{"id":4225,"date":"2019-09-24T12:01:25","date_gmt":"2019-09-24T10:01:25","guid":{"rendered":"https:\/\/sfbd.fr\/2019\/09\/24\/funded-phd-project-in-montpellier-optogenetic-control-of-fgf-and-eph-signaling-pathways-during-ascidian-embryogenesis\/"},"modified":"2019-12-24T10:07:05","modified_gmt":"2019-12-24T09:07:05","slug":"funded-phd-project-in-montpellier-optogenetic-control-of-fgf-and-eph-signaling-pathways-during-ascidian-embryogenesis","status":"publish","type":"post","link":"https:\/\/sfbd.fr\/en\/2019\/09\/24\/funded-phd-project-in-montpellier-optogenetic-control-of-fgf-and-eph-signaling-pathways-during-ascidian-embryogenesis\/","title":{"rendered":"Funded PhD project in Montpellier: optogenetic control of FGF and Eph signaling pathways during ascidian embryogenesis"},"content":{"rendered":"\n<p><p><strong>Context:\u00a0<\/strong>Cell-cell communication plays a central role in the coordination of morphogenesis and fate specification. Most components of the major signalling pathways have been identified, but we lack a quantitative understanding, in time and space, of the dynamics of signal transduction from the membrane to the nucleus. The CRBM <a rel=\"noreferrer noopener\" aria-label=\"Tunicate embryology Research Team  (s\u2019ouvre dans un nouvel onglet)\" href=\"http:\/\/www.crbm.cnrs.fr\/en\/team\/lemaire\/\" target=\"_blank\">Tunicate embryology Research Team <\/a>uses molecular and 3D + time live imaging approaches to study this process during ascidian embryogenesis ( see a GIF of our work featured in the <a href=\"https:\/\/thenode.biologists.com\/wp-content\/uploads\/2018\/12\/7-Lemaire-Ascidian.gif\">Xmas 2018 GIFs<\/a> of The Node).<\/p><\/p>\n\n\n\n<p><strong>The PhD project<\/strong><\/p>\n\n\n\n<p>One of our major projects combines experimental and mathematical modelling approaches to produce a quantitative model of the information flow between membrane and nucleus for one of the major transduction pathways during embryonic development.<\/p>\n\n\n\n<p>We are looking for a PhD student to develop an optogenetic control strategy for the FGF\/SOS\/Ras\/ERK and Eph\/RasGAP\/Ras signaling pathways. This approach will open the way to a variety of questions including: how long does signal transduction take from the membrane to the nucleus? during which phase (s) of its cell cycle is the cell competent to respond to receptor activation? what is the minimum activation time of the receptor needed to produce a stable nuclear response? what is the function linking the activation level of the receptor and that of ERK? The experimental results will be integrated into a mathematical model, in collaboration with theoreticians.<\/p>\n\n\n\n<p><strong>Activities:<\/strong><\/p>\n\n\n\n<p>This project is mostly experimental. It will give the selected student a solid expertise in embryology (microinjections, <em>in vitro<\/em> fertilization\u2026), signal transduction and advanced light-sheet imaging. In addition, the PhD student will frequently interact with the <a href=\"https:\/\/www.inria.fr\/en\/teams\/mosaic\" target=\"_blank\" rel=\"noreferrer noopener\" aria-label=\"MOSAIC (s\u2019ouvre dans un nouvel onglet)\">MOSAIC<\/a>&nbsp; and <a href=\"https:\/\/www.lirmm.fr\/icar\" target=\"_blank\" rel=\"noreferrer noopener\" aria-label=\"ICAR (s\u2019ouvre dans un nouvel onglet)\">ICAR<\/a> teams of computer scientists, in order to integrate experimental and modelling results.&nbsp; Participation in public outreach actions (Science festivals, My Thesis in 180 seconds, &#8230;) will be encouraged.<\/p>\n\n\n\n<p><strong>Necessary skills<\/strong><\/p>\n\n\n\n<ul><li>Master training in cell biology or development, with a strong interest for embryonic development<\/li><li>An interest in mathematical modelling.<\/li><li>A first experience in molecular cloning and confocal\/light-sheet microscopy of live samples would be appreciated.<\/li><li>An experience in RNA or proteins microinjection into oocytes would be a plus but is not required.<\/li><li>No Knowledge of French required. Working knowledge in written \/ spoken English needed.<\/li><\/ul>\n\n\n\n<p><strong>Application process<\/strong><\/p>\n\n\n\n<p>This project can be joined directly as a PhD student in fall\/winter 2019, or as a Master intern in winter 2019, the PhD only starting in fall 2020. Funding is for 3 years.