We thank members of the Mariani lab for help editing the protocol. This work was funded by a CIRM Postdoctoral Training Grant (JLF), a CIRM BRIDGES internship (TZTT), the Robert E. and May R. Wright Foundation (FVM), and the University of Southern California (FVM).

1. LysoTracker Staining of Mouse Embryos
 <ol>
 <li>Generate mouse embryos by placing young (5-6 week old) females into male stud cages. Monitor on following mornings for the appearance of a vaginal plug indicating that mating has occurred. If the female is pregnant, noon on that day is called 0.5 dpc (days post coitus). The procedure presented here is ideal for embryos 7-13 dpc.</li>
 <li>On the embryonic day of interest, euthanize the female according to approved protocols and remove the uterus. Remove the...

<ol>
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D., Weil, M., Raff, M. C. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Programmed+cell+death+in+animal+development.">Programmed cell death in animal development.</a> Cell. 88, 347-354 (1997).</li><li>Fuchs, Y., Steller, H. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Programmed+cell+death+in+animal+development+and+disease.">Programmed cell death in animal development and disease.</a> Cell. 147, 742-758 (2011).</li><li>Qu, X. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Autophagy+gene-dependent+clearance+of+apoptotic+cells+during+embryonic+development.">Autophagy gene-dependent clearance of apoptotic cells during embryonic development.</a> Cell. 128, 931-946 (2007).</li><li>Grimsley, C., Ravichandran, K. S. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Cues+for+apoptotic+cell+engulfment:+eat-me,+don't+eat-me+and+come-get-me+signals.">Cues for apoptotic cell engulfment: eat-me, don't eat-me and come-get-me signals.</a> Trends Cell Biol. 13, 648-656 (2003).</li><li>Lauber, K., Blumenthal, S. G., Waibel, M., Wesselborg, S. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Clearance+of+apoptotic+cells:+getting+rid+of+the+corpses.">Clearance of apoptotic cells: getting rid of the corpses.</a> Mol. Cell. 14, 277-287 (2004).</li><li>Haller, T., Dietl, P., Deetjen, P., Volkl, H. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=The+lysosomal+compartment+as+intracellular+calcium+store+in+MDCK+cells:+a+possible+involvement+in+InsP3-mediated+Ca2++release.">The lysosomal compartment as intracellular calcium store in MDCK cells: a possible involvement in InsP3-mediated Ca2+ release.</a> Cell Calcium. 19, 157-165 (1996).</li><li>Zucker, R. M., Hunter, S., Rogers, 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=Confocal+laser+scanning+microscopy+of+apoptosis+in+organogenesis-stage+mouse+embryos.">Confocal laser scanning microscopy of apoptosis in organogenesis-stage mouse embryos.</a> Cytometry. 33, 348-354 (1998).</li><li>Zucker, R. M., Hunter, E. S., Rogers, 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=Apoptosis+and+morphology+in+mouse+embryos+by+confocal+laser+scanning+microscopy.">Apoptosis and morphology in mouse embryos by confocal laser scanning microscopy.</a> Methods. 18, 473-480 (1999).</li><li>Gavrieli, Y., Sherman, Y., Ben-Sasson, S. A. <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+programmed+cell+death+in+situ+via+specific+labeling+of+nuclear+DNA+fragmentation.">Identification of programmed cell death in situ via specific labeling of nuclear DNA fragmentation.</a> J. Cell Biol. 119, 493-501 (1992).</li><li>Foty, R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=A+Simple+Hanging+Drop+Cell+Culture+Protocol+for+Generation+of+3D+Spheroids.">A Simple Hanging Drop Cell Culture Protocol for Generation of 3D Spheroids.</a> J. Vis. Exp. (51), e2720 (2011).