{"id":22879,"date":"2020-04-20T17:00:42","date_gmt":"2020-04-20T15:00:42","guid":{"rendered":"https:\/\/www.embl.org\/news\/?p=22879"},"modified":"2024-03-22T11:50:15","modified_gmt":"2024-03-22T10:50:15","slug":"virtual-embryo","status":"publish","type":"post","link":"https:\/\/www.embl.org\/news\/science\/virtual-embryo\/","title":{"rendered":"Unprecedented single-cell studies in virtual embryo"},"content":{"rendered":"\n<p>\u201cHow are the many different cell types in the body generated during embryonic development from an egg, which is only a single cell? This is one of the most fundamental questions in biology,\u201d explains <a href=\"https:\/\/www.embl.de\/research\/units\/cbb\/neveu\/index.html\">Dr. Pierre Neveu, group leader at EMBL Heidelberg<\/a>, setting out the rationale behind the research he and his group have performed in collaboration with the <a href=\"https:\/\/www.embl.de\/research\/units\/cbb\/hufnagel\/\">group of Dr. Lars Hufnagel<\/a>.<\/p>\n\n\n\n<p>While answering this question is essential to understand how multicellular organisms form, studying the developmental mechanisms driving this cellular diversification at the single-cell, genome-wide, and whole-embryo level is a challenging task. \u201cSo far we have lacked a comprehensive understanding of the gene expression programmes. These instruct individual cells to form the different cell types necessary to build an embryo,\u201d explains Dr. Hanna Sladitschek, first author of the study \u2013 a former postdoc at EMBL Heidelberg and now at the <a href=\"https:\/\/www.medicinadimed.unipd.it\/\">University of Padua School of Medicine<\/a>. Despite recent advances in the field, a complete representation of embryonic development, accounting for every single cell in space and time, has not been achieved until now in a chordate.<\/p>\n\n\n\n<p>The EMBL researchers were able to solve this problem by <a href=\"http:\/\/digitalembryo.org\/\">constructing a \u2018virtual embryo<\/a>\u2019 of Phallusia mammillata \u2013 a type of marine organism known as a sea squirt, which is found in the Mediterranean Sea and the Atlantic Ocean. This species was picked as a model system because it is related to vertebrates and each individual has the same number of cells, making it easier to combine observations from many specimens.<\/p>\n\n\n\n<p>This virtual embryo describes the gene expression and morphology of every single cell of an embryo at every cell division in the early stages of development \u2013 showing the evolution from a single cell to the 64-cell stage. After these first seven cell divisions, the fates of the future nerve cord, brain, germ cells, blood cell precursors, and muscles are already specified. This makes it the first full description of early development accounting for every single cell in an embryo. It describes both gene expression \u2013 how a cell\u2019s genetic information is expressed and appears \u2013 and spatial position. To generate this comprehensive atlas, the researchers combined high-resolution single-cell transcriptomics and light-sheet imaging.<\/p>\n\n\n\n<figure class=\"vf-figure wp-block-image size-full\"><img loading=\"lazy\" decoding=\"async\" width=\"512\" height=\"256\" class=\"vf-figure__image\" src=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2020\/04\/Movie.gif\" alt=\"\" class=\"wp-image-22893\"\/><figcaption class=\"vf-figure__caption\">Animation showing a 4D visualisation of single-cell expression patterns. Credit: Hanna Sladitschek\/EMBL<\/figcaption><\/figure>\n\n\n\n<p>\u201cOur model shows that it is possible to know the location and history of an individual cell by analysing its gene expression,\u201d says Neveu. \u201cIn addition, we find that while the regulation of gene expression is very precise within an embryo, differences in developmental timing explain the observed variation between individual embryos.\u201d<\/p>\n\n\n\n<p>Gene expression is generally thought to be a noisy process \u2013 in other words, one that shows an element of randomness \u2013 yet the new results show that it is remarkably reproducible and coordinated across cells in a given embryo. \u201cHow is such coordination achieved? How does the embryo coordinate between the two mirror-symmetric embryo halves?\u201d says Neveu, highlighting some of the new questions that the scientists would like to answer.<\/p>\n\n\n\n<p>\u201cOur studies represent a leap forward in the emerging field of developmental genomics,\u201d says Hufnagel. \u201cNow that we have worked with an organism with a small number of cells, it will of course be very interesting to extend our work to mammals, which have many more cells!\u201d<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Researchers from EMBL Heidelberg have created a complete description of early embryo development, accounting for every single cell in the embryo.