJ pathology in a mouse model of the childhood motor neuron disease, spinal muscular atrophy.

Dissection of the Transversus Abdominis Muscle for Whole-mount Neuromuscular Junction Analysis

In this video we demonstrate a protocol for dissection of the transversus abdominis muscle of the mouse and use immunofluorescence and microscopy to visualize neuromuscular junctions.

Analysis of neuromuscular junction morphology can give important insight into the physiological status of a given motor neuron. Analysis of thin flat ...

Why Quantification Matters: Characterization of Phenotypes at the Drosophila Larval Neuromuscular Junction

Most studies on morphogenesis rely on qualitative descriptions of how anatomical traits are affected by the disruption of specific genes and genetic pathways. Quantitative descriptions are rarely performed, although genetic manipulations produce a range of phenotypic effects and variations are observed even among individuals within control groups.&#160;Emerging evidence shows that morphology, size and location of organelles play a previously underappreciated, yet fundamental role in cell function and survival. Here we provide step-by-step instructions for performing quantitative analyses of phenotypes at the Drosophila larval neuromuscular junction (NMJ). We use several reliable immuno-histochemical markers combined with bio-imaging techniques and morphometric analyses to examine the effects of genetic mutations on specific cellular processes. In particular, we focus on the quantitative analysis of phenotypes affecting morphology, size and position of nuclei within the striated muscles of Drosophila larvae. The Drosophila larval NMJ is a valuable experimental model to investigate the molecular mechanisms underlying the structure and the function of the neuromuscular system, both in health and disease. However, the methodologies we describe here can be extended to other systems as well.

Why Quantification Matters: Characterization of Phenotypes at the Drosophila Larval Neuromuscular Junction

Morphology, size and location of intracellular organelles are evolutionarily conserved and appear to directly affect their function. Understanding the molecular mechanisms underlying these processes has become an important goal of modern biology. Here we show how these studies can be facilitated by the application of quantitative techniques.

Most studies on morphogenesis rely on qualitative descriptions of how anatomical traits are affected by the disruption of specific genes and genetic ...

Microstate and Omega Complexity Analyses of the Resting-state Electroencephalography

Microstate and omega complexity are two reference-free electroencephalography (EEG) measures that can represent the temporal and spatial complexities of EEG data and have been widely used to investigate the neural mechanisms in some brain disorders. The goal of this article is to describe the protocol underlying EEG microstate and omega complexity analyses step by step. The main advantage of these two measures is that they could eliminate the reference-dependent problem inherent to traditional spectrum analysis. In addition, microstate analysis makes good use of high time resolution of resting-state EEG, and the four obtained microstate classes could match the corresponding resting-state networks respectively. The omega complexity characterizes the spatial complexity of the whole brain or specific brain regions, which has obvious advantage compared with traditional complexity measures focusing on the signal complexity in a single channel. These two EEG measures could complement each other to investigate the brain complexity from the temporal and spatial domain respectively.

This article describes the protocol underlying electroencephalography (EEG) microstate analysis and omega complexity analysis, which are two reference-free EEG measures and highly valuable to explore the neural mechanisms of brain disorders.

Microstate and omega complexity are two reference-free electroencephalography (EEG) measures that can represent the temporal and spatial complexities of ...

Levator Auris Longus Preparation for Examination of Mammalian Neuromuscular Transmission Under Voltage Clamp Conditions

This protocol describes a technique to record synaptic transmission from the neuromuscular junction under current-clamp and voltage-clamp conditions. An ex vivo preparation of the levator auris longus (LAL) is used because it is a thin muscle that provides easy visualization of the neuromuscular junction for microelectrode impalement at the motor endplate. This method allows for the recording of spontaneous miniature endplate potentials and currents (mEPPs and mEPCs), nerve-evoked endplate potentials and currents (EPPs and EPCs), as well as the membrane properties of the motor endplate. Results obtained from this method include the quantal content (QC), number of vesicle release sites (n), probability of vesicle release (prel), synaptic facilitation and depression, as well as the muscle membrane time constant (&#964;m) and input resistance. Application of this technique to mouse models of human disease can highlight key pathologies in disease states and help identify novel treatment strategies. By fully voltage-clamping a single synapse, this method provides one of the most detailed analyses of synaptic transmission currently available.

Levator Auris Longus Preparation for Examination of Mammalian Neuromuscular Transmission Under Voltage Clamp Conditions

The protocol described in this paper uses the mouse levator auris longus (LAL) muscle to record spontaneous and nerve-evoked postsynaptic potentials (current-clamp) and currents (voltage-clamp) at the neuromuscular junction. Use of this technique can provide key insights into mechanisms of synaptic transmission under normal and disease conditions.

This protocol describes a technique to record synaptic transmission from the neuromuscular junction under current-clamp and voltage-clamp conditions. An ...

Dissection of Single Skeletal Muscle Fibers for Immunofluorescent and Morphometric Analyses of Whole-Mount Neuromuscular Junctions

The neuromuscular junction (NMJ) is a specialized point of contact between the motor nerve and the skeletal muscle. This peripheral synapse exhibits high morphological and functional plasticity. In numerous nervous system disorders, NMJ is an early pathological target resulting in neurotransmission failure, weakness, atrophy, and even in muscle fiber death. Due to its relevance, the possibility to quantitatively assess certain aspects of the relationship between NMJ components can help to understand the processes associated with its assembly/disassembly. The first obstacle when working with muscles is to gain the technical expertise to quickly identify and dissect without damaging their fibers. The second challenge is to utilize high-quality detection methods to obtain NMJ images that can be used to perform quantitative analysis. This article presents a step-by-step protocol for dissecting extensor digitorum longus and soleus muscles from rats. It also explains the use of immunofluorescence to visualize pre and postsynaptic elements of whole-mount NMJs. Results obtained demonstrate that this technique can be used to establish the microscopic anatomy of the synapsis and identify subtle changes in the status of some of its components under physiological or pathological conditions.

