1. Entfernen Sie Eier aus Inkubator <ol><li> Halten bei 37 ° C bei einer relativen Luftfeuchtigkeit von über 60% gesetzt. </li><li> Entfernen Sie die Eier, Eier wiederum 90 °, so dass die große Basis horizontal liegt. </li></ol> 2. Swab Eier zu sterilisieren <ol><li> Tränken Sie einen Stapel von nicht-steriler Gaze mit 70% Ethanol. </li><li> Verwenden Sie zwei vor drei Stücke Tupfer bis zu 5 Eier. Verwerfen, wenn die Gaze verschmutzt ist. </li></ol> 3. Vorbereitung Eiweiß Entnahmestelle <ol><li> Cut und setzen Sie eine 1 &quot;x 1&quot; Stück von 3M Kunststoffband nur von der Basis nach links, um den Bereich, wo die Albumin durchgeführt wird, gezogen zu schützen. </li></ol> 4. Entfernung von Eiweiß <ol><li> Verwenden Sie die Spitze einer Schere ein kleines Loch in der Mitte des Bandes machen. </li><li> Mit einem 10-ml-Spritze mit einer 18-Gauge-, 1-Zoll-Nadel langsam bohren die Nadel durch das Loch von der Schere gemacht. </li><li> Fahren Sie die Nadel in einem 45 ° C Winkel in Richtung der Unterseite des Eies. </li><li> Kippen Sie die Nadel gegen die Mitte und erarbeiten von 3 bis 4 ml Albumin. </li></ol> 5. Windowing <ol><li> Schneiden Sie ein 3 &quot;x 3&quot; Stück Plastik Band und ziehen Sie es auf die Spitze des Eis fit. Verlängern Sie die Ecken des Quadrates um die abgerundeten Enden der horizontalen Fläche der Eier, man aufpassen, nicht zu ziehen zu hart. Ziehen Sie das Band so, dass es eng an der Oberfläche der Eier ohne Falten. </li><li> Mit ein paar scharfen geraden 4 &quot;dissection Scheren, Torsion ein Loch in der unteren Mitte des Gebietes, wo das Band gelegt wurde. Langsam Führer der unteren Klinge der Schere in die Eizelle wird unbedingt die Tipps halten gegen die Innenseite des die Schale. Direkte das Blatt gegen die Basis und langsam beginnen, um die Schale geschnitten. entgegen dem Uhrzeigersinn um den bis kurz vor Erreichen der Spitze entfernt. Nehmen Sie die Schere und wiederholen Sie gehen in die entgegengesetzte Richtung, bis nur noch ein kleines Stück des Ei haften bleibt. Überprüfen Sie, ob das Ei befruchtet wird. Shut the window. </li></ol> 6. Closing, Wiedereröffnung und Abdichtung des Eies. <ol><li> Cut über ein 2-3 &quot;lang und 1 / 2&quot; breite Plastikband und schloss das Fenster so wieder passt in das Loch, das geschnitten wurde. Nehmen wir ein anderes 1 x 1 &quot;Stück Klebeband und Siegel das Loch, aus dem das Ei abgelassen wurde. Verwenden einer Pinzette, um das Ei zu Manipulationen zu tun öffnen. Wenn Sie bereit sind, um die Eier in den Inkubator zurück sind, schneiden Sie ein Stück der Band, das groß genug, um das Fenster zu versiegeln und decken die gesamte horizontale Fläche des Eies ist. </li></ol>

<ol>
	<li>Cramer, K. S., Fraser, S. E., Rubel, E. W. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=.">.</a> Dev Biol. 224, 138-151 (2000).</li><li>Cramer, K. S., Bermingham-McDonogh, O., Krull, C. E., Rubel, E. W. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=.">.</a> Dev Biol. 269, 26-35 (2004).</li><li>Cramer, K. S., Cerretti, D. P., Siddiqui, 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=.">.</a> Dev Biol. 295, 76-89 (2006).</li><li>Huffman, K. J., Cramer, 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=.">.</a> Dev Neurobiol. 67, 1655-1668 (2007).</li><li>Krull, C. E. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=.">.</a> Dev Dyn. 229, 433-439 (2004).</li><li>Gerlach-Bank, L. M., Cleveland, A. R., Barald, K. F. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=.">.</a> Dev Dyn. 229, 219-230 (2004).</li></ol>

