National Natural Science Foundation of China (grant NO. 82101249 to XY Sun), Postdoctoral Research Foundation of China (grant NO. 2022M722125 to XY Sun). Shanghai Sailing Program (grant NO. 21YF1425100 to SH Chen). Special Project for Clinical Research of Shanghai Municipal Health Commission (grant NO. 202340088 to J Zhou). National Natural Science Foundation of China (grant NO. 82101262 to X Zhang, grant NO. 82101287 to SH Chen).

All animal experiments were conducted in compliance with the Animal Research Reporting In Vivo Experiments (ARRIVE) guidelines and the National Institutes of Health Guide for the Care and Use of Laboratory Animals. The present study was approved by the Animal Care and Use Committee of Renji Hospital, Shanghai Jiaotong University School of Medicine. Eight-week-old C57BL/6J male mice were used for the present study. The animals were commercially obtained (see Table of Materials) and housed in standard cages (22 &#176;C &#177; 2 &#176;C, 12 h/12 h light/dark cycle, food, and water ad libitum).
1. Selection of target brain regions
NOTE: This is a sterile procedure. Ensure all surgical instruments are sterilized. Spray the gloves with alcohol prior to contact with surgical instruments. Avoid touching the tip of the instruments or the surgical area with gloves. Ensure the mouse is adequately anesthetized before starting the procedure by checking for the loss of righting reflexes and no response to cutaneous stimulation. Before the drilling and injection, closely monitor the respiratory rate (60-220 breaths per min, average 100-150 breaths per min) and the breathing amplitude (should be consistent and not excessively shallow or deep). Any significant changes in the respiratory rate or amplitude should be noted.
<ol>
	<li>Anesthetize the mouse with an intraperitoneal injection of 1.25% tribromoethanol (250 mg/kg) using a 29 G needle. Shave the hair on the skull once the righting reflex disappears. Secure the mouse in the stereotaxic frame (see Table of Materials) by fixing the upper incisors with a nose clamp and stabilizing the head using two ear bars.</li>
	<li>Apply ophthalmic ointment to prevent eye dryness. Disinfect the scalp by swabbing it three times with Anerdian (disinfectant solution; see Table of Materials). Inject 0.2 mL of 1% lidocaine subcutaneously using a 29 G insulin needle to provide local analgesia.</li>
	<li>Make a 0.5 cm incision using eye scissors to expose the cranium. Utilize a cotton swab dipped with 3% H2O2 to scrub the exposed skull to remove the periosteum. Allow the cranium to dry.</li>
	<li>Affix the drill to the stereotaxic instrument. Adjust the stereotaxic arms&#39; knobs to position the drill tip precisely at the bregma with the help of a magnifier and record the z-axis value using the LCD digital display.
	<ol>
		<li>Adjust the knobs and position the drill tip at the lambda and record the value of the z-axis. Adjust the nose clamp and ear bars to make two z-values closer, and repeat the steps above until the difference between the two z-values is less than 0.1 mm. 
		NOTE: The x, y, and z axes on the LCD digital display correspond to mediolateral (ML), anteroposterior (AP), and dorsoventral (DV), respectively. The bregma and lambda can be considered to be on the same horizontal plane once the difference between the two z-values is less than 0.1 mm.</li>
	</ol>
	</li>
	<li>Ensure the left-right levelness of the brain. Adjust the ear bars attached to the stereotaxic frame with the same scale. Take the laterodorsal tegmental nucleus, ventral part (LDTgV), for example; its stereotaxic coordinates are -5.2 for x, +0.8 for y, -4.0 for z, according to Paxinos and Franklin&#39;s mouse brain atlas16.
	<ol>
		<li>Adjust the ear bar to make the drill at (-5.2, +0.8) to measure the z value in the dorsal-ventral direction and move the drill to (-5.2, -0.8) to measure the z value. 
		NOTE: The left-right is considered to be at the equal level when the difference between the two z-values is less than 0.2 mm. The ear bars need to be inserted into the right place because the external auditory meatus is symmetric. If the difference between the two z-values is more than 0.5 mm, the ear bar may be inserted into the wrong place.</li>
	</ol>
	</li>
	<li>Position the drill to the bregma again and set three coordinates on the LCD digital display to zero. Position the drill above the region of interest using reference coordinates. Start the drill.
	<ol>
		<li>Gradually lower the drill using the vertical arm until it penetrates the cranium. Clear away debris and blood using cotton swabs. 
		NOTE: Be careful not to damage brain tissue.</li>
	</ol>
	</li>
</ol>
2. Preparing dye solution and brain microinjection
<ol>
	<li>Take 25 &#181;L of SDS-PAGE loading buffer containing bromophenol blue (see Table of Materials) into a 200 &#181;L microcentrifuge tube. Add 50 &#181;L of ddH2O to the tube to prepare the dye solution.</li>
