We thank Emilie Menant for fish care, the Polytechnique Bioimaging Facility, in particular Pierre Mahou,&#160;for assistance with live imaging on their equipment partly supported by R&#233;gion Ile-de-France (interDIM) and Agence Nationale de la Recherche (ANR-11-EQPX-0029 Morphoscope2, ANR-10-INBS-04 France BioImaging). This work was supported by the ANR grants 15-CE13-0016-1, 18-CE13-0024, 20-CE13-0016, and the European Union&#39;s Horizon 2020 research and innovation programme under the Marie Sk&#322;odowska-Curie grant agreement No 840201, the Minist&#232;re de l&#39;Enseignement Sup&#233;rieur et de la Recherche and the Centre National de la Recherche Scientifique.

All animal work was approved by the Ethical Committee N 59 and the Minist&#232;re de l&#39;Education Nationale, de l&#39;Enseignement Sup&#233;rieur et de la Recherche under the file number APAFIS#15859-2018051710341011v3. Some of the steps described below are specific to our equipment and software but could be easily adapted to different equipment.
1. Injection preparation
<ol>
	<li>Prepare 75 mL of 1% agarose solution in Embryo Medium (EM).</li>
	<li>Place the injecting mold in a 90 mm Petri dish and pour approximately 50 mL of agarose, enough for the mold to float. Let the agarose solidify and remove the injecting mold.</li>
	<li>Prepare an agarose-coated dish by pouring 1 mL of agarose in a 30 mm Petri dish.</li>
	<li>Prepare 4 &#181;L of 30 ng/&#181;L Histone2B-mCherry mRNA solution by diluting the stock solution in RNase-free water and keep on ice. 
	&#8203;NOTE: Take care to wear gloves while manipulating mRNA to avoid RNase-mediated degradation.</li>
	<li>Pull an injection needle from a capillary using the micropipette puller.</li>
</ol>
2. Embryo preparation
<ol>
	<li>Once fishes have laid eggs, collect, rinse, and harvest in a 90 mm Petri dish in EM. Place the embryos in a 28.5 &#176;C incubator.</li>
	<li>Wait 20 min for the first cell to become visible.</li>
	<li>Transfer 30 embryos to the injection plate filled with EM. Squeeze embryos in the grooves using slightly blunt forceps and orient them with the animal pole up.</li>
	<li>Using a microloader tip, fill an injection needle with 2 &#181;L of mRNA solution. Insert the needle in the capillary holder placed in a micro-manipulator connected with polytetrafluoroethylene (PTFE) tubing to an air injector.</li>
	<li>Under the stereomicroscope, carefully break the tip of the needle.</li>
	<li>Inject the mRNA solution in the 1-cell stage embryos by inserting the needle in the cell. 
	NOTE: The volume injected is approximately one-third of the cell volume.</li>
	<li>Place back injected embryos in the 28.5 &#176;C incubator.</li>
</ol>
3. Preparation of the two-photon microscope
NOTE: Two lasers are used in this protocol. One is used to image GFP (at 920 nm) and perform ablations (at 820 nm). It will be referred to as the green/ablation laser. The other is used at 1160 nm to image mCherry. It will be referred to as the red laser.
<ol>
	<li>Set the green/ablation laser to 820 nm (ablation wavelength) and the red laser to 1160 nm (mCherry excitation).</li>
	<li>Using movable mirrors on the optical path, align green/ablation and red laser beams both at the entry and exit of the scan head. 
	NOTE: This increases the laser beam focus and minimizes focal volume for excitation and ablation.</li>
	<li>Measure the maximum power of the green/ablation laser at 820 nm under the objective. To do so, place the power meter under the objective, close the black chamber, set green/ablation laser power to 100%, and open the shutters. Compute the percentage of laser power needed to reach 300 mW.</li>
	<li>Set back the green/ablation laser to 920 nm (GFP excitation) and set the laser power to 7%. Set the red laser power to 15%.</li>
	<li>Activate epi-PhotoMultiplier Tubes (PMT) detectors for green and red lines; set green and red line PMT sensitivity to 65.</li>
	<li>Set the field of view to 400 x 400 &#181;m, image resolution to 512 x 512 pixels, and scanning frequency to 800 Hz.</li>
	<li>Select 3D Timelapse Imaging mode. Then, create a folder and activate Autosave for data after each acquisition.</li>
	<li>Assemble the heating chamber and set it to 28 &#176;C. Wait at least 10 min for the chamber and the objective to warm.</li>
</ol>
4. Mounting the embryo
<ol>
	<li>Under a fluorescence stereomicroscope, identify embryos at 70% epiboly that express GFP. 
	NOTE: Select embryos with a bright signal in the axial mesoderm and no background fluorescence for better imaging quality.</li>
	<li>Transfer three to four selected embryos in the agarose coated dish (step 1.3) using a plastic Pasteur pipette and carefully dechorionate them using fine forceps. 
	NOTE: Dechorionated embryos are very delicate and will burst upon contact with air or plastic.</li>
	<li>Pour 1 mL of 0.2% agarose in 1x penicillin-streptomycin EM in a small glass vial. Place the vial in a preheated 42 &#176;C dry block heater. 
	NOTE: The following steps must be performed quickly to allow embryo orientation before agarose sets.</li>
	<li>Transfer a dechorionated embryo in the 0.2% agarose glass vial using a fire-polished glass pipette. Take care not to add too much EM in the agarose to avoid diluting it. Discard the remaining EM from the pipette and aspirate the embryo back along with enough agarose to cover the slide of the glass bottom dish before the embryo falls out of the pipette.</li>
	<li>Blow the agarose and the embryo on the glass slide of the dish. Take care not to let the embryo touch the air or the plastic side of the dish. Next, fill the chamber around the glass slide with agarose.</li>
	<li>Use an eyelash to orient the embryo so that the targeted region is at the top (Figure 1B). 
	NOTE: When orienting embryos, take care to only touch the blastoderm, not the very fragile yolk. Agarose will set in around 1 min, depending on room temperature.</li>
	<li>Wait ~5 min for the agarose to set completely, and then add a few drops of penicillin-streptomycin EM.</li>
</ol>
5. Locating the embryo and pre-ablation imaging
<ol>
	<li>Place the glass bottom dish under the objective in the heated chamber. Immerse the objective in penicillin-streptomycin EM and close the heated chamber.</li>
	<li>Move the slider to set the light path to oculars. Then, using oculars, fluorescent lamps, and stage control, find an embryo and set the focus to the surface of the embryo.</li>
	<li>Turn the fluorescence lamp off, set the light path to PMTs, and close the black chamber. 
	NOTE: Be careful to turn off all light sources in the black chamber as it might damage the PMTs.</li>
	<li>Start live imaging and locate axial mesoderm. Adjust the green/ablation and red laser powers to have a good signal (i.e., between 1,000 and 20,000 photons per pixel for GFP expressing areas). Use the red channel to move the stage to the very top of the embryo and set this position as Z = 0.</li>
	<li>Choose a time-step of 1 min and a Z-step of 2 &#181;m. A Z-course of 110 &#181;m is sufficient to encompass the whole polster and is acquired in less than 1 min with these settings. Set the first slice 15 &#181;m above the axial mesoderm (in the more superficial ectoderm). 
	&#8203;NOTE: The polster moves along a curved line so that the bottom slice of the Z-stack should be set 30 &#181;m deeper than the polster deepest position to accommodate its movement during the time-lapse imaging (Figure 1E).</li>
	<li>Record 10-15 min of pre-ablation movie.</li>
</ol>
<img alt="Figure 1" class="xfigimg" src="/files/ftp_upload/62815/62815fig01.jpg" /> 
Figure 1: Successful outcome of laser ablations. (A) Scheme of a gastrulating embryo at 70% epiboly in dorsal view; pAM: posterior axial mesoderm; black arrow marks the direction of polster migration; black square indicates a typical field of view for ablations in the polster. (B) Scheme of embryo mounting for polster severing. Lateral view. The embryo is mounted such that the plane of the polster is perpendicular to the optical axis. (C) survival and (D)&#160;morphology&#160;of control and ablated embryos at 24 h post-fertilization. Scale bar is 300 &#181;m. (E) Time sequence from laser ablation in the polster of a Tg(gsc:GFP) embryo expressing Histone2B-mCherry. Views with the green channel only are maximum projections. The close-up displays the ablated area containing cell debris. Views with green and red (displayed as magenta) channels are XY and XZ slices before and after ablation (the green lightning bolt represents ablation). XZ slices show that the overlying tissues (magenta nuclei without GFP expression) have not been affected by the ablation of underlying structures. The yellow dashed box corresponds to the ROI selected for laser ablation treatment. The scale bar is 50 &#181;m in large views and 25 &#181;m in the close-up. <a href="https://www.jove.com/files/ftp_upload/62815/62815fig01large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