Diese Methode ermöglicht eine lange Überlebenszeit folgenden experimentellen Manipulationen. Zum Beispiel erlaubt Farbstoff-Kennzeichnung Studien Überleben E10 oder später in ein Schicksal, Mapping-Studie (1). Darüber hinaus hat es für in ovo Elektroporation Studien, die Veränderung der Genexpression und Entwicklung erforderlich, um zu späteren Entwicklungsstadien (2-6) weiter verfahren werden eingesetzt. Diese Fenstertechnik können in Kombination mit jedem Verfahren, das Überleben nach Manipulationen am Embryo braucht eingesetzt ...

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<td>Rotating incubator</td>
<td>&nbsp;</td>
<td>Profi</td>
<td>&nbsp;</td>
<td>Maintain at 37&#176; Degrees with relative humidity set above 60%</td>
</tr>
<tr>
<td>70 % EtOH</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<tr>
<td>gauze</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<tr>
<td>3M plastic tape</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<tr>
<td>10cc syringe</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>1/egg
</td>
</tr>
<tr>
<td>18G needles</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>1&#189; inch needle, 1/syringe</td>
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<td>Dissection scissors</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>&nbsp;</td>
<td>4" sharp straight blades</td>
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<td>Fertilized Eggs</td>
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windowing chicken eggs for developmental studies

Das Studium der Entwicklung wurde stark durch die Verwendung des Hühnerembryo als experimentelles Modell unterstützt. Die leichte Zugänglichkeit des Embryos ist für Experimente erlaubt Zellanlagen verschiedene Möglichkeiten, einschließlich Küken Wachtel Chimären und Schwerpunkte Farbstoffmarkierung Karte. Darüber hinaus ermöglicht es der molekularen Störungen von mehreren Arten, darunter Vermittlung von Protein-beschichteten Beads und Einführung von Plasmid-DNA mit in ovo Elektroporation. Diese Experimente haben wichtige Daten über die Entwicklung des zentralen und peripheren Nervensystems ergab. Für viele dieser Studien ist es notwendig, die Eierschale öffnen und wieder ohne Störung des Embryos Wachstum. Der Embryo kann in aufeinanderfolgenden Entwicklungsstadien durch erneutes Öffnen der Eischale untersucht werden. Es gibt zwar mehrere ausgezeichnete Methoden für die Öffnung der Hühnereier, die in diesem Artikel werden wir zeigen, eine Methode, die für lange Überlebenszeiten optimiert wurde. Bei dieser Methode liegt das Ei auf seiner Seite und ein kleines Fenster in die Schale geschnitten. Nach dem experimentellen Verfahren wird die Shell benutzt, um das Ei für die Dauer ihrer Entwicklung zu decken. Klare Plastikband über der Eierschale schützt den Embryo und halten die Feuchtigkeit während der Rest der Inkubationszeit. Diese Methode wurde Anfang an zwei Tagen der Inkubation eingesetzt und ermöglichte das Überleben durch ausgereifte embryonalen Alters.

Watch this Scientific Journal Video about Windowing Chicken Eggs for Developmental Studies at JoVE.com

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Windowing Chicken Eggs for Developmental Studies

Die leichte Zugänglichkeit des Embryos ist für Experimente erlaubt Zellanlagen verschiedene Möglichkeiten, einschließlich Küken Wachtel Chimären und Schwerpunkte Farbstoffmarkierung Karte. In diesem Artikel zeigen wir ein Ei Herstellungsmethode, die für längere Überlebenszeiten optimiert wurde.