</li><li>Chiang, C. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Manifestation+of+the+limb+prepattern:+limb+development+in+the+absence+of+sonic+hedgehog+function.">Manifestation of the limb prepattern: limb development in the absence of sonic hedgehog function.</a> Dev. Biol. 236, 421-435 (2001).</li><li>Ishibashi, M., McMahon, A. 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+sonic+hedgehog-dependent+signaling+relay+regulates+growth+of+diencephalic+and+mesencephalic+primordia+in+the+early+mouse+embryo.">A sonic hedgehog-dependent signaling relay regulates growth of diencephalic and mesencephalic primordia in the early mouse embryo.</a> Development. 129, 4807-4819 (2002).</li><li>Schuldiner, M. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Induced+neuronal+differentiation+of+human+embryonic+stem+cells.">Induced neuronal differentiation of human embryonic stem cells.</a> Brain Res. 913, 201-205 (2001).</li><li>Bain, G., Kitchens, D., Yao, M., Huettner, J. E., Gottlieb, D. I. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Embryonic+stem+cells+express+neuronal+properties+in+vitro.">Embryonic stem cells express neuronal properties in vitro.</a> Dev. Biol. 168, 342-357 (1995).</li><li>Dumont, A. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Hydrogen+peroxide-induced+apoptosis+is+CD95-independent,+requires+the+release+of+mitochondria-derived+reactive+oxygen+species+and+the+activation+of+NF-kappaB.">Hydrogen peroxide-induced apoptosis is CD95-independent, requires the release of mitochondria-derived reactive oxygen species and the activation of NF-kappaB.</a> Oncogene. 18, 747-757 (1999).</li><li>Hampton, M. B., Orrenius, S. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Dual+regulation+of+caspase+activity+by+hydrogen+peroxide:+implications+for+apoptosis.">Dual regulation of caspase activity by hydrogen peroxide: implications for apoptosis.</a> FEBS Lett. 414, 552-556 (1997).</li><li>Wood, W. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Mesenchymal+cells+engulf+and+clear+apoptotic+footplate+cells+in+macrophageless+PU.1+null+mouse+embryos.">Mesenchymal cells engulf and clear apoptotic footplate cells in macrophageless PU.1 null mouse embryos.</a> Development. 127, 5245-5252 (2000).</li><li>Scott, R. C., Juhasz, G., Neufeld, T. P. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Direct+induction+of+autophagy+by+Atg1+inhibits+cell+growth+and+induces+apoptotic+cell+death.">Direct induction of autophagy by Atg1 inhibits cell growth and induces apoptotic cell death.</a> Curr. Biol. 17, 1-11 (2007).</li><li>Rodriguez-Enriquez, S., Kim, I., Currin, R. T., Lemasters, J. J. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Tracker+dyes+to+probe+mitochondrial+autophagy+(mitophagy)+in+rat+hepatocytes.">Tracker dyes to probe mitochondrial autophagy (mitophagy) in rat hepatocytes.</a> Autophagy. 2, 39-46 (2006).</li><li>Bampton, E. T., Goemans, C. G., Niranjan, D., Mizushima, N., Tolkovsky, A. 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Trans. 36, 813-817 (2008).</li><li>Galluzzi, L. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Guidelines+for+the+use+and+interpretation+of+assays+for+monitoring+cell+death+in+higher+eukaryotes.">Guidelines for the use and interpretation of assays for monitoring cell death in higher eukaryotes.</a> Cell Death Differ. 16, 1093-1107 (2009).</li><li>Klionsky, D. J. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Guidelines+for+the+use+and+interpretation+of+assays+for+monitoring+autophagy+in+higher+eukaryotes.">Guidelines for the use and interpretation of assays for monitoring autophagy in higher eukaryotes.</a> Autophagy. 4, 151-175 (2008).</li></ol>