<\/p>\n\n\n\n<p>Informal enquiries can be made to Patrick Lemaire (<a href=\"mailto:patrick.lemaire@crbm.cnrs.fr\">patrick.lemaire@crbm.cnrs.fr<\/a>). Formal applications are through the <a href=\"https:\/\/emploi.cnrs.fr\/Offres\/Doctorant\/UMR5237-PATLEM1-003\/Default.aspx?lang=EN\" target=\"_blank\" rel=\"noreferrer noopener\" aria-label=\"CNRS employment portal (s\u2019ouvre dans un nouvel onglet)\">CNRS employment portal<\/a><\/p>\n\n\n\n<p><strong>About the host institute<\/strong><\/p>\n\n\n\n<p class=\"has-text-align-left\">The host research team is located at a major Cell Biology institute in Southern France, the <a href=\"http:\/\/www.crbm.cnrs.fr\" target=\"_blank\" rel=\"noreferrer noopener\" aria-label=\"CRBM (s\u2019ouvre dans un nouvel onglet)\">CRBM<\/a> (CNRS \/U. Montpellier). All seminars and meetings are in English. The institute has a very well-equipped <a href=\"https:\/\/www.mri.cnrs.fr\/en\/optical-imaging\/our-facilities\/mri-crbm.html\" target=\"_blank\" rel=\"noreferrer noopener\" aria-label=\"core Imaging  facility (s\u2019ouvre dans un nouvel onglet)\">core Imaging facility<\/a>, hosting a Luxendo MuViSPIM microscope on which lightsheet microscopy experiments will be carried out.<\/p>\n\n\n\n<p><strong>References linked to the project<\/strong><\/p>\n\n\n\n<p>Leggio, B; Laussu J; Carlier, A; Godin, C; Lemaire, P and Faure, E (2019) MorphoNet: An interactive online morphological browser to explore complex multi-scale data. <a href=\"https:\/\/www.nature.com\/articles\/s41467-019-10668-1\"><strong>Nat Commun.<\/strong> 10(1):2812<\/a><\/p>\n\n\n\n<p>L. Guignard*, U.-M. Fiuza*, B. Leggio, E. Faure, J. Laussu, L. Hufnagel, G. Malandain, C. Godin#, P. Lemaire# (2017) Contact-dependent cell communications drive morphological invariance during ascidian embryogenesis. <a href=\"https:\/\/www.biorxiv.org\/content\/early\/2017\/12\/24\/238741\"><strong>bioRxiv <\/strong>238741<\/a><\/p>\n\n\n\n<p>U-M Fiuza, T. Negishi, A. Rouan, H. Yasuo, P. Lemaire<sup>&nbsp; <\/sup>Nodal and Eph signalling relay drives the transition between apical constriction and apico-basal shortening during ascidian endoderm invagination (2018) <a href=\"https:\/\/www.biorxiv.org\/content\/early\/2018\/09\/15\/418988\"><strong>bioRxiv<\/strong> 418988<\/a><\/p>\n\n\n\n<p>Biasuz, K, Leggio, B, Faure, E, and Lemaire, P. (2018) The \u201ccomputable egg\u201d: Myth or useful concept? <a href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S245231001830009X\"><strong>Curr. Op. System Biology<\/strong>, 11:91-97<\/a><\/p>\n\n\n\n<p>Lemaire P. (2011) Evolutionary crossroads in developmental biology: the tunicates, <a href=\"https:\/\/dev.biologists.org\/content\/138\/11\/2143.long\"><strong>Development,<\/strong> 138(11):2143-52<\/a>.<\/p>\n\n\n\n<p>Tassy, O., Daian, F., Hudson, C., Bertrand, V., Lemaire, P. (2006) A quantitative approach to the study of cell shapes and interactions during early chordate embryogenesis. <strong>Current Biology<\/strong> 16:345-58<\/p>\n","protected":false},"excerpt":{"rendered":"<p>A 3-year PhD studentship is available to develop optogenetic control strategies for two major signalling pathways controlling fate specification in early ascidian embryos.<\/p>\n","protected":false},"author":4,"featured_media":3459,"comment_status":"closed","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[93],"tags":[95],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v18.2 - https:\/\/yoast.com\/wordpress\/plugins\/seo\/ -->\n<title>Funded PhD project in Montpellier: optogenetic control of FGF and Eph signaling pathways during ascidian embryogenesis - SFBD<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/sfbd.fr\/en\/2019\/09\/24\/funded-phd-project-in-montpellier-optogenetic-control-of-fgf-and-eph-signaling-pathways-during-ascidian-embryogenesis\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Funded PhD project in Montpellier: optogenetic control of FGF and Eph signaling pathways during ascidian embryogenesis - 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Our overall goal is to bridge the molecular and cellular scales of analysis in order to provide an integrated view of a developmental program in time and space and to study its evolution. We first made use of the stereotyped and highly conserved cell lineage of ascidian embryos to decipher in detail their early transcriptional developmental program (Cell, 2003; Development 2006, 2007; Current Biology 2010). To understand how the lineage and morphogenetic program could be so well conserved in spite of extensive genomic divergence between ascidian species, we studied the architecture of ascidian cis-regulatory sequences and showed that is was flexible and robust to extensive TF binding site turnover (Development, 2005; Current Biology 2010; bioRxiv 2016). Thanks to the transparency of ascidian embryos, we could image and quantitatively describe early ascidian morphogenesis with cellular resolution (Current Biology, 2006; Science, 2020), and use this description to provide a molecular and mechanical model for the invagination of the endoderm at the beginning of gastrulation (Current Biology, 2010; Development 2020). To efficiently integrate heterogeneous datasets ranging from gene expression data to quantitative geometric descriptions of cell and tissue morphologies, we developed an integrative model organism database (ANISEED, Genome Research, 2010, Nucleic Acid Research 2016, 2018), which is the main database in the tunicate field. Our current work focuses on the comparison of the transcriptional (Developmental Biology, 2019) and morphogenetic (Science 2020) programs of distantly related ascidians, whose genomes we recently sequenced and annotated.\",\"sameAs\":[\"https:\/\/www.crbm.cnrs.fr\/patrick-lemaire\/?lang=en\"],\"url\":\"https:\/\/sfbd.fr\/en\/author\/patricklemaire\/\"}]}<\/script>\n<!-- \/ Yoast SEO plugin. -->","yoast_head_json":{"title":"Funded PhD project in Montpellier: optogenetic control of FGF and Eph signaling pathways during ascidian embryogenesis - SFBD","robots":{"index":"index","follow":"follow","max-snippet":"max-snippet:-1","max-image-preview":"max-image-preview:large","max-video-preview":"max-video-preview:-1"},"canonical":"https:\/\/sfbd.fr\/en\/2019\/09\/24\/funded-phd-project-in-montpellier-optogenetic-control-of-fgf-and-eph-signaling-pathways-during-ascidian-embryogenesis\/","og_locale":"en_US","og_type":"article","og_title":"Funded PhD project in Montpellier: optogenetic control of FGF and Eph signaling pathways during ascidian embryogenesis - 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Our overall goal is to bridge the molecular and cellular scales of analysis in order to provide an integrated view of a developmental program in time and space and to study its evolution. We first made use of the stereotyped and highly conserved cell lineage of ascidian embryos to decipher in detail their early transcriptional developmental program (Cell, 2003; Development 2006, 2007; Current Biology 2010). To understand how the lineage and morphogenetic program could be so well conserved in spite of extensive genomic divergence between ascidian species, we studied the architecture of ascidian cis-regulatory sequences and showed that is was flexible and robust to extensive TF binding site turnover (Development, 2005; Current Biology 2010; bioRxiv 2016). Thanks to the transparency of ascidian embryos, we could image and quantitatively describe early ascidian morphogenesis with cellular resolution (Current Biology, 2006; Science, 2020), and use this description to provide a molecular and mechanical model for the invagination of the endoderm at the beginning of gastrulation (Current Biology, 2010; Development 2020). To efficiently integrate heterogeneous datasets ranging from gene expression data to quantitative geometric descriptions of cell and tissue morphologies, we developed an integrative model organism database (ANISEED, Genome Research, 2010, Nucleic Acid Research 2016, 2018), which is the main database in the tunicate field. Our current work focuses on the comparison of the transcriptional (Developmental Biology, 2019) and morphogenetic (Science 2020) programs of distantly related ascidians, whose genomes we recently sequenced and annotated.","sameAs":["https:\/\/www.crbm.cnrs.fr\/patrick-lemaire\/?lang=en"],"url":"https:\/\/sfbd.fr\/en\/author\/patricklemaire\/"}]}},"_links":{"self":[{"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/posts\/4225"}],"collection":[{"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/users\/4"}],"replies":[{"embeddable":true,"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/comments?post=4225"}],"version-history":[{"count":1,"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/posts\/4225\/revisions"}],"predecessor-version":[{"id":4226,"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/posts\/4225\/revisions\/4226"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/media\/3459"}],"wp:attachment":[{"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/media?parent=4225"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/categories?post=4225"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/sfbd.fr\/en\/wp-json\/wp\/v2\/tags?post=4225"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}