Windowing Chicken Eggs für Developmental Studies

The study of development has been greatly aided by the use of the chick embryo as an experimental model.  The ease of accessibility of the embryo has ...

windowing-chicken-eggs-for-developmental-studies

Research

JoVE Journal

Biology

27.8K Aufrufe.  University of California, Irvine (UCI). Die leichte Zugänglichkeit des Embryos ist für Experimente erlaubt Zellanlagen verschiedene Möglichkeiten, einschließlich Küken Wachtel Chimären und Schwerpunkte Farbstoffmarkierung Karte. In diesem Artikel zeigen wir ein Ei Herstellungsmethode, die für längere Überlebenszeiten optimiert wurde.

Serie: Windowing Chicken Eggs for Developmental Studies

Interview: Glycolipid Antigen Presentation by CD1d and the Therapeutic Potential of NKT cell Activation

Natural Killer T cells (NKT) are critical determinants of the immune response to cancer, regulation of autioimmune disease, clearance of infectious agents, and the development of artheriosclerotic plaques.   In this interview, Mitch Kronenberg discusses his laboratory's efforts to understand the mechanism through which NKT cells are activated by glycolipid antigens.  Central to these studies is CD1d - the antigen presenting molecule that presents glycolipids to NKT cells.  The advent of CD1d tetramer technology, a technique developed by the Kronenberg lab, is critical for the sorting and identification of subsets of specific glycolipid-reactive T cells.  Mitch explains how glycolipid agonists are being used as therapeutic agents to activate NKT cells in cancer patients and how CD1d tetramers can be used to assess the state of the NKT cell population in vivo following glycolipid agonist therapy.  Current status of ongoing clinical trials using these agonists are discussed as well as Mitch's prediction for areas in the field of immunology that will have emerging importance in the near future.

Natural Killer T cells (NKT) are critical determinants of the immune response to cancer, regulation of autioimmunity, clearance of infection, and the development of artheriosclerotic plaques. In this interview, Mitch Kronenberg discusses his laboratory's efforts to understand the mechanism through which NKT cells are activated by glycolipid antigens.

Interview: Glycolipid Antigen-Präsentation durch CD1d und das therapeutische Potenzial von NKT Zellen-Aktivierung

Natural Killer T cells (NKT) are critical determinants of the immune response to cancer, regulation of autioimmune disease, clearance of infectious ...

Forschung

Biologie

Interview: Protein Folding and Studies of Neurodegenerative Diseases

In this interview, Dr. Lindquist describes relationships between protein folding, prion diseases and neurodegenerative disorders. The problem of the protein folding is at the core of the modern biology. In addition to their traditional biochemical functions, proteins can mediate transfer of biological information and therefore can be considered a genetic material. This recently discovered function of proteins has important implications for studies of human disorders. Dr. Lindquist also describes current experimental approaches to investigate the mechanism of neurodegenerative diseases based on genetic studies in model organisms.

In this interview, Dr. Lindquist describes relationships between protein folding, prion diseases and neurodegenerative disorders. The problem of the protein folding is at the core of the modern biology. In addition to their traditional biochemical functions, proteins can mediate transfer of biological information and therefore can be considered a genetic material. This recently discovered function of proteins has important implications for studies of human disorders. Dr. Lindquist also describes current experimental approaches to investigate the mechanism of neurodegenerative diseases based on genetic studies in model organisms.

Interview: Proteinfaltung und Studien für Neurodegenerative Erkrankungen

In this interview, Dr. Lindquist describes relationships between protein folding, prion diseases and neurodegenerative disorders. The problem of the ...

Obtaining Eggs from Xenopus laevis Females

The eggs of Xenopus laevis intact, lysed, and/or fractionated are useful for a wide variety of experiments. This protocol shows how to induce egg laying, collect and dejelly the eggs, and sort the eggs to remove any damaged eggs.

The eggs of Xenopus laevis intact, lysed, and/or fractionated are useful for a wide variety of experiments. This protocol shows how to induce egg laying, collect and dejelly the eggs, and sort the eggs to remove any damaged eggs.

Beziehen Eier von Xenopus laevis Weibchen

The eggs of Xenopus laevis intact, lysed, and/or fractionated are useful for a wide variety of experiments. This protocol shows how to induce egg laying, ...