Important hallmarks of apoptosis include the detection of DNA damage with the TUNEL assay, along with the detection of caspase activity (detected with mAbs or a binding molecule such as ZVAD-fmk), the observation of cellular changes, and the presentation of phosphatidylserine (PS) on the membrane surface (detected by Annexin V binding). There are some disadvantages with each of these assays. For example, the terminal transferase used in the TUNEL assay does not penetrate beyond a few cell layers. Also Annexin V can...

<table border="1">
	<tbody>
 <tr>
 <td>Name of the reagent</td>
 <td>Company</td>
 <td>&nbsp;</td>
 <td>Catalogue number</td>
 </tr>
 <tr>
 <td>LysoTracker Red DND-99</td>
 <td>Invitrogen</td>
 <td>#L-7528</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>Hanks BSS</td>
 <td>Invitrogen</td>
 <td>14025-076</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>Paraformaldehyde</td>
 <td>EMD</td>
 <td>EM-PX0055-3</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>Vectashield</td>
 <td>VECTOR</td>
 <td>H-1200</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>DMEM</td>
 <td>Cellgro</td>
 <td>10-013-CV</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>Non-essential amino acids</td>
 <td>Cellgro</td>
 <td>25-025-CI</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>Sodium pyruvate</td>
 <td>Cellgro</td>
 <td>25-000-CI</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>FBS</td>
 <td>Hyclone</td>
 <td>SH30071.02</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>Pen-Strep</td>
 <td>Invitrogen</td>
 <td>15140-122</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>b-Mercaptoethanol, 50 mM </td>
 <td>Invitrogen</td>
 <td>21985-023</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>LabTek-II Chamber slides 
 (8-well)</td>
 <td>Nalge Nunc International</td>
 <td>154534</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>0.1% Gelatin</td>
 <td>Millipore</td>
 <td>ES-006-B</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>Dulbecco's PBS (D-PBS) </td>
 <td>Cellgro</td>
 <td>21-031-CV</td>
 <td>&nbsp;</td>
 </tr>
 <tr>
 <td>&nbsp;</td>
 <td>&nbsp;</td>
 <td>&nbsp;</td>
 <td>Solution Recipes
 4% Paraformaldehyde
 For 100 ml:
 <ol>
 <li>Mix 4 g paraformaldehyde, 90 ml H2O, and NaOH (a drop of 2N NaOH). The paraformaldehyde will not go into solution until you have added some NaOH to increase the pH.</li>
 <li>Stir and heat at 60 &deg;C until all the powder is in solution (~10-20 min). Do not overheat.</li>
 <li>Add ~10 ml 10x PBS to achieve a final volume of 100 ml.</li>
 <li>Store at -20 &deg;C in convenient (~10 ml or ~40 ml) aliquots.</li>
 </ol>
 WARNING: Paraformaldehyde in 'frill' form (compressed small pellets) is less powdery and can therefore be measured outside of a hood. However you should still wear a protective dust mask (N95 at least) during handling.
 EB Culture Media
 For 500 ml EB Media:
 <table border="1">
 <tbody>
 <tr>
 <td>DMEM:</td>
 <td>404.5 ml</td>
 </tr>
 <tr>
 <td>FBS:</td>
 <td>75.0 ml</td>
 </tr>
 <tr>
 <td>L-Glutamine:</td>
 <td>5.0 ml</td>
 </tr>
 <tr>
 <td>Penicillin/Streptomycin:</td>
 <td>5.0 ml</td>
 </tr>
 <tr>
 <td>Non-essential amino acids:</td>
 <td>5.0 ml</td>
 </tr>
 <tr>
 <td>Sodium pyruvate:</td>
 <td>5.0 ml</td>
 </tr>
 <tr>
 <td>&beta;-Mercaptoethanol:</td>
 <td>500 &mu;l</td>
 </tr>
 </tbody>
 </table></td>
 </tr>
	 </tbody>
 </table>

use of lysotracker to detect programmed cell death in embryos and differentiating embryonic stem cells

Programmed cell death (PCD) occurs in adults to maintain normal tissue homeostasis and during embryological development to shape tissues and organs1,2,6,7. During development, toxic chemicals or genetic alterations can cause an increase in PCD or change PCD patterns resulting in developmental abnormalities and birth defects3-5. To understand the etiology of these defects, the study of embryos can be complemented with in vitro assays that use differentiating embryonic stem (ES) cells.
Apoptosis is a well-studied form of PCD that involves both intrinsic and extrinsic signaling to activate the caspase enzyme cascade. Characteristic cell changes include membrane blebbing, nuclear shrinking, and DNA fragmentation. Other forms of PCD do not involve caspase activation and may be the end-result of prolonged autophagy. Regardless of the PCD pathway, dying cells need to be removed. In adults, the immune cells perform this function, while in embryos, where the immune system has not yet developed, removal occurs by an alternative mechanism. This mechanism involves neighboring cells (called "non-professional phagocytes") taking on a phagocytic role-they recognize the 'eat me' signal on the surface of the dying cell and engulf it8-10. After engulfment, the debris is brought to the lysosome for degradation. Thus regardless of PCD mechanism, an increase in lysosomal activity can be correlated with increased cell death.
To study PCD, a simple assay to visualize lysosomes in thick tissues and multilayer differentiating cultures can be useful. LysoTracker dye is a highly soluble small molecule that is retained in acidic subcellular compartments such as the lysosome11-13. The dye is taken up by diffusion and through the circulation. Since penetration is not a hindrance, visualization of PCD in thick tissues and multi-layer cultures is possible12,13. In contrast, TUNEL (Terminal deoxynucleotidyl transferase dUTP nick end labeling) analysis14, is limited to small samples, histological sections, and monolayer cultures because the procedure requires the entry/permeability of a terminal transferase.
In contrast to Aniline blue, which diffuses and is dissolved by solvents, LysoTracker Red DND-99 is fixable, bright, and stable. Staining can be visualized with standard fluorescent or confocal microscopy in whole-mount or section using aqueous or solvent-based mounting media12,13. Here we describe protocols using this dye to look at PCD in normal and sonic hedgehog null mouse embryos. In addition, we demonstrate analysis of PCD in differentiating ES cell cultures and present a simple quantification method. In summary, LysoTracker staining can be a great complement to other methods of detecting PCD.

Watch this Scientific Journal Video about Use of LysoTracker to Detect Programmed Cell Death in Embryos and Differentiating Embryonic Stem Cells at JoVE.com

Use of LysoTracker to Detect Programmed Cell Death in Embryos and Differentiating Embryonic Stem Cells

We present a simple protocol to visualize regions of programmed cell death (PCD) in mouse embryos and differentiating embryonic stem (ES) cell cultures using a highly soluble dye called LysoTracker.

