{"id":1363,"date":"2018-08-14T15:16:14","date_gmt":"2018-08-14T15:16:14","guid":{"rendered":"http:\/\/163.180.4.222\/lab\/?p=1363"},"modified":"2019-10-15T19:02:20","modified_gmt":"2019-10-15T10:02:20","slug":"crispr-barcodes-map-mammalian-development-in-exquisite-detail","status":"publish","type":"post","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=1363","title":{"rendered":"CRISPR \u2018barcodes\u2019 map mammalian development in exquisite detail"},"content":{"rendered":"<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<p>(<a href=\"https:\/\/www.nature.com\/articles\/d41586-018-05934-z?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29\">\uc6d0\ubb38<\/a>)<\/p>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<h6>Genome-editing technique enables researchers to trace lineage of cells in developing mice.<\/h6>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<div class=\"article__body serif cleared\">\n<figure class=\"figure\">\n<div class=\"embed intensity--high\">\n<div class=\"embed intensity--high\"><img decoding=\"async\" class=\"figure__image\" src=\"https:\/\/media.nature.com\/w800\/magazine-assets\/d41586-018-05934-z\/d41586-018-05934-z_16022194.jpg\" alt=\"Early mouse embryo at the blastocyst stage.\" \/><\/div>\n<\/div><figcaption>\n<p class=\"figure__caption sans-serif\"><span class=\"mr10\">Researchers have used gene-editing to track the cell-by-cell development of a mouse embryo.\u00a0<\/span>Credit: Agnieszka Jedrusik and Magdalena Zernicka-Goetz, Gurdon Institute.\u00a0<a href=\"https:\/\/creativecommons.org\/publicdomain\/zero\/1.0\" data-track=\"click\" data-label=\"https:\/\/creativecommons.org\/publicdomain\/zero\/1.0\" data-track-category=\"body text link\">CC0<\/a><\/p>\n<\/figcaption><\/figure>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<p>For the first time, scientists have wielded CRISPR to track a mammal\u2019s development from a single egg into an embryo with millions of cells. The technological feat brings biologists a step closer to\u00a0<a href=\"https:\/\/www.nature.com\/news\/the-trickiest-family-tree-in-biology-1.22240\" data-track=\"click\" data-label=\"https:\/\/www.nature.com\/news\/the-trickiest-family-tree-in-biology-1.22240\" data-track-category=\"body text link\">being able to trace the history of every one of the billions of cells<\/a>\u00a0in complex animals such as mice \u2014 offering an unprecedented window into development and disease. The work was published<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-018-05934-z?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR1\">1<\/a><\/sup>\u00a0on 8 August in\u00a0<i>Science.<\/i><\/p>\n<p>\u201cThis has been the holy grail for a while,\u201d says Aaron McKenna, a geneticist at the University of Washington in Seattle, who was part of a previous effort that used CRISPR to study zebrafish development<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-018-05934-z?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR2\">2<\/a><\/sup>. \u201cIt was great to see this paper come out.\u201d<\/p>\n<p>Over the years, biologists have used a variety of methods to track an organism\u2019s development cell by cell, such as labelling them with dyes. But these tools are unable to follow cells through many divisions, let alone over an organism\u2019s entire life. In the past two years, however, CRISPR\u2013Cas9 genome editing has emerged as a potent tool for monitoring development in exquisite detail.<\/p>\n<p>In zebrafish, for example, researchers have engineered special genetic sequences into the genome that act like recording tape<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-018-05934-z?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR2\">2<\/a><\/sup>. CRISPR leaves its mark on these sequences by adding or deleting DNA, giving each cell a unique genetic barcode. These edits accumulate as the cells divide. By reading off the barcodes, scientists can reconstruct a cellular family tree, or lineage, showing how cells relate to each other.<\/p>\n<p>&nbsp;<\/p>\n<h5>Level up<\/h5>\n<p>Mammals such as mice have vastly more cells than do zebrafish. To track their development using CRISPR, a team led by Reza Kalhor, a molecular biologist at Harvard Medical School in Boston, Massachusetts, bred a line of mice that contained 60 of these barcoding sites scattered throughout their genomes \u2014 enough, in theory, to give a unique tag to each of an adult mouse\u2019s 10 billion cells.<\/p>\n<p>When the researchers looked at the pattern of mutations that accumulated in the barcodes of 12-day-old mouse embryos, they were able to trace the histories of cells in each embryo\u2019s primitive heart and limbs, as well as its placenta.<\/p>\n<p>The team also showed how barcoding can help to answer open questions about a mammal\u2019s development. By examining brain tissue from embryos, they found that the barcode patterns were more similar between equivalent regions of the left and right side of the brain \u2014 indicating they had formed from recent cell divisions \u2014 than between cells from different regions of the same side. This pattern suggests that the axis that runs from front to back of the brain is formed before the one that runs from left to right \u2014 a timeline that neuroscientists have struggled to pin down with existing tools.<\/p>\n<p>Jan Philipp Junker, a systems biologist at the Max Delbr\u00fcck Center for Molecular Medicine in Berlin, says the study is an \u201cimportant development\u201d. He adds, however, that the way in which the authors have read out the barcodes \u2014 by looking at a collection of cells in a tissue sample rather than examining individual cells \u2014 currently prevents them from tracing out the cells\u2019 lineage in fine detail, with the entire history of divisions plotted out. Kalhor says that the group is keen to explore methods for quickly reading out barcodes from individual cells in the future.