Xenotransplantation of Human Stem Cells into the Chicken Embryo

The chicken embryo is a classical animal model for studying normal embryonic and fetal development and for xenotransplantation experiments to study the behavior of cells in a standardized in vivo environment. The main advantages of the chicken embryo include low cost, high accessibility, ease of surgical manipulation and lack of a fully developed immune system. Xenotransplantation into chicken embryos can provide valuable information about cell proliferation, differentiation and behavior, the responses of cells to signals in defined embryonic tissue niches, and tumorigenic potential. Transplanting cells into chicken embryos can also be a step towards transplantation experiments in other animal models. Recently the chicken embryo has been used to evaluate the neurogenic potential of human stem and progenitor cells following implantation into neural anlage1-6. In this video we document the entire procedure for transplanting human stem cells into the developing central nervous system of the chicken embryo. The procedure starts with incubation of fertilized eggs until embryos of the desired age have developed. The eggshell is then opened, and the embryo contrasted by injecting dye between the embryo and the yolk. Small lesions are made in the neural tube using microsurgery, creating a regenerative site for cell deposition that promotes subsequent integration into the host tissue. We demonstrate injections of human stem cells into such lesions made in the part of the neural tube that forms the hindbrain and the spinal cord, and into the lumen of the part of the neural tube that forms the brain. Systemic injections into extraembryonic veins and arteries are also demonstrated as an alternative way to deliver cells to vascularized tissues including the central nervous system. Finally we show how to remove the embryo from the egg after several days of further development and how to dissect the spinal cord free for subsequent physiological, histological or biochemical analyses.

In this paper we present a method for transplanting human stem cells into various regions of the central nervous system of the chicken embryo. This provides an in vivo model for assessing the proliferation and differentiation of various types of human stem cells in embryonic tissue environments.

Xenotransplantation von menschlichen Stammzellen in die Hühnerembryo

The chicken embryo is a classical animal model for studying normal embryonic and fetal development and for xenotransplantation experiments to study the ...

Mutagenesis and Functional Analysis of Ion Channels Heterologously Expressed in Mammalian Cells

We will demonstrate how to study the functional effects of introducing a point mutation in an ion channel. We study G protein-gated inwardly rectifying potassium (referred to as GIRK) channels, which are important for regulating the excitability of neurons. There are four different mammalian GIRK channel subunits (GIRK1-GIRK4) - we focus on GIRK2 because it forms a homotetramer. Stimulation of different types of G protein-coupled receptors (GPCRs), such as the muscarinic receptor (M2R), leads to activation of GIRK channels. Alcohol also directly activates GIRK channels. We will show how to mutate one amino acid by specifically changing one or more nucleotides in the cDNA for the GIRK channel. This mutated cDNA sequence will be amplified in bacteria, purified, and the presence of the point mutation will be confirmed by DNA sequencing. The cDNAs for the mutated and wild-type GIRK channels will be transfected into human embryonic kidney HEK293T cells cultured in vitro. Lastly, whole-cell patch-clamp electrophysiology will be used to study the macroscopic potassium currents through the ectopically expressed wild-type or mutated GIRK channels. In this experiment, we will examine the effect of a L257W mutation in GIRK2 channels on M2R-dependent and alcohol-dependent activation.

We will demonstrate how to study the effect of a single point mutation on the function of an ion channel.

Mutagenese und funktionale Analyse von Ionenkanälen heterolog in Säugerzellen exprimierten

We will demonstrate how to study the functional effects of introducing a point mutation in an ion channel. We study G protein-gated inwardly rectifying ...