	<li>Cover the cranial window with a saline-moistened cotton pad. Ensure microsyringe patency by aspirating and expelling saline repeatedly. Load 0.3 &#181;L of dye into the micro syringe. Attach the syringe and the motorized stereotaxic microinjector to the stereotaxic arm.</li>
	<li>Position the syringe tip at the bregma and set the coordinates to zero on the LCD digital display. Adjust the needle into the region of interest according to reference coordinates. Set the injection speed to 0.1 &#181;L/min and start the motorized microinjector, delivering 0.3 &#181;L of blue dye into the target region. Leave the syringe in position for at least 10 min before slowly withdrawing the injector. 
	NOTE: Different color dyes can be used in the same mice to distinguish closely located regions. Test other dyes for suitable concentrations based on their physical properties. It&#39;s recommended to use the bromophenol blue formula and thoroughly rinse the syringe before and after use to prevent blockages. Adjust injection volumes based on dye diffusion.</li>
</ol>
3. Brain tissue harvest and cryosectioning
<ol>
	<li>Release the mouse from the stereotaxic frame. Anesthetize the mouse with an intraperitoneal injection of 50 mg/kg pentobarbital sodium using a 29 G needle. Secure the mouse on a foam board with tape.</li>
	<li>Open both sides of the thorax to induce rapid suffocation. Make a 1-2 mm incision in the right atrial appendage. Insert an infusion needle into the left ventricle. Infuse 20 mL of pre-cooled saline and 20 mL of iced 4% paraformaldehyde solution.</li>
	<li>Decapitate the mouse with tissue dissecting scissors (following institutionally approved protocols). Remove the skin by making an incision along the midline from the neck to the nose and then expose the skull. Clear off residual muscle on the skull with forceps or scissors.</li>
	<li>Position the tip of one blade of the fine scissors between the foramen magnum and the brain, with the sharp edge facing the bone, at the rostral end of the mid-sagittal suture. Proceed to slide and cut the cranium along the mid-sagittal suture. Employ forceps to remove the skull, revealing the exposed brain. 
	NOTE: Exercise caution to avoid causing any damage to the brain during the operation. Before removing the bone chips, carefully peel off any meninges that may be attached to the skull. This precaution is crucial to prevent inadvertent slicing of the brain tissue during the process.</li>
	<li>Turn on the power of the rotary microtome cryostat (see Table of Materials) and set the chamber temperature to -20 &#176;C. Pour a little OCT compound to cover the surface of the specimen disc evenly. Place it into the cryo-chamber and allow the OCT to solidify.</li>
	<li>Attach the disc to the specimen head. Bring the blade closer to the block and trim the OCT block to make a flat plane that is parallel to the disc.</li>
	<li>Cut the brain in a coronal direction away from the injection site in a brain slice mold by a shaving blade. Place the brain tissue containing the injection site with the cut side down on the OCT flat plane.
	<ol>
		<li>Pour OCT onto the brain and put the disc into the cryo-chamber, allowing the specimen block to solidify. Pour OCT repeatedly onto the brain until the brain is fully embedded with OCT. 
		NOTE: Add the OCT compound layer by layer. Once the previous layer of OCT is frozen, pour the subsequent layer of OCT compound onto the brain.</li>
	</ol>
	</li>
	<li>Trim the specimen block until the target region is approaching. Make several sections from the injection site level. Collect the coronal brain slices into a 6-well plate containing room-temperature PBS using a small writing brush kept at -20 &#176;C. 
	NOTE: Set the cutting thickness to a larger one to trim the block, and then set the cutting thickness to 40 &#181;m as the blade approaches the injection site. If neural circuit tracers are used, the mice are not sacrificed immediately. Place the mouse in a sterile, postoperative recovery cage over a heating blanket for recovery from anesthesia. Return the mice to the original cage or a new cage once awake.</li>
</ol>
4. Imaging
<ol>
	<li>Wash the OCT with room temperature PBS. Use a brush to pick up brain sections and place them on a slide. Allow sections to air dry at room temperature.</li>
	<li>Observe the injected region visually or use a microscope when the target nuclei are minuscule. Compare the location of the injected dye with the corresponding region in the brain atlas. 
	NOTE: Adjust the values of the x, y, and z axes according to the direction and distance of the injection point deviation. It may be necessary to repeat all steps in this protocol multiple times to determine the coordinates accurately.</li>
</ol>