6. Target location and laser ablation
<ol>
	<li>Locate the polster contour on live imaging and, using the Electro-Optic Modulator Region of Interest (EOM ROI) tool, draw a 20 pixel (15 &#181;m) large rectangle that spans the width of the polster. Place this rectangle in the middle of the polster (Figure 1E).</li>
	<li>Note the axial position of the highest and lowest planes containing polster cells. Ablations will be performed every 10 &#181;m in between these two planes. Take care that the ROI does not overlap the yolk cell on any of these planes.</li>
	<li>Place the stage at the lowest Z position of the interval. Ablations must be performed bottom-up as debris absorb light.</li>
	<li>Set the green/ablation laser wavelength to 820 nm and set the Power Percentage to obtain an exit power of 300 mW (step 3.3).</li>
	<li>Set the Imaging Frequency to 200 Hz.</li>
	<li>Set green/ablation laser imaging EOM to 0 and select ROI-Treat mode.</li>
	<li>Turn on the EOM and set the treatment to start immediately (after 0 frame).</li>
	<li>Set the Imaging Mode to Timelapse and de-activate Autosave.</li>
	<li>Set the Time Step to Fast mode.</li>
	<li>Set the Number of Treatment Frames and Number of Frames to the value corresponding to the targeted depth (Table 1).</li>
</ol>
<table border="1" fo:keep-together.within-page="1" fo:keep-with-next.within-page="always">
	<tbody>
		<tr>
			<td>Depth (&#181;m)</td>
			<td>Treatment frames</td>
		</tr>
		<tr>
			<td>-30</td>
			<td>1</td>
		</tr>
		<tr>
			<td>-35</td>
			<td>1-2</td>
		</tr>
		<tr>
			<td>-40</td>
			<td>1-2</td>
		</tr>
		<tr>
			<td>-45</td>
			<td>2</td>
		</tr>
		<tr>
			<td>-50</td>
			<td>2-3</td>
		</tr>
		<tr>
			<td>-55</td>
			<td>3</td>
		</tr>
		<tr>
			<td>-60</td>
			<td>3-4</td>
		</tr>
		<tr>
			<td>-65</td>
			<td>4</td>
		</tr>
		<tr>
			<td>-70</td>
			<td>4</td>
		</tr>
		<tr>
			<td>-75</td>
			<td>4-5</td>
		</tr>
		<tr>
			<td>-80</td>
			<td>4-5</td>
		</tr>
		<tr>
			<td>-85</td>
			<td>5</td>
		</tr>
		<tr>
			<td>-90</td>
			<td>5</td>
		</tr>
		<tr>
			<td>-95</td>
			<td>5-6</td>
		</tr>
		<tr>
			<td>-100</td>
			<td>6</td>
		</tr>
		<tr>
			<td>-105</td>
			<td>6</td>
		</tr>
	</tbody>
</table>
Table 1: Suggested number of laser treatment frames as a function of targeted cell depth in the embryo (0 being the embryo&#39;s surface).
<ol start="11">
	<li>Start imaging. The acquisition is black as the shutter to PMT closes during EOM treatment.</li>
	<li>Move up the stage to the next Z position of the list (step 6.2).</li>
	<li>Repeat steps 6.10 to 6.12 until the top of the polster is reached.</li>
</ol>
7. Post-ablation verification and imaging
<ol>
	<li>Set the green/ablation laser to 920 nm and 5% power. Set the green/ablation laser imaging EOM to 100 and select the Fullfield mode.</li>
	<li>Set the Imaging Frequency to 800 Hz. Turn EOM off.</li>
	<li>Go through the whole stack in live mode to check whether every plane has been ablated. If this is not the case, go back to step 6.2. 
	NOTE: Ablation sometimes induces a vertical shift of neighboring tissues so that the Z-stack might have to be redefined.</li>
	<li>Set the Imaging Mode to 3D Timelapse and re-activate Autosave. Record 40-60 min of post-ablation movie.</li>
	<li>Check, in the post-ablation movie, whether the targeted cells were effectively ablated. Fluorescence recovery, or targeted cells occupying space and preventing follower cells from moving through, indicate that targeted cells were only photobleached and not ablated (Figure 1E and Figure 2A).</li>
</ol>
<img alt="Figure 2" class="xfigimg" src="/files/ftp_upload/62815/62815fig02.jpg" /> 
Figure 2: Negative results of laser ablations. (A) Typical examples of potential failures in laser ablation. Large XY views are maximum projections, XZ view is a reconstructed section. Laser treated area is located between the two white arrowheads. Three focal planes are highlighted in the reconstructed section and displayed on the right. They correspond to three different kinds of failures. Plane 1 shows that cells above the polster have been ablated. This can be identified by the presence of autofluorescent debris on this focal plane (see close-up) above the polster (see position of plane 1 on the reconstructed section). This likely results from an incorrect definition of the region to be ablated. Plane 2 shows cells that have been bleached but not ablated. They can be identified as the low fluorescence signal still reveals intact cell contours (see close-up). Plane 3 displays intact cells, which have hardly been bleached by laser treatment. This could result from an incorrect definition of the region to be ablated or from poor treatment. In the situations depicted in planes 2 and 3, it is possible to re-apply the ablation treatment&#160;to the non-ablated&#160;targeted cells. The scale bar is 50 &#181;m in large views and 20 &#181;m in close-ups. (B) A typical example of bubbles (marked by white asterisks) formed by cavitation because of a too intense laser treatment. Such bubbles are not limited to a Z-plane, sometimes even spanning the full height of the polster, deforming neighboring tissues. The scale bar is 50 &#181;m. <a href="https://www.jove.com/files/ftp_upload/62815/62815fig02large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
8. Data analysis
<ol>
	<li>Open time-lapse series with the image analysis software and set correct pixel size.</li>
	<li>In the Spot function, set the Object Size to 10 &#181;m, as this is the average nucleus size during gastrulation. Then, run the Spot function to detect and track the nuclei. 
	NOTE: Detection may be slightly improved by considering the lower axial resolution, fitting a 12 &#181;m long ellipsoidal shape along the Z-axis.</li>
	<li>Use filters to remove false positives. In the Tg(Gsc:GFP) line, cells from the embryonic axis and some endodermal cells are labeled in green. Hence, filtering on green intensity allows a quick selection of these cells (Figure 3A).</li>
	<li>Set the maximal distance between consecutive points to a value compatible with the speed of the cells. 
	NOTE: Be careful to consider the time interval between two frames. Polster cells migrate at 2.8 &#177; 0.8 &#181;m/min. Hence, allowing 4 &#181;m of maximum displacement for a time step of 1 min removes most artefactual tracks.</li>
	<li>Allowing gaps over one or two time points provides longer continuous tracks but may introduce tracking errors. If a nucleus is not detected correctly at a one-time point, consider re-running spot detection with different parameters/filters.</li>
	<li>Visually check tracks and, if necessary, correct them.</li>
	<li>Export the results as a .xlsx file. Process the file using published spreadsheet routines24 (Figure 3B) and custom routines on data analysis software (available on request).</li>
</ol>
<img alt="Figure 3" class="xfigimg" src="/files/ftp_upload/62815/62815fig03.jpg" /> 
Figure 3: Isolation of the anterior half of the polster affects cell directionality. (A) 3D reconstructions a Tg(gsc:GFP) embryo expressing Histone2B-mCherry (displayed in magenta), before and after a laser ablation severing the polster in its middle. Nuclei belonging to the anterior half of the polster are marked with a magenta dot and tracked over time before and after ablation (see Movie S1). The scale bar is 50 &#181;m. (B) As a measure of migration persistence, direction auto-correlation of cells belonging to the anterior part of the polster before and after ablation. Cells display a continuous motion before ablation, which drastically decreases after ablation, indicating loss of collective-oriented migration. Direction auto-correlation was also measured on cells forming the anterior half of the polster of a non-ablated embryo, as a control. The graph envelopes indicate standard error. <a href="https://www.jove.com/files/ftp_upload/62815/62815fig03large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>