Programmed cell death (PCD) occurs in adults to maintain normal tissue homeostasis and during embryological development to shape tissues and ...

use-lysotracker-to-detect-programmed-cell-death-embryos

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Unit 1

Cell Death

SCIENTISTS IN ACTION

23.0K ビュー.  University of Southern California. 我々は、マウス胚とLysoTrackerと呼ばれる非常に水溶性染料を使用して差別化胚性幹（ES）細胞培養でプログラムされた細胞死（PCD）の領域を可視化するための単純なプロトコルを提示。

ビデオ: Use of LysoTracker to Detect Programmed Cell Death in Embryos and Differentiating Embryonic Stem Cells

We present a simple protocol to visualize regions of programmed cell death (PCD) in mouse embryos and differentiating embryonic stem (ES) cell cultures using a highly soluble dye called...

differentiating human embryonic stem cells into oligodendrocytes

This video demonstrates the process of generating oligodendrocyte precursor cells (OPCs) from human embryonic stem cells, followed by the maturation of OPCs to oligodendrocytes. This process of generating oligodendrocytes opens numerous avenues to improve research and treatment of neurodegenerative diseases, including...

Differentiating Human Embryonic Stem Cells into Oligodendrocytes

differentiating human embryonic stem cells into neural progenitors

This video demonstrates the differentiation of human embryonic stem cells, or hESCs, directly into neural progenitor cells without using feeder cells or any intermediate steps. The selective inhibition of bone morphogenetic protein or BMP and transforming growth factor-beta, or TGF-&#946;, signaling pathways leads to hESCs differentiation into neural progenitor cells, or...

Differentiating Human Embryonic Stem Cells into Neural Progenitors

On day zero, treat cells for 24 hours with ES cell maintenance medium, supplemented with 2% DMSO. On days 1 through 6, change the full media with warm neural induction medium containing SMAD inhibitors from a commercial kit. On day 7, passage NPCs using cell detachment solution, and plate them at a seating density of 1 to 2 x 105 cells per well of a 24-well...

differentiating mouse embryonic stem cells into a networked neuron population

This video demonstrates a technique for embryonic stem cell differentiation into a networked population of neurons with functioning synapses. It outlines the steps involved in embryonic stem cell differentiation into neurons, induction of neuronal network formation, and enrichment of the culture with networked...

Differentiating Mouse Embryonic Stem Cells into a Networked Neuron Population

Plate the cells on a basement membrane matrix coated 6-well plate at a density of 2 x 105 cells per well in 2 milliliters of mTeSR1 with 10 micromolar ROCK inhibitor. After 24 hours, replace the culture medium with neural induction medium supplemented with 1 micromolar dorsomorphin and 5 micromolar SB431542. Change the medium every other day during the first four days of neural induction, then every day, until confluence is reached at day...

southern blotting to detect homologous recombination in the mouse embryonic stem cell genome

In this video, we describe the Southern blotting technique to identify homologous recombination events in the genome of mouse embryonic stem cells using radiolabeled probes. DNA regions containing homologous recombination events appear as distinct bands when the membrane containing the probe-bound DNA is exposed to...

Southern Blotting to Detect Homologous Recombination in the Mouse Embryonic Stem Cell Genome

Prepare a 1% agarose electrophoresis gel with ethidium bromide. Load the previously-acquired samples along with a 1 Kb ladder onto the gel, and run it at 30 to 40 volts overnight. The next day, soak the gel in a tray, containing a 0.2 Newton hydrochloric acid solution. Use a shaker to shake the tray gently for 20 minutes at room...

Place the dish on an orbital shaker set to 30 to 45 RPM inside a tissue culture incubator at 37 degrees Celsius and 5% carbon dioxide, and incubate for 48 hours. After 48 hours, use a 25-milliliter pipette to transfer the differentiating cell aggregates to a 50-milliliter conical...

derivation of hematopoietic stem cells from murine embryonic stem cells

Derivation of Hematopoietic Stem Cells from Murine Embryonic Stem Cells

This protocol details the derivation of transplantable hematopoietic stem cells from mouse embryonic stem cells (ESC) and their subsequent injection into lethally irradiated recipient mice.  Briefly, ESC are differentiated as embryoid bodies, which are then infected with retroviral HoxB4 and co-cultured with OP9 stromal cells and hematopoietic...

trans-inner cell mass injection of embryonic stem cells leads to higher chimerism rates

Trans-inner Cell Mass Injection of Embryonic Stem Cells Leads to Higher Chimerism Rates

Here we present a protocol to increase chimera production without the use of new equipment. A simple orientation change of the embryo for injection can increase the number of embryos produced, and potentially reduce the timeline to germline...

crispr-cas9 mediated gene deletion in human pluripotent stem cells cultured under feeder-free conditions

Lentiviral Infections and Single-Cell Clonal Propagation for Gene Targeting in Human Embryonic Stem Cells

The presented method describes the generation of a CRISPR-mediated gene knockout in the human embryonic stem cell (hESC) line H9, which stably expresses sgRNAs targeting the L2HGDH gene using a highly efficient lentiviral-mediated gene delivery...