<\/p>\n","protected":false},"author":71,"featured_media":22927,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"footnotes":""},"categories":[2,17591],"tags":[665,563,1748],"embl_taxonomy":[5138],"class_list":["post-22879","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-science","category-science-technology","tag-embryo","tag-embryonic-development","tag-press-release","embl_taxonomy-cell-biology-and-biophysics"],"acf":{"featured":true,"article_intro":"<p>Researchers from EMBL Heidelberg and from the University of Padua School of Medicine have created the first complete description of early embryo development, accounting for every single cell in the embryo. This \u2018virtual embryo\u2019 will help to answer how the different cell types in an organism can originate from a single egg cell. The results are published on 20 April in the journal Cell.<\/p>\n","article_sources":[{"source_description":"<p>Hanna L. Sladitschek et al. MorphoSeq: Full single-cell transcriptome dynamics from zygote to gastrulation in a chordate. Cell, published on 20 April 2020<br \/>\nDOI: https:\/\/doi.org\/10.1016\/j.cell.2020.03.055<\/p>\n","source_link_url":"https:\/\/doi.org\/10.1016\/j.cell.2020.03.055"}],"related_links":[{"link_description":"Neveu group","link_url":"https:\/\/www.embl.de\/research\/units\/cbb\/neveu\/index.html"},{"link_description":"University of Padua School of Medicine ","link_url":"http:\/\/www.medicinamolecolare.unipd.it\/"},{"link_description":"Gene expression atlas of the Phallusia mammillata early embryo","link_url":"http:\/\/digitalembryo.org\/"}],"color":"#007B53","vf_locked":false,"show_featured_image":false,"youtube_url":"","mp4_url":"","video_caption":"","in_this_article":false,"translations":false,"press_contact":"EMBL Generic"},"embl_taxonomy_terms":[{"uuid":"a:3:{i:0;s:36:\"302cfdf7-365b-462a-be65-82c7b783ebf7\";i:1;s:36:\"7ca3ce91-dc32-47ea-8d4b-7a53c3a3a9fd\";i:2;s:36:\"64999cc4-9a7c-4fea-8339-0e2acc990e08\";}","parents":[],"name":["Cell biology and biophysics"],"slug":"cell-biology-and-biophysics","description":"What &gt; Research Units &gt; Cell biology and biophysics"}],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v26.2 - https:\/\/yoast.com\/wordpress\/plugins\/seo\/ -->\n<title>Unprecedented single-cell studies in virtual embryo | EMBL<\/title>\n<meta name=\"description\" content=\"Researchers from EMBL Heidelberg have created the first complete description of early embryo development accounting for every single cell in it.\" \/>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.embl.org\/news\/science\/virtual-embryo\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Unprecedented single-cell studies in virtual embryo | EMBL\" \/>\n<meta property=\"og:description\" content=\"Researchers from EMBL Heidelberg have created the first complete description of early embryo development accounting for every single cell in it.\" \/>\n<meta property=\"og:url\" content=\"https:\/\/www.embl.org\/news\/science\/virtual-embryo\/\" \/>\n<meta property=\"og:site_name\" content=\"EMBL\" \/>\n<meta property=\"article:publisher\" content=\"https:\/\/www.facebook.com\/embl.org\/\" \/>\n<meta property=\"article:published_time\" content=\"2020-04-20T15:00:42+00:00\" \/>\n<meta property=\"article:modified_time\" content=\"2024-03-22T10:50:15+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2020\/04\/cells-in-colour-copy.jpg\" \/>\n\t<meta property=\"og:image:width\" content=\"1000\" \/>\n\t<meta property=\"og:image:height\" content=\"600\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/jpeg\" \/>\n<meta name=\"author\" content=\"Mathias J\u00e4ger\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:creator\" content=\"@embl\" \/>\n<meta name=\"twitter:site\" content=\"@embl\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"Mathias J\u00e4ger\" \/>\n\t<meta name=\"twitter:label2\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"3 minutes\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"NewsArticle\",\"@id\":\"https:\/\/www.embl.org\/news\/science\/virtual-embryo\/#article\",\"isPartOf\":{\"@id\":\"https:\/\/www.embl.org\/news\/science\/virtual-embryo\/\"},\"author\":{\"name\":\"Mathias J\u00e4ger\",\"@id\":\"https:\/\/www.embl.org\/news\/#\/schema\/person\/63a0ca26daa6707834de41dfddfc6a42\"},\"headline\":\"Unprecedented single-cell studies in virtual embryo\",\"datePublished\":\"2020-04-20T15:00:42+00:00\",\"dateModified\":\"2024-03-22T10:50:15+00:00\",\"mainEntityOfPage\":{\"@id\":\"https:\/\/www.embl.org\/news\/science\/virtual-embryo\/\"},\"wordCount\":546,\"publisher\":{\"@id\":\"https:\/\/www.embl.org\/news\/#organization\"},\"image\":{\"@id\":\"https:\/\/www.embl.org\/news\/science\/virtual-embryo\/#primaryimage\"},\"thumbnailUrl\":\"https:\/\/www.embl.org\/news\/wp-content\/uploads\/2020\/04\/cells-in-colour-copy.jpg\",\"keywords\":[\"embryo\",\"embryonic development\",\"press release\"],\"articleSection\":[\"Science\",\"Science &amp; 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