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A., Fielding, T., Houart, C. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Dkk1+controls+cell-cell+interaction+through+regulation+of+non-nuclear+&#946;-Catenin+pools.">Dkk1 controls cell-cell interaction through regulation of non-nuclear &#946;-Catenin pools.</a> Developmental Cell. 51 (6), 775-786 (2019).</li><li>Gorelik, R., Gautreau, A. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Quantitative+and+unbiased+analysis+of+directional+persistence+in+cell+migration.">Quantitative and unbiased analysis of directional persistence in cell migration.</a> Nature Protocols. 9 (8), 1931-1943 (2014).</li><li>Grill, S. W., Howard, J., Sch&#228;ffer, E., Stelzer, E. H. K., Hyman, A. A. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=The+distribution+of+active+force+generators+controls+mitotic+spindle+position.">The distribution of active force generators controls mitotic spindle position.</a> Science. 301 (5632), 518-521 (2003).</li><li>Desprat, N., Supatto, W., Pouille, P. -. A. A., Beaurepaire, E., Farge, E. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Tissue+deformation+modulates+twist+expression+to+determine+anterior+midgut+differentiation+in+Drosophila+embryos.">Tissue deformation modulates twist expression to determine anterior midgut differentiation in Drosophila embryos.</a> Developmental Cell. 15 (3), 470-477 (2008).</li><li>Farhadifar, R., R&#246;per, J. -. C., Aigouy, B., Eaton, S., J&#252;licher, F. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=The+influence+of+cell+mechanics,+cell-cell+interactions,+and+proliferation+on+epithelial+packing.">The influence of cell mechanics, cell-cell interactions, and proliferation on epithelial packing.</a> Current Biology. 17 (24), 2095-2104 (2007).</li><li>Willier, B. H., Oppenheimer, J. M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=.">.</a> Foundations of Experimental Embryology. , (1964).</li><li>Ashby, W. J., Zijlstra, A. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Established+and+novel+methods+of+interrogating+two-dimensional+cell+migration.">Established and novel methods of interrogating two-dimensional cell migration.</a> Integrative Biology: Quantitative Biosciences from Nano to Macro. 4 (11), 1338-1350 (2012).</li><li>Bosze, B., 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=Pcdh18a+regulates+endocytosis+of+E-cadherin+during+axial+mesoderm+development+in+zebrafish.">Pcdh18a regulates endocytosis of E-cadherin during axial mesoderm development in zebrafish.</a> Histochemistry and Cell Biology. 154 (5), 463-480 (2020).</li></ol>