CRISPR-Cas9 Mediated Gene Deletion in Human Pluripotent Stem Cells Cultured Under Feeder-Free Conditions

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stem cell-like xenopus embryonic explants to study early neural developmental features in vitro and in vivo

Stem cell-like Xenopus Embryonic Explants to Study Early Neural Developmental Features In Vitro and In Vivo

In Xenopus embryos, cells from the roof of the blastocoel are pluripotent and can be programmed to generate various tissues. Here, we describe protocols to use amphibian blastocoel roof explants as an assay system to investigate key in vivo and in vitro features of early neural development.

Stem cell-like Xenopus Embryonic Explants to Study Early Neural Developmental Features In Vitro and In Vivo

differentiating human-induced pluripotent stem cells into microglia-like cells

This video demonstrates the procedure of the differentiation of human pluripotent cells into microglia-like cells. The process involves forming embryoid bodies, transferring them to coated wells, and using specific growth factors to guide differentiation into primitive macrophage precursors, which finally differentiate into microglia-like...

Differentiating Human-Induced Pluripotent Stem Cells into Microglia-Like Cells

isolation and culture of embryonic mouse neural stem cells

Isolation and Culture of Embryonic Mouse Neural Stem Cells

Here, we introduce a novel microsurgical technique for the isolation of neural stem cells from the E13 mouse embryo ganglionic...

visualization of macrophage lytic cell death during mycobacterial infection in zebrafish embryos via intravital microscopy

Visualization of Macrophage Lytic Cell Death During Mycobacterial Infection in Zebrafish Embryos via Intravital Microscopy

This protocol describes a technique for visualizing macrophage behavior and death in embryonic zebrafish during Mycobacterium marinum infection. Steps for the preparation of bacteria, infection of the embryos, and intravital microscopy are included. This technique may be applied to the observation of cellular behavior and death in similar scenarios involving infection or sterile...

derivation of stem cell lines from mouse preimplantation embryos

Derivation of Stem Cell Lines from Mouse Preimplantation Embryos

This article describes a protocol to efficiently derive and culture pluripotent stem cell lines from mouse embryos at the blastocyst stage.

epigenetic regulation of cardiac differentiation of embryonic stem cells and tissues

Epigenetic Regulation of Cardiac Differentiation of Embryonic Stem Cells and Tissues

A fine tuning regulation of gene transcription underlies embryonic cell fate decision. Herein, we describe chromatin immunoprecipitation assays used to investigate epigenetic regulation of both cardiac differentiation of stem cells and cardiac development of mouse...

efficient neural differentiation using single-cell culture of human embryonic stem cells

Efficient Neural Differentiation using Single-Cell Culture of Human Embryonic Stem Cells

Presented here is a protocol for the generation of a single-cell culture of human embryonic stem cells and their subsequent differentiation into neural progenitor cells. The protocol is simple, robust, scalable, and suitable for drug screening and regenerative medicine...

differentiating human neural stem cells into neural and astrocyte progenitors

This video demonstrates the method to differentiate human neural stem cells from neurospheres into neural and astrocyte progenitors using enzymatic treatment and culturing in a growth factor-rich medium, which eventually leads to maturation into specialized progenitor...

Differentiating Human Neural Stem Cells into Neural and Astrocyte Progenitors

Dissection of 6.5 dpc Mouse Embryos

Analysis of gene expression patterns during early stages of mammalian embryonic development can provide important clues about gene function, cell-cell interaction and signaling mechanisms that guide embryonic patterning. However, dissection of the mouse embryo from the decidua shortly after implantation can be a challenging procedure, and detailed step-by-step documentation of this process is lacking.

Here we demonstrate how post-implantation (6.5 dpc) embryos are isolated by first dissecting the uterus of a pregnant mouse (detection of the vaginal plug was designated day 0.5 poist coitum) and subsequently dissecting the embryo from maternal decidua. The dissection of Reichert's membrane is described as well as the removal of the ectoplacental cone.

Isolation of postimplantation-stage embryos allows one to study gene patterning and analyze cell-lineage decision making processes during embryonic development, but proper dissection of the early embryo can be challenging. This protocol describes a method for isolating early primitive-streak-stage embryos (~6.5 days post coitum [dpc]).

Analysis of gene expression patterns during early stages of mammalian embryonic development can provide important clues about gene function, cell-cell ...