Gene Transfer into Older Chicken Embryos by ex ovo Electroporation

The chicken embryo provides an excellent model system for studying gene function and regulation during embryonic development. In ovo electroporation is a powerful method to over-express exogenous genes or down-regulate endogenous genes in vivo in chicken embryos1. Different structures such as DNA plasmids encoding genes2-4, small interfering RNA (siRNA) plasmids5, small synthetic RNA oligos6, and morpholino antisense oligonucleotides7 can be easily transfected into chicken embryos by electroporation. However, the application of in ovo electroporation is limited to embryos at early incubation stages (younger than stage HH20 - according to Hamburg and Hamilton)8 and there are some disadvantages for its application in embryos at later stages (older than stage HH22 - approximately 3.5 days of development). For example, the vitelline membrane at later stages is usually stuck to the shall membrane and opening a window in the shell causes rupture of the vessels, resulting in death of the embryos; older embryos are covered by vitelline and allantoic vessels, where it is difficult to access and manipulate the embryos; older embryos move vigorously and is difficult to control the orientation through a relatively small window in the shell.
In this protocol we demonstrate an ex ovo electroporation method for gene transfer into chicken embryos at late stages (older than stage HH22). For ex ovo electroporation, embryos are cultured in Petri dishes9 and the vitelline and allantoic vessels are widely spread. Under these conditions, the older chicken embryos are easily accessed and manipulated. Therefore, this method overcomes the disadvantages of in ovo electroporation applied to the older chicken embryos. Using this method, plasmids can be easily transfected into different parts of the older chicken embryos10-12.

Gene Transfer into Older Chicken Embryos by ex ovo Electroporation

A method of gene transfer into chicken embryos at later incubation stages (older than Hamburger and Hamilton stage (HH) 22) is described. This method overcomes disadvantages of in ovo electroporation applied to older chicken embryos and is a useful technique to study gene function and regulation at older developmental stages.

Gentransfer in Hühnerembryonen durch Ältere<em&gt; Ex ovo</em&gt; Die Elektroporation

The chicken embryo provides an  excellent model system for studying gene function and regulation during  embryonic development. In ovo electroporation is ...

Separation of Spermatogenic Cell Types Using STA-PUT Velocity Sedimentation

Mammalian spermatogenesis is a complex differentiation process that occurs in several stages in the seminiferous tubules of the testes. Currently, there is no reliable cell culture system allowing for spermatogenic differentiation in vitro, and most biological studies of spermatogenic cells require tissue harvest from animal models like the mouse and rat. Because the testis contains numerous cell types - both non-spermatogenic (Leydig, Sertoli, myeloid, and epithelial cells) and spermatogenic (spermatogonia, spermatocytes, round spermatids, condensing spermatids and spermatozoa) - studies of the biological mechanisms involved in spermatogenesis require the isolation and enrichment of these different cell types. The STA-PUT method allows for the separation of a heterogeneous population of cells - in this case, from the testes - through a linear BSA gradient. Individual cell types sediment with different sedimentation velocity according to cell size, and fractions enriched for different cell types can be collected and utilized in further analyses. While the STA-PUT method does not result in highly pure fractions of cell types, e.g. as can be obtained with certain cell sorting methods, it does provide a much higher yield of total cells in each fraction (~1 x 108 cells/spermatogenic cell type from a starting population of 7-8 x 108 cells). This high yield method requires only specialized glassware and can be performed in any cold room or large refrigerator, making it an ideal method for labs that have limited access to specialized equipment like a fluorescence activated cell sorter (FACS) or elutriator.

The STA-PUT method allows for the separation of different populations of spermatogenic cells based on size and density.

Die Trennung der Spermatogenese Zelltypen Mit STA-PUT Velocity Sedimentation

Mammalian spermatogenesis is a complex  differentiation process that occurs in several stages in the seminiferous  tubules of the testes. Currently, there ...