The authors declare no competing interests.

Here, we describe a protocol that uses non-linear optics to perform deep and spatially well-defined volume ablations. The most critical step of the protocol is to find treatment conditions that provide sufficient energy to allow ablations, but not too much energy, to avoid excessive debris or cavitation. The amount of delivered energy at the target site mainly depends on: (1) the laser exit power, (2) the quality of laser alignment, (3) the nature of the tissue through which the light passes to reach the ablation plane, ...

Cell-cell interactions play vital roles in development. Cells provide signals that their direct neighbors, or cells further away, can perceive, thereby influencing their fate and/or behavior. Many of these signals are chemical in nature. For instance, in the well-characterized induction events, one cell group produces diffusible molecules affecting the fate of another cell population1. Other signals, however, are mechanical; cells exert forces and constraints on their neighbors, which the neighbors perceive and respond to2.
One way of studying the importance of these cell-cell interactions in vivo is to eliminate some cells and observe subsequent development. Unfortunately, available techniques to remove or destroy cells are limited. Cells can be removed surgically3,4, using needles or small wires, but such treatments are invasive, not very precise, and usually performed under a stereomicroscope, preventing immediate imaging under a microscope. Furthermore, targeting deep cells implies piercing a hole in overlying tissues, creating unwanted perturbations. Genetically encoded photosensitizers, such as KillerRed, have been used to induce cell death via light illumination5. Photosensitizers are chromophores that generate reactive oxygen species upon light irradiation. Their main limitation is that they require long light illuminations (around 15 min), which may be difficult to achieve if cells are moving, and that they induce cell death through apoptosis, which is not immediate.
Finally, laser ablations have been developed and widely used in the past 15 years6,7,8,9,10,11,12. A laser beam is focused on the targeted cell/tissue. It induces its ablation through heating, photoablation, or plasma-induced ablation; the involved process depends on the power density and exposure time13. Most ablation protocols use UV lasers for their high energy. However, UV light is both absorbed and scattered by biological tissues. Thus, targeting deep cells requires a high laser power, which then induces damages in more superficial, out-of-plane tissues. This limits the use of UV lasers to superficial structures and explains their relatively low axial resolution. Non-linear optics (so-called two-photon microscopy) uses non-linear properties of light to excite a fluorophore with two photons of approximately half-energy in the infrared domain. When applied to ablations, this has three main advantages. First, the infrared light is less scattered and less absorbed than UV light by biological tissues14, allowing to reach deeper structures without increasing the required laser power. Second, the use of a femtosecond pulsed laser provides very high power densities, creating an ablation through plasma induction, which, contrary to heating, does not diffuse spatially15. Third, the power density inducing plasma formation is reached at the focal point only. Thanks to these properties, two-photon laser ablations can be used to precisely target deep cells without affecting the surrounding tissue environment.
Collective migrations are an excellent example of developmental processes in which cell-cell interactions are fundamental. Collective migrations are defined as cell migrations in which neighboring cells&#160;influence the behavior of one cell16. The nature of these interactions (chemical or mechanical) and how they affect cell migration can vary greatly and is often not entirely understood. The ability to remove cells and observe how this affects the others is critical in further unraveling these collective processes. A few years ago, we established &#8212; using surgical approaches &#8212; that the migration of the polster during zebrafish gastrulation is a collective migration17. The polster is a group of cells that constitutes the first internalizing cells on the dorsal side of the embryo18. These cells, labeled in green in the Tg(gsc:GFP) transgenic line, are located deep in the embryo, below several layers of epiblast cells. During gastrulation, this group leads the extension of the axial mesoderm, migrating from the embryonic organizer to the animal pole19,20,21,22,23 (Figure 1A). We established that cells require contact with their neighbors to orient their migration in the direction of the animal pole. However, better understanding the cellular and molecular bases of this collective migration involves removing some cells to see how this influences the remaining ones. We, therefore, developed ablations of large and deep volumes using a two-photon microscopy setup. Here, we demonstrate the use of this protocol to sever the polster in its middle and observe the consequences on cell migration by tracking nuclei labeled with Histone2B-mCherry.