A stem cell is defined as a cell with the capacity to both self-renew and generate multiple differentiated progeny.  Embryonic stem cells (ESC) are derived from the blastocyst of the early embryo and are pluripotent in differentiative ability.  Their vast differentiative potential has made them the focus of much research centered on deducing how to coax them to generate clinically useful cell types.  The successful derivation of hematopoietic stem cells (HSC) from mouse ESC has recently been accomplished and can be visualized in this video protocol.  HSC, arguably the most clinically exploited cell population, are used to treat a myriad of hematopoietic malignancies and disorders.  However, many patients that might benefit from HSC therapy lack access to suitable donors.  ESC could provide an alternative source of HSC for these patients.  The following protocol establishes a baseline from which ESC-HSC can be studied and inform efforts to isolate HSC from human ESC.  In this protocol, ESC are differentiated as embryoid bodies (EBs) for 6 days in commercially available serum pre-screened for optimal hematopoietic differentiation.  EBs are then dissociated and infected with retroviral HoxB4.  Infected EB-derived cells are plated on OP9 stroma, a bone marrow stromal cell line derived from the calvaria of  M-CSF-/- mice, and co-cultured in the presence of hematopoiesis promoting cytokines for ten days.  During this co-culture, the infected cells expand greatly, resulting in the generation a heterogeneous pool of 100s of millions of cells.  These cells can then be used to rescue and reconstitute lethally irradiated mice.

This protocol details the derivation of transplantable hematopoietic stem cells from mouse embryonic stem cells (ESC) and their subsequent injection into lethally irradiated recipient mice. Briefly, ESC are differentiated as embryoid bodies, which are then infected with retroviral HoxB4 and co-cultured with OP9 stromal cells and hematopoietic cytokines.

A stem cell is defined as a cell with the capacity to both self-renew and generate multiple differentiated progeny.  Embryonic stem cells (ESC) are ...

Derivation of Human Embryonic Stem Cells by Immunosurgery

The ability of human embryonic stem cells to self-renew and differentiate into all cell types of 
the body suggests that they hold great promise for both medical applications and as a research 
tool for addressing fundamental questions in development and disease. Here, we provide a 
concise, step-by-step protocol for the derivation of human embryonic stem cells from embryos 
by immunosurgical isolation of the inner cell mass. 


The ability of human embryonic stem cells to self-renew and differentiate into all cell types of 
the body suggests that they hold great promise for both medical applications and as a research 
tool for addressing fundamental questions in development and disease. Here, we provide a 
concise, step-by-step protocol for the derivation of human embryonic stem cells from embryos 
by immunosurgical isolation of the inner cell mass.

The ability of human embryonic stem cells to self-renew and differentiate into all cell types of 
the body suggests that they hold great promise for both ...

Embryonic Stem Cell-Derived Endothelial Cells for Treatment of Hindlimb Ischemia

Peripheral arterial disease (PAD) results from narrowing of the peripheral arteries that supply oxygenated blood and nutrients to the legs and feet, This pathology causes symptoms such as intermittent claudication (pain with walking), painful ischemic ulcerations, or even limb-threatening gangrene. It is generally believed that the vascular endothelium, a monolayer of endothelial cells that invests the luminal surface of all blood and lymphatic vessels, plays a dominant role in vascular homeostasis and vascular regeneration. As a result, stem cell-based regeneration of the endothelium may be a promising approach for treating PAD.In this video, we demonstrate the transplantation of embryonic stem cell (ESC)-derived endothelial cells for treatment of unilateral hindimb ischemia as a model of PAD, followed by non-invasive tracking of cell homing and survival by bioluminescence imaging. The specific materials and procedures for cell delivery and imaging will be described. This protocol follows another publication in describing the induction of hindlimb ischemia by Niiyama et al.1

The surgical procedure for delivery of embryonic stem cell-derived endothelial cells to the ischemic hindlimb is demonstrated, with non-invasive tracking by bioluminescence imaging.

Peripheral arterial disease (PAD) results from narrowing of the peripheral arteries that supply oxygenated blood and nutrients to the legs and feet, This ...

Preparation of embryos for Electron Microscopy of the Drosophila embryonic heart tube

The morphogenesis of the Drosophila embryonic heart tube has emerged as a valuable model system for studying cell migration, cell-cell adhesion and cell shape changes during embryonic development. One of the challenges faced in studying this structure is that the lumen of the heart tube, as well as the membrane features that are crucial to heart tube formation, are difficult to visualize in whole mount embryos, due to the small size of the heart tube and intra-lumenal space relative to the embryo. The use of transmission electron microscopy allows for higher magnification of these structures and gives the advantage of examining the embryos in cross section, which easily reveals the size and shape of the lumen. In this video, we detail the process for reliable fixation, embedding, and sectioning of late stage Drosophila embryos in order to visualize the heart tube lumen as well as important cellular structures including cell-cell junctions and the basement membrane.

Preparation of embryos for Electron Microscopy of the Drosophila embryonic heart tube

We describe a process for fixation, embedding, sectioning, and imaging of late stage Drosophila embryos for Trasmission Electron Microscopy of the embryonic heart tube. This technique allows for the visualization of the heart tube lumen as well as the basement membrane, which lines the lumen of the heart.