Optimizing Stereotaxic Microinjection Accuracy in Mice

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T., 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=Anterior+hypothalamic+parvalbumin+neurons+are+glutamatergic+and+promote+escape+behavior.">Anterior hypothalamic parvalbumin neurons are glutamatergic and promote escape behavior.</a> Curr Biol. 33 (15), 3215-3228 (2023).</li><li>Perens, J., 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=Multimodal+3D+mouse+brain+atlas+framework+with+the+skull-derived+coordinate+system.">Multimodal 3D mouse brain atlas framework with the skull-derived coordinate system.</a> Neuroinformatics. 21 (2), 269-286 (2023).</li><li>Adhikari, 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=Basomedial+amygdala+mediates+top-down+control+of+anxiety+and+fear.">Basomedial amygdala mediates top-down control of anxiety and fear.</a> Nature. 527 (7577), 179-185 (2015).</li><li>Tao, Y., 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=Projections+from+infralimbic+cortex+to+paraventricular+thalamus+mediate+fear+extinction+retrieval.">Projections from infralimbic cortex to paraventricular thalamus mediate fear extinction retrieval.</a> Neurosci Bull. 37 (2), 229-241 (2021).</li><li>Haggerty, D. L., Grecco, G. G., Reeves, K. C., Atwood, B. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Adeno-associated+viral+vectors+in+neuroscience+research.">Adeno-associated viral vectors in neuroscience research.</a> Mol Ther Methods Clin Dev. 17, 69-82 (2020).</li><li>Ansarifar, S., 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=Impact+of+volume+and+expression+time+in+an+aav-delivered+channelrhodopsin.">Impact of volume and expression time in an aav-delivered channelrhodopsin.</a> Mol Brain. 16 (1), 77 (2023).</li><li>Gonzalez, T. 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The authors declare no competing interests.

This article has described a stable strategy to verify the accuracy of stereotaxic brain injections5,6more quickly and simply before viral tracing, but the irreplaceable aspect of reporter gene expression in the brain region is crucial for brain region labeling. The blue dye we used allowed for the immediate visualization of the injection site.
Several critical steps in this protocol contribute to improving the accuracy of the injectio...

Nearly all modern neuromodulation tools, including in vivo calcium recording, optogenetic, and chemogenetic tools, require the use of stereotaxic coordinates to target the brain area of interest1,2,3, forming the foundation of neural manipulation. Stereotaxic coordinates for mouse brain regions are defined in relation to bregma and lambda, the bony landmarks on the cranium, forming the so-called skull-derived stereotaxic coordinate system. Either bregma or lambda can serve as the zero point of the three-dimensional coordinates. The three axes are anteroposterior (AP), mediolateral (ML), and dorsoventral (DV), representing the y, x, and z axes on the digital display of stereotaxic instruments. For well-known brain regions, the stereotaxic coordinate parameters of a specific area can be obtained from mouse brain atlases4 (e.g., Paxinos and Franklin&#39;s mouse brain in stereotaxic coordinates) and/or the published literature5,6. However, further validation is necessary due to variations in stereotaxic equipment and the age/populations of mice used by different researchers.
Structure is the basis of function. Neural circuits form the foundation for many brain functions, such as cognitive activities, emotion, memory, sensory, and motor functions1. Labeling the structure and manipulating the activity of neural circuits are vital for understanding the function of a specific neural circuit. Over the past decades, neural tracers have evolved through many generations; early research adopted wheat germ agglutinin (WGA) and phaseolus vulgaris agglutinin (PHA) as anterograde tracers, and fluorogold (FG), cholera toxin subunit B (CTB), carbocyanine as retrograde tracers. However, unlike viral tracers, these traditional neural tracers cannot integrate exogenous genes into the host, nor do they have cell type selectivity. Nowadays, the viral strategy has become an important proposition during basic neuroscience research. For different research purposes, various viral tools can be selected7,8. There are non-transsynaptic viruses, trans-multisynaptic viruses (retrograde and anterograde), and trans-monosynaptic viruses (retrograde and anterograde). Each category contains several types with respective characteristics.
The process of viral administration and expression is highly time- and resource-intensive, often taking weeks or even longer. Among various viral vectors, adeno-associated virus has been identified as a promising means for gene delivery, providing a wide window ranging from 3 to 8 weeks post-injection for the experimental procedure7,8. As AAV evolves, analysis can be performed 2-3 weeks after administration9,10. Other neural circuit tracers, such as pseudorabies virus (PRV) and rabies virus (RV), also require a tracing period of at least 2-7 days11,12,13,14,15. Thus, a preliminary verification of the injection site before observing fluorescence signals is both time- and cost-effective.
To facilitate a simple and rapid verification of stereotaxic injections, in this study, a dye is administered before viral vectors, and cryosectioning enables researchers to observe the injection site and track it within 30 min post-injection.