<table><tbody><tr><td>25x water immersion objective</td><td>Olympus</td><td>XLPLN25XWMP2</td><td></td></tr><tr><td>Agarose</td><td>PanReac AppliChem</td><td>A8963,0500</td><td></td></tr><tr><td>Data analysis software : Matlab</td><td>Math Works</td><td></td><td></td></tr><tr><td>Electro-optic modulator (EOM)</td><td>ConOptics</td><td>350-80LA</td><td></td></tr><tr><td>Embryo Medium (EM) solution</td><td></td><td></td><td>Westerfield, M. The Zebrafish Book. A Guide for the Laboratory Use of Zebrafish (Danio rerio), 5th Edition. University of Oregon Press, Eugene (Book). (2000).</td></tr><tr><td>Environmental chamber chamber</td><td>Okolab</td><td>H201-T-UNIT-BL</td><td></td></tr><tr><td>EOM driver</td><td>ConOptics</td><td>302RM</td><td></td></tr><tr><td>Fluorescence source</td><td>Lumencor</td><td>SOLA</td><td></td></tr><tr><td>Glass bottom dishes</td><td>MatTek</td><td>P35G-0-10-C</td><td></td></tr><tr><td>Glass capillaries</td><td>Harvard Apparatus</td><td>300085</td><td>Outside diameter 1.0 mm, inside diameter 0.58&amp;nbsp;mm</td></tr><tr><td>Glass pipettes</td><td>Volac</td><td>D810</td><td>Tip should be fire polished</td></tr><tr><td>Green/ablation laser</td><td>Spectra Physics</td><td>Mai Tai HP DeepSee</td><td></td></tr><tr><td>Histone2B-mCherry mRNA</td><td></td><td></td><td>Synthesized from pCS2-H2B-mCherry plasmid (Dumortier&amp;amp; al. 2012)</td></tr><tr><td>Image analysis software: IMARIS</td><td>Bitplane</td><td></td><td></td></tr><tr><td>ImSpector software</td><td>Abberior Instruments Development Team</td><td></td><td></td></tr><tr><td>Injection mold</td><td>Adapative Science Tools</td><td>I-34</td><td></td></tr><tr><td>Microloader tips</td><td>Eppendorf</td><td>5242956003</td><td></td></tr><tr><td>Micromanipulator</td><td>Narishige</td><td>MN-151</td><td></td></tr><tr><td>Micropipette puller</td><td>Sutter</td><td>P-1000</td><td></td></tr><tr><td>mMESSAGE mMACHINE SP6 Transcription Kit</td><td>Invitrogen</td><td>AM1340</td><td></td></tr><tr><td>Penicillin-Streptomycin</td><td>Thermofisher</td><td>15140-122</td><td>10 000 units penicillin and 10 mgstreptomycin per ml</td></tr><tr><td>Photomultiplier tube (PMT)</td><td>Hammamatsu</td><td>H7422-40</td><td></td></tr><tr><td>PicoPump (Air injector)</td><td>World Precision Instrument</td><td>PV820</td><td></td></tr><tr><td>Red laser</td><td>Spectra Physics</td><td>OPO/Insight DeepSee</td><td></td></tr><tr><td>RNAse free water for injection</td><td>Sigma</td><td>W3500</td><td></td></tr><tr><td>Spreadsheet software: Excel</td><td>Microsoft</td><td></td><td></td></tr><tr><td>Stereomicroscope</td><td>Nikon</td><td>SMZ18</td><td></td></tr><tr><td>&lt;em&gt;Tg(gsc:GFP)&lt;/em&gt; zebrafish line</td><td></td><td></td><td>Doitsidou, M. et al. Guidance of primordial germ cell migration by the chemokine SDF-1. Cell. 111 (5), 647&amp;ndash;59, doi: doi.org/10.1016/S0092-8674(02)01135-2 (2002).</td></tr><tr><td>TriM Scope II microscope</td><td>La Vision Biotech</td><td></td><td></td></tr></tbody></table>

deep and spatially controlled volume ablations using a two-photon microscope in the zebrafish gastrula