The morphogenesis of the Drosophila  embryonic heart tube has emerged as a valuable model system for studying cell migration, cell-cell adhesion and cell ...

Isolation and Derivation of Mouse Embryonic Germinal Cells

The ability of embryonic germinal cells (EG) to differentiate into primordial germinal cells (PGCs) and later into gametes during early developmental stages is a perfect model to address our hypothesis about cancer and infertility. This protocol shows how to isolate primordial germinal cells from developing gonads in 10.5-11.5 days post coitum (dpc) mouse embryos.  Developing gonadal ridges from mouse embryos (C57BL6J) were dissociated by mechanical disruption with collagenase, then plated in a mouse embryo fibroblast feeder layer (MEF-CF1) that was previously mitotically inactivated with mitomycin C in the presence of knockout media and supplemented with Leukemia Inhibitor Factor (LIF), basic Fibroblast Growth Factor (bFGF), and Stem Cell Factor (SCF).  Using these optimized methods for PCG identification, isolation, and establishment of culture conditions permits long term cultures of EG cells for more than 40 days.  The embryonic germinal cell lines showed embryonic phenotype and expression of common used markers of the pluripotent state.  Isolation and derivation of germinal cells in culture provide a tool to understand their development in vitro and offer the opportunity to monitor cumulative damage at genetic and epigenetic levels after exposure to oxidative stress.

The ability of embryonic germinal cells to differentiate into primordial germinal cells during early development stages is a perfect model to address our hypothesis about cancer and infertility. This protocol shows how to isolate primordial germinal cells from developing gonads in 10.5-11.5 days post coitum mouse embryos.

The ability of embryonic germinal cells (EG) to differentiate into primordial germinal cells (PGCs) and later into gametes during early developmental ...

Video Bioinformatics Analysis of Human Embryonic Stem Cell Colony Growth

Because video data are complex and are comprised of many images, mining information from video material is difficult to do without the aid of computer software.  Video bioinformatics is a powerful quantitative approach for extracting spatio-temporal data from video images using computer software to perform dating mining and analysis. In this article, we introduce a video bioinformatics method for quantifying the growth of human embryonic stem cells (hESC) by analyzing time-lapse videos collected in a Nikon BioStation CT incubator equipped with a camera for video imaging. In our experiments, hESC colonies that were attached to Matrigel were filmed for 48 hours in the BioStation CT.  To determine the rate of growth of these colonies, recipes were developed using CL-Quant software which enables users to extract various types of data from video images.  To accurately evaluate colony growth, three recipes were created. The first segmented the image into the colony and background, the second enhanced the image to define colonies throughout the video sequence accurately, and the third measured the number of pixels in the colony over time.  The three recipes were run in sequence on video data collected in a BioStation CT to analyze the rate of growth of individual hESC colonies over 48 hours. To verify the truthfulness of the CL-Quant recipes, the same data were analyzed manually using Adobe Photoshop software. When the data obtained using the CL-Quant recipes and Photoshop were compared, results were virtually identical, indicating the CL-Quant recipes were truthful. The method described here could be applied to any video data to measure growth rates of hESC or other cells that grow in colonies. In addition, other video bioinformatics recipes can be developed in the future for other cell processes such as migration, apoptosis, and cell adhesion.  

Video bioinformatics is the automated processing, analysis, understanding, and data mining of biological spatio-temporal data extracted from microscopic videos. The purpose of this article is to demonstrate a method for measuring human embryonic stem cell colony growth using a video bioinformatics method.

Because video data are complex and are comprised of many images, mining information from video material is difficult to do without the aid of computer ...

Differentiation of Embryonic Stem Cells into Oligodendrocyte Precursors

Oligodendrocytes are the myelinating cells of the central nervous system. For regenerative cell therapy in demyelinating diseases, there is significant interest in deriving a pure population of lineage-committed oligodendrocyte precursor cells (OPCs) for transplantation. OPCs are characterized by the activity of the transcription factor Olig2 and surface expression of a proteoglycan NG2. Using the GFP-Olig2 (G-Olig2) mouse embryonic stem cell (mESC) reporter line, we optimized conditions for the differentiation of mESCs into GFP+Olig2+NG2+ OPCs. In our protocol, we first describe the generation of embryoid bodies (EBs) from mESCs. Second, we describe treatment of mESC-derived EBs with small molecules: (1) retinoic acid (RA) and (2) a sonic hedgehog (Shh) agonist purmorphamine (Pur) under defined culture conditions to direct EB differentiation into the oligodendroglial lineage. By this approach, OPCs can be obtained with high efficiency (&gt;80%) in a time period of 30 days. Cells derived from mESCs in this protocol are phenotypically similar to OPCs derived from primary tissue culture. The mESC-derived OPCs do not show the spiking property described for a subpopulation of brain OPCs in situ. To study this electrophysiological property, we describe the generation of spiking mESC-derived OPCs by ectopically expressing NaV1.2 subunit. The spiking and nonspiking cells obtained from this protocol will help advance functional studies on the two subpopulations of OPCs.