A Guide to Modern Quantitative Fluorescent Western Blotting with Troubleshooting Strategies

The late 1970s saw the first publicly reported use of the western blot, a technique for assessing the presence and relative abundance of specific proteins within complex biological samples. Since then, western blotting methodology has become a common component of the molecular biologists experimental repertoire. A cursory search of PubMed using the term &#8220;western blot&#8221; suggests that in excess of two hundred and twenty thousand published manuscripts have made use of this technique by the year 2014. Importantly, the last ten years have seen technical imaging advances coupled with the development of sensitive fluorescent labels which have improved sensitivity and yielded even greater ranges of linear detection. The result is a now truly Quantifiable Fluorescence based Western Blot (QFWB) that allows biologists to carry out comparative expression analysis with greater sensitivity and accuracy than ever before. Many &#8220;optimized&#8221; western blotting methodologies exist and are utilized in different laboratories. These often prove difficult to implement due to the requirement of subtle but undocumented procedural amendments. This protocol provides a comprehensive description of an established and robust QFWB method, complete with troubleshooting strategies.

The advancement of western blotting using fluorescence has allowed detection of subtle changes in protein expression enabling quantitative analyses. Here we describe a robust methodology for detection of a range of proteins across a variety of species and tissue types. A strategy to overcome common technical problems is also provided.

A Guide to Modern Quantitative Fluoreszenz Western Blot mit Strategien zur Fehlersuche

The late 1970s saw the first publicly reported use of the western blot, a technique for assessing the presence and relative abundance of specific proteins ...

Direct Protein Delivery to Mammalian Cells Using Cell-permeable Cys2-His2 Zinc-finger Domains

Due to their modularity and ability to be reprogrammed to recognize a wide range of DNA sequences, Cys2-His2 zinc-finger DNA-binding domains have emerged as useful tools for targeted genome engineering. Like many other DNA-binding proteins, zinc-fingers also possess the innate ability to cross cell membranes. We recently demonstrated that this intrinsic cell-permeability could be leveraged for intracellular protein delivery. Genetic fusion of zinc-finger motifs leads to efficient transport of protein and enzyme cargo into a broad range of mammalian cell types. Unlike other protein transduction technologies, delivery via zinc-finger domains does not inhibit enzyme activity and leads to high levels of cytosolic delivery. Here a detailed step-by-step protocol is presented for the implementation of zinc-finger technology for protein delivery into mammalian cells. Key steps for achieving high levels of intracellular zinc-finger-mediated delivery are highlighted and strategies for maximizing the performance of this system are discussed.

Direct Protein Delivery to Mammalian Cells Using Cell-permeable Cys2-His2 Zinc-finger Domains

Zinc-finger domains are intrinsically cell-permeable and capable of mediating protein delivery into a broad range of mammalian cell types. Here, a detailed step-by-step protocol for implementing zinc-finger technology for intracellular protein delivery is presented.

Direkter Protein Lieferung Säugerzellen mit Zellpermeable Cys<sub&gt; 2</sub&gt; -His<sub&gt; 2</sub&gt; Zink-Finger-Domains

Due to their modularity and ability to be reprogrammed to recognize a wide range of DNA sequences, Cys2-His2 zinc-finger DNA-binding domains have emerged ...

Tracking and Quantifying Developmental Processes in C. elegans Using Open-source Tools

Quantitatively capturing developmental processes is crucial to derive mechanistic models and key to identify and describe mutant phenotypes. Here protocols are presented for preparing embryos and adult C. elegans animals for short- and long-term time-lapse microscopy and methods for tracking and quantification of developmental processes. The methods presented are all based on C. elegans strains available from the Caenorhabditis Genetics Center and on open-source software that can be easily implemented in any laboratory independently of the microscopy system used. A reconstruction of a 3D cell-shape model using the modelling software IMOD, manual tracking of fluorescently-labeled subcellular structures using the multi-purpose image analysis program Endrov, and an analysis of cortical contractile flow using PIVlab (Time-Resolved Digital Particle Image Velocimetry Tool for MATLAB) are shown. It is discussed how these methods can also be deployed to quantitatively capture other developmental processes in different models, e.g., cell tracking and lineage tracing, tracking of vesicle flow.

Tracking and Quantifying Developmental Processes in C. elegans Using Open-source Tools

Here it is shown how to track and quantify developmental processes in C. elegans. The methods presented are based on open-source tools that can be easily implemented. It is demonstrated how to reconstruct 3D cell-shape models, how to manually track subcellular structures, and how to analyze cortical contractile flow.