Morphogenesis involves many cell movements to organize cells into tissues and organs. For proper development, all these movements need to be tightly coordinated, and accumulating evidence suggests this is achieved, at least in part, through mechanical interactions. Testing this in the embryo requires direct physical perturbations. Laser ablations are an increasingly used option that allows relieving mechanical constraints or physically isolating two cell populations from each other. However, many ablations are performed with an ultraviolet (UV) laser, which offers limited axial resolution and tissue penetration. A method is described here to ablate deep, significant, and spatially well-defined volumes using a two-photon microscope. Ablations are demonstrated in a transgenic zebrafish line expressing the green fluorescent protein in the axial mesendoderm and used to sever the axial mesendoderm without affecting the overlying ectoderm or the underlying yolk cell. Cell behavior is monitored by live imaging before and after the ablation. The ablation protocol can be used at different developmental stages, on any cell type or tissue, at scales ranging from a few microns to more than a hundred microns.

To sever the polster in its middle, a Tg(gsc:GFP) embryo, injected with Histone2B-mCherry mRNAs was mounted at the 70% epiboly stage, as described in step 4. The polster was identified by GFP expression, and the embryo was mounted so that the plane of the polster is perpendicular to the optical axis (Figure 1B). Tilting the embryo away from this position will complicate the procedure. The light will have to go through more tissues to reach the ablation planes, and ablation planes wi...

Watch this Scientific Journal Video about Deep and Spatially Controlled Volume Ablations using a Two-Photon Microscope in the Zebrafish Gastrula at JoVE.com

Deep and Spatially Controlled Volume Ablations using a Two-Photon Microscope in the Zebrafish Gastrula

Embryonic development requires large-scale coordination of cell motion. Two-photon excitation mediated laser ablation allows the spatially controlled 3-dimensional ablation of large groups of deep cells. In addition, this technique can probe the reaction of collectively migrating cells in vivo to perturbations in their mechanical environment.

Morphogenesis involves many cell movements to organize cells into tissues and organs. For proper development, all these movements need to be tightly ...

deep-spatially-controlled-volume-ablations-using-two-photon

Research

JoVE Journal

Developmental Biology

1.9K Views.  CNRS UMR7645, INSERM U1182, Institut Polytechnique de Paris. Embryonic development requires large-scale coordination of cell motion. Two-photon excitation mediated laser ablation allows the spatially controlled 3-dimensional ablation of large groups of deep cells. In addition, this technique can probe the reaction of collectively migrating cells in vivo to perturbations in their mechanical environment.

Video: Deep and Spatially Controlled Volume Ablations using a Two-Photon Microscope in the Zebrafish Gastrula

Measuring Protein Stability in Living Zebrafish Embryos Using Fluorescence Decay After Photoconversion (FDAP)

Protein stability influences many aspects of biology, and measuring the clearance kinetics of proteins can provide important insights into biological systems. In FDAP experiments, the clearance of proteins within living organisms can be measured. A protein of interest is tagged with a photoconvertible fluorescent protein, expressed in vivo and photoconverted, and the decrease in the photoconverted signal over time is monitored. The data is then fitted with an appropriate clearance model to determine the protein half-life. Importantly, the clearance kinetics of protein populations in different compartments of the organism can be examined separately by applying compartmental masks. This approach has been used to determine the intra- and extracellular half-lives of secreted signaling proteins during zebrafish development. Here, we describe a protocol for FDAP experiments in zebrafish embryos. It should be possible to use FDAP to determine the clearance kinetics of any taggable protein in any optically accessible organism.

Measuring Protein Stability in Living Zebrafish Embryos Using Fluorescence Decay After Photoconversion FDAP

Protein levels in cells and tissues are often tightly regulated by the balance of protein production and clearance. Using Fluorescence Decay After Photoconversion (FDAP), the clearance kinetics of proteins can be experimentally measured in vivo.

Protein stability influences many aspects of biology, and measuring the clearance kinetics of proteins can provide important insights into biological ...

Precise Cellular Ablation Approach for Modeling Acute Kidney Injury in Developing Zebrafish

Acute Kidney Injury (AKI) is a common medical condition with a high mortality rate. With the repair abilities of the kidney, it is possible to restore adequate kidney function after supportive treatment. However, a better understanding of how nephron cell death and repair occur on the cellular level is required to minimize cell death and to enhance the regenerative process. The zebrafish pronephros is a good model system to accomplish this goal because it contains anatomical segments that are similar to the mammalian nephron. Previously, the most common model used to study kidney injury in fish was the pharmacological gentamicin model. However, this model does not allow for precise spatiotemporal control of injury, and hence it is difficult to study cellular and molecular processes involved in kidney repair. To overcome this limitation, this work presents a method through which, in contrast to the gentamicin approach, a specific Green Fuorescent Protein (GFP)-expressing nephron segment can be photoablated using a violet laser light (405 nm). This novel model of AKI provides many advantages that other methods of epithelial injury lack. Its main advantages are the ability to &#34;dial&#34; the level of injury and the precise spatiotemporal control in the robust in vivo animal model. This new method has the potential to significantly advance the level of understanding of kidney injury and repair mechanisms.

This work presents a new in vivo model of segmental kidney injury using kidney GFP transgenic zebrafish. The model allows for the induction of the targeted ablation of kidney epithelial cells to show the cellular mechanisms of nephron injury and repair.