We describe a small molecule-based protocol for differentiation of mouse embryonic stem cells into oligodendrocyte precursor cells (OPCs). This protocol generates Olig2+NG2+ OPCs with high efficiency by 30 days of differentiation. We also describe a method to generate "spiking" OPCs that can fire action potentials.

Oligodendrocytes are the myelinating cells of the central nervous system. For regenerative cell therapy in demyelinating diseases, there is significant ...

Fate Mapping of Human Embryonic Stem Cells by Teratoma Formation

Human embryonic stem cells (hESCs) have an unlimited capacity for self-renewal, and the ability to differentiate into cells derived from all three embryonic germ layers (1). Directed differentiation of hESCs into specific cell types has generated much interest in the field of regenerative medicine (e.g., (2-5)), and methods for determining the in vivo fate of selected or manipulated hESCs are essential to this endeavor. We have adapted a highly efficient teratoma formation assay for this purpose. A small number of specifically selected hESCs is mixed with undifferentiated wild type hESCs and Phaseolus vulgaris lectin to form a cell pellet. This is grafted beneath the kidney capsule in an immunodeficient mouse. As few as 2.5 x 105 hESCs are needed to form a 16 cm3 teratoma within 8-12 weeks. The fate of the originally selected hESCs can then be determined by immunohistochemistry. This method provides a valuable tool for characterizing tissue-specific reagents for cell-based therapy.

Directed differentiation of hESCs into specific cells has generated much interest in regenerative medicine. We provide a concise, step-by-step protocol for determining the in vivo fate of selected hESCs that provides a valuable tool for characterizing tissue-specific reagents for cell-based therapy.

Human embryonic stem cells (hESCs) have an unlimited capacity for self-renewal, and the ability to differentiate into cells derived from all three ...

Efficient Derivation of Human Cardiac Precursors and Cardiomyocytes from Pluripotent Human Embryonic Stem Cells with Small Molecule Induction

To date, the lack of a suitable human cardiac cell source has been the major setback in regenerating the human myocardium, either by cell-based transplantation or by cardiac tissue engineering1-3. Cardiomyocytes become terminally-differentiated soon after birth and lose their ability to proliferate. There is no evidence that stem/progenitor cells derived from other sources, such as the bone marrow or the cord blood, are able to give rise to the contractile heart muscle cells following transplantation into the heart1-3. The need to regenerate or repair the damaged heart muscle has not been met by adult stem cell therapy, either endogenous or via cell delivery1-3. The genetically stable human embryonic stem cells (hESCs) have unlimited expansion ability and unrestricted plasticity, proffering a pluripotent reservoir for in vitro derivation of large supplies of human somatic cells that are restricted to the lineage in need of repair and regeneration4,5. Due to the prevalence of cardiovascular disease worldwide and acute shortage of donor organs, there is intense interest in developing hESC-based therapies as an alternative approach. However, how to channel the wide differentiation potential of pluripotent hESCs efficiently and predictably to a desired phenotype has been a major challenge for both developmental study and clinical translation. Conventional approaches rely on multi-lineage inclination of pluripotent cells through spontaneous germ layer differentiation, resulting in inefficient and uncontrollable lineage-commitment that is often followed by phenotypic heterogeneity and instability, hence, a high risk of tumorigenicity6-8 (see a schematic in Fig. 1A). In addition, undefined foreign/animal biological supplements and/or feeders that have typically been used for the isolation, expansion, and differentiation of hESCs may make direct use of such cell-specialized grafts in patients problematic9-11. To overcome these obstacles, we have resolved the elements of a defined culture system necessary and sufficient for sustaining the epiblast pluripotence of hESCs, serving as a platform for de novo derivation of clinically-suitable hESCs and effectively directing such hESCs uniformly towards clinically-relevant lineages by small molecules12 (see a schematic in Fig. 1B). After screening a variety of small molecules and growth factors, we found that such defined conditions rendered nicotinamide (NAM) sufficient to induce the specification of cardiomesoderm direct from pluripotent hESCs that further progressed to cardioblasts that generated human beating cardiomyocytes with high efficiency (Fig. 2). We defined conditions for induction of cardioblasts direct from pluripotent hESCs without an intervening multi-lineage embryoid body stage, enabling well-controlled efficient derivation of a large supply of human cardiac cells across the spectrum of developmental stages for cell-based therapeutics.

We have established a protocol for induction of cardioblasts direct from pluripotent human embryonic stem cells maintained under defined conditions with small molecules, which enables derivation of a large supply of human cardiac progenitors and functional cardiomyocytes for cardiovascular repair.