<table border="1" fo:keep-together.within-page="1" fo:keep-with-next.within-page="always">
	<tbody>
		<tr>
			<td>1.0 &#181;L, Neuros Syringe, Model 7001 KH, 32 G, Point Style 3</td>
			<td>Hamilton</td>
			<td>65458-01</td>
			<td></td>
		</tr>
		<tr>
			<td>200 &#956;L pipette tips</td>
			<td>biosharp</td>
			<td>BS-200-T</td>
			<td></td>
		</tr>
		<tr>
			<td>20 mL syringe</td>
			<td>Kindly group</td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>3%H2O2 solution</td>
			<td>Lircon Company</td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>6-well plate</td>
			<td>Shengyou Biotech</td>
			<td>20006</td>
			<td></td>
		</tr>
		<tr>
			<td>Anerdian</td>
			<td>Likang High-tech</td>
			<td>31001002</td>
			<td></td>
		</tr>
		<tr>
			<td>Anti roll plate</td>
			<td>Leica</td>
			<td>14047742497</td>
			<td></td>
		</tr>
		<tr>
			<td>BD insulin syringe</td>
			<td>Becton,Dickinson and Company</td>
			<td>328421</td>
			<td></td>
		</tr>
		<tr>
			<td>Bend toothed dissecting forceps</td>
			<td>Jinzhong</td>
			<td>JD1050</td>
			<td></td>
		</tr>
		<tr>
			<td>Cellsens dimension software</td>
			<td>Olympus</td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>Cotton swab</td>
			<td>Fisher Scientific</td>
			<td>23-400-122</td>
			<td></td>
		</tr>
		<tr>
			<td>Dapi-Fluoromount-G</td>
			<td>Southernbiotech</td>
			<td>0100-20</td>
			<td></td>
		</tr>
		<tr>
			<td>Drill</td>
			<td>Longxiang</td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>Fine brushes</td>
			<td>HWAHONG</td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>Fine scissors</td>
			<td>Jinzhong</td>
			<td>y00030</td>
			<td></td>
		</tr>
		<tr>
			<td>Fluorescent microscopy</td>
			<td>Olympus</td>
			<td>BX63</td>
			<td></td>
		</tr>
		<tr>
			<td>freezing microtome</td>
			<td>Leica</td>
			<td>CM1950</td>
			<td></td>
		</tr>
		<tr>
			<td>Hemostatic forceps straight with tooth</td>
			<td>Jinzhong</td>
			<td>J31010</td>
			<td></td>
		</tr>
		<tr>
			<td>Infusion needle 0.7 mm</td>
			<td>Kindly group</td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>Lidocaine hydrochloride injection</td>
			<td>Harvest Pharmaceutical Company</td>
			<td>71230803</td>
			<td></td>
		</tr>
		<tr>
			<td>Magnifying glass</td>
			<td>M&#38;G Chenguang Stationery</td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>Male C57/BL mice</td>
			<td>The Shanghai Institute of Planned Parenthood Research&#8211;BK Laboratory</td>
			<td></td>
			<td></td>
		</tr>
		<tr>
			<td>Mice coronal brain slice mold</td>
			<td>RWD Life Science</td>
			<td>68713</td>
			<td></td>
		</tr>
		<tr>
			<td>Microcentrifuge tube</td>
			<td>biosharp</td>
			<td>BS-02-P</td>
			<td></td>
		</tr>
		<tr>
			<td>Microtome blades</td>
			<td>Leica</td>
			<td>819</td>
			<td></td>
		</tr>
		<tr>
			<td>Ophthalmic ointment</td>
			<td>Cisen Pharmaceutical Company</td>
			<td>G23HDM9M4S5</td>
			<td></td>
		</tr>
		<tr>
			<td>paraformaldehyde</td>
			<td>Biosharp</td>
			<td>BL539A</td>
			<td></td>
		</tr>
		<tr>
			<td>Peristaltic pumps</td>
			<td>Harvard Apparatus</td>
			<td>70-4507</td>
			<td></td>
		</tr>
		<tr>
			<td>Phosphate buffered saline</td>
			<td>Servicebio</td>
			<td>G4202</td>
			<td></td>
		</tr>
		<tr>
			<td>Piette 2-200 &#956;L</td>
			<td>thermofisher</td>
			<td>4642080</td>
			<td></td>
		</tr>
		<tr>
			<td>SDS-PAGE sample loading containing bromophenol blue</td>
			<td>Beyotime</td>
			<td>P0015A</td>
			<td></td>
		</tr>
		<tr>
			<td>Shaving blades</td>
			<td>BFYING</td>
			<td>91560618</td>
			<td></td>
		</tr>
		<tr>
			<td>Slides</td>
			<td>Citotest Scientific</td>
			<td>188105</td>
			<td></td>
		</tr>
		<tr>
			<td>Stereotaxic apparatus</td>
			<td>RWD Life Science</td>
			<td>68807</td>
			<td></td>
		</tr>
		<tr>
			<td>Straight toothed dissecting forceps</td>
			<td>Jinzhong</td>
			<td>JD1060</td>
			<td></td>
		</tr>
		<tr>
			<td>Syringe Holder</td>
			<td>RWD Life Science</td>
			<td>68206</td>
			<td></td>
		</tr>
		<tr>
			<td>Tissue scissors</td>
			<td>Jinzhong</td>
			<td>J21040</td>
			<td></td>
		</tr>
		<tr>
			<td>Tissue-Tek O.C.T compound</td>
			<td>Sakura</td>
			<td>4583</td>
			<td></td>
		</tr>
		<tr>
			<td>Tribromoethanol</td>
			<td>Aibei Biotechnology</td>
			<td>M2910</td>
			<td></td>
		</tr>
	</tbody>
</table>