Acute Kidney Injury (AKI) is a common medical condition with a high mortality rate. With the repair abilities of the kidney, it is possible to restore ...

Two-photon axotomy and time-lapse confocal imaging in live zebrafish embryos

Zebrafish have long been utilized to study the cellular and molecular mechanisms of development by time-lapse imaging of the living transparent embryo. Here we describe a method to mount zebrafish embryos for long-term imaging and demonstrate how to automate the capture of time-lapse images using a confocal microscope. We also describe a method to create controlled, precise damage to individual branches of peripheral sensory axons in zebrafish using the focused power of a femtosecond laser mounted on a two-photon microscope. The parameters for successful two-photon axotomy must be optimized for each microscope. We will demonstrate two-photon axotomy on both a custom built two-photon microscope and a Zeiss 510 confocal/two-photon to provide two examples.

Zebrafish trigeminal sensory neurons can be visualized in a transgenic line expressing GFP driven by a sensory neuron specific promoter 1. We have adapted this zebrafish trigeminal model to directly observe sensory axon regeneration in living zebrafish embryos. Embryos are anesthetized with tricaine and positioned within a drop of agarose as it solidifies. Immobilized embryos are sealed within an imaging chamber filled with phenylthiourea (PTU) Ringers. We have found that embryos can be continuously imaged in these chambers for 12-48 hours. A single confocal image is then captured to determine the desired site of axotomy. The region of interest is located on the two-photon microscope by imaging the sensory axons under low, non-damaging power. After zooming in on the desired site of axotomy, the power is increased and a single scan of that defined region is sufficient to sever the axon. Multiple location time-lapse imaging is then set up on a confocal microscope to directly observe axonal recovery from injury.

Here we describe a method for mounting zebrafish embryos for long-term imaging, two-photon imaging and tissue-damage techniques, and time-lapse confocal imaging.

Zebrafish have long been utilized to study the cellular and molecular mechanisms of development by time-lapse imaging of the living transparent embryo.  ...

Biology

Tissue Targeted Embryonic Chimeras: Zebrafish Gastrula Cell Transplantation

Certain fundamental questions in the field of developmental biology can only be answered when cells are placed in novel environments or when small groups of cells in a larger context are altered.  Watching how one cell interacts with and behaves in a unique environment is essential to characterizing cell functions.  Determining how the localized misexpression of a specific protein influences surrounding cells provides insightful information on the roles that protein plays in a variety of developmental processes.  Our lab uses the zebrafish model system to uniquely combine genetic approaches with classical transplantation techniques to generate genotypic or phenotypic chimeras.  We study neuron-glial cell interactions during the formation of forebrain commissures in zebrafish. This video describes a method that allows our lab to investigate the role of astroglial populations in the diencephalon and the roles of specific guidance cues that influence projecting axons as they cross the midline. Due to their transparency zebrafish embryos are ideal models for this type of ectopic cell placement or localized gene misexpression. Tracking transplanted cells can be accomplished using a vital dye or a transgenic fish line expressing a fluorescent protein. We demonstrate here how to prepare donor embryos with a vital dye tracer for transplantation, as well as how to extract and transplant cells from one gastrula staged embryo to another.  We present data showing ectopic GFP+ transgenic cells within the forebrain of zebrafish embryos and characterize the location of these cells with respect to forebrain commissures.  In addition, we show laser scanning confocal timelapse microscopy of Alexa 594 labeled cells transplanted into a GFP+ transgenic host embryo.  These data provide evidence that gastrula staged transplantation enables the targeted positioning of ectopic cells to address a variety of questions in Developmental Biology.

Zebrafish cell transplantation enables the combination of genetics and embryology to generate tissue specific chimeras. This video demonstrates gastrula staged cell transplantations that have allowed our lab to investigate the roles of astroglial populations and specific guidance cues during commissure formation in the forebrain.

Certain fundamental questions in the field of developmental biology can only be answered when cells are placed in novel environments or when small groups ...

Two-Photon-Based Photoactivation in Live Zebrafish Embryos

Photoactivation of target compounds in a living organism has proven a valuable approach to investigate various biological processes such as embryonic development, cellular signaling and adult physiology. In this respect, the use of multi-photon microscopy enables quantitative photoactivation of a given light responsive agent in deep tissues at a single cell resolution. As zebrafish embryos are optically transparent, their development can be monitored in vivo. These traits make the zebrafish a perfect model organism for controlling the activity of a variety of chemical agents and proteins by focused light. Here we describe the use of two-photon microscopy to induce the activation of chemically caged fluorescein, which in turn allows us to follow cell's destiny in live zebrafish embryos. We use embryos expressing a live genetic landmark (GFP) to locate and precisely target any cells of interest. This procedure can be similarly used for precise light induced activation of proteins, hormones, small molecules and other caged compounds.

Multiphoton microscopy allows control of low energy photons with deep optical penetration and reduced phototoxicity. We describe the use of this technology for live cell labeling in zebrafish embryos. This protocol can be readily adapted for photo-induction of various light-responsive molecules.

Photoactivation of target compounds in a living organism has proven a valuable approach to investigate various biological processes such as embryonic ...