The ability to accurately detect neuromuscular junction components is crucial in evaluating modifications in its architecture because of pathological or developmental processes. Here we present a complete description of a straightforward method to obtain high-quality images of whole-mount neuromuscular junctions that can be used to perform quantitative measurements.

The neuromuscular junction (NMJ) is a specialized point of contact between the motor nerve and the skeletal muscle. This peripheral synapse exhibits high ...

Expanding the Toolkit for In Vivo Imaging of Axonal Transport

Axonal transport maintains neuronal homeostasis by enabling the bidirectional trafficking of diverse organelles and cargoes. Disruptions in axonal transport have devastating consequences for individual neurons and their networks, and contribute to a plethora of neurological disorders. As many of these conditions involve both cell autonomous and non-autonomous mechanisms, and often display a spectrum of pathology across neuronal subtypes, methods to accurately identify and analyze neuronal subsets are imperative.
This paper details protocols to assess in vivo axonal transport of signaling endosomes and mitochondria in sciatic nerves of anesthetized mice. Stepwise instructions are provided to 1) distinguish motor from sensory neurons in vivo, in situ, and ex vivo by using mice that selectively express fluorescent proteins within cholinergic motor neurons; and 2) separately or concurrently assess in vivo axonal transport of signaling endosomes and mitochondria. These complementary intravital approaches facilitate the simultaneous imaging of different cargoes in distinct peripheral nerve axons to quantitatively monitor axonal transport in health and disease.

Expanding the Toolkit for In Vivo Imaging of Axonal Transport

Using transgenic fluorescent mice, detailed protocols are described to assess in vivo axonal transport of signaling endosomes and mitochondria within motor and sensory axons of the intact sciatic nerve in live animals.

Axonal transport maintains neuronal homeostasis by enabling the bidirectional trafficking of diverse organelles and cargoes. Disruptions in axonal ...

Preparation of Rat Sciatic Nerve for Ex Vivo Neurophysiology

Ex vivo preparations enable the study of many neurophysiological processes in isolation from the rest of the body while preserving local tissue structure. This work describes the preparation of rat sciatic nerves for ex vivo neurophysiology, including buffer preparation, animal procedures, equipment setup and neurophysiological recording. This work provides an overview of the different types of experiments possible with this method. The outlined method aims to provide 6 h of stimulation and recording on extracted peripheral nerve tissue in tightly controlled conditions for optimal consistency in results. Results obtained using this method are A-fibre compound action potentials (CAP) with peak-to-peak amplitudes in the millivolt range over the entire duration of the experiment. CAP amplitudes and shapes are consistent and reliable, making them useful to test and compare new electrodes to existing models, or the effects of interventions on the tissue, such as the use of chemicals, surgical alterations, or neuromodulatory stimulation techniques. Both conventional commercially available cuff electrodes with platinum-iridium contacts and custom-made conductive elastomer electrodes were tested and gave similar results in terms of nerve stimulus strength-duration response.

Preparation of Rat Sciatic Nerve for Ex Vivo Neurophysiology

This protocol describes the preparation of rat whole sciatic nerve tissue for ex vivo electrophysiological stimulation and recording in an environmentally-regulated, two-compartment, perfused saline bath.

Ex vivo preparations enable the study of many neurophysiological processes in isolation from the rest of the body while preserving local tissue structure. ...

Visualizing the Morphological Characteristics of Neuromuscular Junction in Rat Medial Gastrocnemius Muscle

The neuromuscular junction (NMJ) is a complex structure serving for the signal communication from the motor neuron to the skeletal muscle and consists of three essential histological components: the pre-synaptic motor axon terminals, post-synaptic nicotinic acetylcholine receptors (AchRs), and peri-synaptic Schwann cells (PSCs). In order to demonstrate the morphological characteristics of NMJ, the rat medial gastrocnemius muscle was selected as the target-tissue and examined by using multiple fluorescent staining with various kinds of biomarkers, including neurofilament 200 (NF200) and vesicular acetylcholine transporter (VAChT) for the motor nerve fibers and their pre-synaptic terminals, alpha-bungarotoxin (&#945;-BTX) for the post-synaptic nicotinic AchRs, and S100 for the PSCs. In this study, staining was performed in two groups: in the first group, samples were stained with NF200, VAChT, and &#945;-BTX, and in the second group, samples were stained with NF200, &#945;-BTX, and S100. It was shown that both protocols can effectively demonstrate the detailed structure of NMJ. Using the confocal microscope, morphological characteristics of the pre-synaptic terminals, post-synaptic receptors, and PSC were seen, and their Z-stacks images were reconstructed in a three-dimensional pattern to further analyze the spatial correlation among the different labeling. From the perspective of methodology, these protocols provide a valuable reference for investigating the morphological characteristics of NMJ under physiological conditions, which may also be suitable to evaluate the pathological alteration of NMJ, such as peripheral nerve injury and regeneration.

The protocol shows a method to examine spatial correlation among the pre-synaptic terminals, post-synaptic receptors, and peri-synaptic Schwann cells in the rat medial gastrocnemius muscle using fluorescent immunohistochemistry with different biomarkers, namely, neurofilament 200, vesicular acetylcholine transporter, alpha-bungarotoxin, and S100.

The neuromuscular junction (NMJ) is a complex structure serving for the signal communication from the motor neuron to the skeletal muscle and consists of ...