preliminary validation of stereotaxic injection coordinates via cryosectioning

Stereotaxic injection of a specific brain region constitutes a fundamental experimental technique in basic neuroscience. Researchers commonly base their choice of stereotaxic injection parameters on mouse brain atlases or published materials that employed various populations/ages of mice and different stereotaxic equipment, necessitating further validation of the stereotaxic coordinate parameters. The efficacy of calcium imaging, chemogenetic, and optogenetic manipulations relies on the precise expression of reporter genes within the region of interest, often requiring several weeks of effort. Thus, it is a time-consuming task if the coordinates of the target brain region are not verified in advance. Using an appropriate dye instead of a virus and implementing cryosectioning, researchers can observe the injection site immediately following dye administration. This facilitates timely adjustments to coordinate parameters in cases where discrepancies exist between the actual injection site and the theoretical position. Such adjustments significantly enhance the accuracy of viral expression within the target region in subsequent experiments.

Author Spotlight: Accelerating Cognitive Impairment Research in Mice Through Stereotaxic Injection and Cost-Effective Dyes

Preliminary Validation of Stereotaxic Injection Coordinates via Cryosectioning

Our research primarily focus on investigating the neural circuits mechanism underlying cognitive impairment in mice. And we frequently employ brain stereotaxic techniques in these studies. Our objective is to optimize and accelerate the verification process for stereotaxic injection sites using dyes, ensuring that it becomes a simple and rapid procedure.Various strategies have become crucial in neuroscience research through stereotaxic injection of virus. This is followed by observation of fluorescent markers in tissue slice to confirm the injection sites, a process that takes several weeks to complete. Our protocol offers advantages over other techniques by saving at least three days of dehydration time and using a cost-effective dye for quicker identification of injection sites.It may save weeks compared with no preliminary verification.

This study successfully identified the injection site within 30 min using the demonstrated method. Initially, an SDS-PAGE sample loading solution containing bromophenol blue was injected into the LDTgV in the C57/BL mice. Figure 1A shows a schematic representation of the dye solution injection. The distribution of the blue dye in the LDTgV is illustrated in Figure 1B.
Bromophenol blue was also injected into the mPFC prelimbic cortex, ...

The present protocol describes a practical strategy to expedite the verification step of stereotaxic injection coordinates before conducting viral tracing using dyes and frozen sections.

Stereotaxic injection of a specific brain region constitutes a fundamental experimental technique in basic neuroscience. Researchers commonly base their ...

preliminary-validation-stereotaxic-injection-coordinates-via

Research

JoVE Journal

Neuroscience

Targeted Brain Region Microinjection of Bromophenol Dye in Mice

Brain Tissue Harvesting, Cryosectioning, and Imaging Post Stereotaxic Surgery in Mice

833 Views.  Shanghai Jiaotong University, School of Medicine.  The present protocol describes a practical strategy to expedite the verification step of stereotaxic injection coordinates before conducting viral tracing using dyes and frozen sections.

Optimizing Stereotaxic Microinjection Accuracy in Mice

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