Confocal Microscope-Based Laser Ablation and Regeneration Assay in Zebrafish Interneuromast Cells

Hair cells are mechanosensory cells that mediate the sense of hearing. These cells do not regenerate after damage in humans, but they are naturally replenished in non-mammalian vertebrates such as zebrafish. The zebrafish lateral line system is a useful model for characterizing sensory hair cell regeneration. The lateral line is comprised of hair cell-containing organs called neuromasts, which are linked together by a string of interneuromast cells (INMCs). INMCs act as progenitor cells that give rise to new neuromasts during development. INMCs can repair gaps in the lateral line system created by&#160;cell death. A method is described here for selective INMC ablation using a conventional laser-scanning confocal microscope and transgenic fish that express green fluorescent protein in INMCs. Time-lapse microscopy is then used to monitor INMC regeneration and determine the rate of gap closure. This represents an accessible protocol for cell ablation that does not require specialized equipment, such as a high-powered pulsed ultraviolet laser. The ablation protocol may serve broader interests, as it could be useful for the ablation of additional cell types, employing a tool set that is already available to many users. This technique will further enable the characterization of INMC regeneration under different conditions and from different genetic backgrounds, which will advance the understanding of sensory progenitor cell regeneration.

Laser ablation is a widely applicable technology for studying regeneration in biological systems. The presented protocol describes use of a standard laser-scanning confocal microscope for laser ablation and subsequent time-lapse imaging of regenerating interneuromast cells in the zebrafish lateral line.

Hair cells are mechanosensory cells that mediate the sense of hearing. These cells do not regenerate after damage in humans, but they are naturally ...

Laser Ablation Method to Study Bone Regeneration in Zebrafish Larvae

Two-Photon Laser-Mediated Ablation of Osteoblasts in Developing Zebrafish Larvae

Zebrafish (Danio rerio) have an outstanding capacity to regenerate different organs and appendages. Bone regeneration in zebrafish has been studied using different methods such as fin amputation, scale plucking, skull trepanation, and microscopic approaches. Using a confocal laser scanning setup equipped with a two-photon laser, a laser ablation method was developed as a lesion paradigm to ablate bone-forming cells (osteoblasts) in the developing opercle of zebrafish larvae. The method described here allows the ablation of cells in a precise manner, as the area, shape, and depth can be finely adjusted. In addition, this method allows imaging of the area before and just after the ablation, so that short-term effects of the injury can be analyzed. In this experimental setup, the immune response after ablation of osteoblasts in the injured area was studied. An increase in the recruitment of macrophages was observed after ablation, indicating the relevance of their presence during bone regeneration.

Author Spotlight: Immune-Mediated Bone Regeneration &#8212; The Critical Role of Macrophages and Controlled Immunomodulation in Restorative Processes

This protocol describes a two-photon laser ablation approach carried out in zebrafish larvae, which serves as a model to study bone regeneration and the effects of the immune response to ablation.

Zebrafish (Danio rerio) have an outstanding capacity to regenerate different organs and appendages. Bone regeneration in zebrafish has been studied using ...

Ablation of a Neuronal Population Using a Two-photon Laser and Its Assessment Using Calcium Imaging and Behavioral Recording in Zebrafish Larvae

To identify the role of a subpopulation of neurons in behavior, it is essential to test the consequences of blocking its activity in living animals. Laser ablation of neurons is an effective method for this purpose when neurons are selectively labeled with fluorescent probes. In the present study, protocols for laser ablating a subpopulation of neurons using a two-photon microscope and testing of its functional and behavioral consequences are described. In this study, prey capture behavior in zebrafish larvae is used as a study model. The pretecto-hypothalamic circuit is known to underlie this visually-driven prey catching behavior. Zebrafish pretectum were laser-ablated, and neuronal activity in the inferior lobe of the hypothalamus (ILH; the target of the pretectal projection) was examined. Prey capture behavior after pretectal ablation was also tested.

Here, we present a protocol to ablate a genetically labeled subpopulation of neurons by a two-photon laser from Zebrafish larvae.

To identify the role of a subpopulation of neurons in behavior, it is essential to test the consequences of blocking its activity in living animals. Laser ...

Neuroscience

Analyzing the Prey-Evoked Neuronal Activity in a Transgenic Zebrafish Larva

Source: Muto, A. et al.,&#160; <a href="https://app.jove.com/v/57485">Ablation of a Neuronal Population Using a Two-photon Laser and Its Assessment Using Calcium Imaging and Behavioral Recording in Zebrafish Larvae.</a> J. Vis. Exp. (2018)
This video demonstrates the method for studying visual prey detection in transgenic zebrafish larvae using calcium indicator-based fluoresce imaging with their neurons expressing fluorescent calcium indicator complexes.

Analiza aktywności neuronalnej wywołanej przez zdobycz w transgenicznej larwie danio pręgowanego

1. Ablation of a Subpopulation of Neurons Using a Two-photon Laser Microscope
NOTE: If users plan on performing Ca imaging following ablation, use the ...

JoVE Encyclopedia of Experiments

Neurophysiology

Stimulation and Modulation Techniques

Two-Photon Laser Axotomy: A Method to Injure Axons in Zebrafish Embryos and Observe Axonal Recovery

Source: O&#39;Brien G. S., et al. <a href="https://www.jove.com/v/1129/" target="_blank">Two-photon axotomy and time-lapse confocal imaging in live zebrafish embryos</a>. J. Vis. Exp. (2009).
This video describes the method to injure axons in zebrafish embryos using two photon laser axotomy and observing axonal recovery from injury.

Aksotomia lasera dwufotonowego: metoda uszkadzania aksonów w zarodkach danio pręgowanego i obserwowania regeneracji aksonów

Source: O&#39;Brien G. S., et al. Two-photon axotomy and time-lapse confocal imaging in live zebrafish embryos. J. Vis. Exp. (2009).
This video describes ...