<\/p>\n<p>Tracing cell lineages in mice could be a useful tool for understanding the cellular basis for human disease, says McKenna. Cancer researchers, for example, could breed the barcode strain with their own mouse models of cancer to examine in detail how the disease disrupts cell division. \u201cI think we\u2019re a little way from that,\u201d he says, \u201cbut this is a big step forward.\u201d<\/p>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<\/div>\n<div class=\"emphasis\">doi: 10.1038\/d41586-018-05934-z<\/div>\n<p>&nbsp;<\/p>\n","protected":false},"excerpt":{"rendered":"<p>&nbsp; &nbsp; (\uc6d0\ubb38) &nbsp; &nbsp; Genome-editing technique enables researchers to trace lineage of cells in developing mice. &nbsp; &nbsp; Researchers have used gene-editing to track<a href=\"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=1363\" class=\"more-link\">(more&#8230;)<\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_monsterinsights_skip_tracking":false,"_monsterinsights_sitenote_active":false,"_monsterinsights_sitenote_note":"","_monsterinsights_sitenote_category":0,"jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"footnotes":"","jetpack_publicize_message":"","jetpack_publicize_feature_enabled":true,"jetpack_social_post_already_shared":true,"jetpack_social_options":{"image_generator_settings":{"template":"highway","default_image_id":0,"font":"","enabled":false},"version":2}},"categories":[33,29,30],"tags":[7,3,4],"class_list":["post-1363","post","type-post","status-publish","format-standard","hentry","category-do-biology","category-lets-do-science","category-recent-science-news","tag-do-biology","tag-lets-do-science","tag-recent-science-news"],"aioseo_notices":[],"jetpack_publicize_connections":[],"jetpack_featured_media_url":"","jetpack-related-posts":[{"id":1535,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=1535","url_meta":{"origin":1363,"position":0},"title":"Canine CRISPR trial raises \ufeffhopes for humans with deadly disease","author":"biochemistry","date":"September 2, 2018","format":false,"excerpt":"\u00a0 \u00a0 (\uc6d0\ubb38) \u00a0 \u00a0 Dogs with a disorder similar to Duchenne muscular dystrophy improve after gene-editing treatment. \u00a0 \u00a0 A powerful gene-editing technique can stimulate dogs\u2019 production of an important muscle protein, a finding that takes researchers a step closer to trying the technology in humans who have a\u2026","rel":"","context":"In &quot;Let's Do Biology!&quot;","block_context":{"text":"Let's Do Biology!","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=33"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":458,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=458","url_meta":{"origin":1363,"position":1},"title":"The science of cells that never get old | Elizabeth Blackburn","author":"biochemistry","date":"May 30, 2018","format":false,"excerpt":"\u00a0 \u00a0 https:\/\/www.youtube.com\/watch?v=2wseM6wWd74 \u00a0 \u00a0 \u00a0","rel":"","context":"In &quot;Let's Do Biology!&quot;","block_context":{"text":"Let's Do Biology!","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=33"},"img":{"alt_text":"","src":"https:\/\/i0.wp.com\/img.youtube.com\/vi\/2wseM6wWd74\/0.jpg?resize=350%2C200","width":350,"height":200},"classes":[]},{"id":2247,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=2247","url_meta":{"origin":1363,"position":2},"title":"Precision genome engineering","author":"biochemistry","date":"December 3, 2018","format":false,"excerpt":"\u00a0 \u00a0 Genome editing through CRISPR-Cas systems has the potential to correct genetic mutations that occur in diseased cells, such as cancer cells. However, the ability to selectively activate CRISPR-Cas systems in diseased cells is important to ensure that gene editing only occurs where it is wanted. Zhu\u00a0et al.\u00a0developed a\u2026","rel":"","context":"In &quot;Let's Do Biology!&quot;","block_context":{"text":"Let's Do Biology!","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=33"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":3984,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=3984","url_meta":{"origin":1363,"position":3},"title":"Enriching stem cells for gene editing","author":"biochemistry","date":"August 3, 2019","format":false,"excerpt":"\u00a0 \u00a0 Gene editing using CRISPR-Cas9 may allow targeted treatment for a variety of genetic diseases. These include inherited abnormalities of \u03b2 hemoglobin, which can be indirectly targeted by increasing the amount of healthy fetal hemoglobin without fully correcting the disease-causing mutation. Humbert\u00a0et al.\u00a0used CRISPR-based gene editing to modify hematopoietic\u2026","rel":"","context":"In &quot;Let's Do Biology!&quot;","block_context":{"text":"Let's Do Biology!","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=33"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":2540,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=2540","url_meta":{"origin":1363,"position":4},"title":"Precision CRISPR editing","author":"biochemistry","date":"January 18, 2019","format":false,"excerpt":"\u00a0 \u00a0 The most popular gene-editing tool, CRISPR-Cas9, generates breaks in the genome that are subsequently repaired by a mix of cellular pathways. Yet, the repair outcomes are not random. Using machine-learning algorithms to analyze large amounts of Cas9-mediated, genome-wide editing events in a range of cells, Shen\u00a0et al., Allen\u00a0et\u2026","rel":"","context":"In &quot;Let's Do Biology!&quot;","block_context":{"text":"Let's Do Biology!","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=33"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":2952,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=2952","url_meta":{"origin":1363,"position":5},"title":"The CRISPR \ufefffix that could combat inherited blood disorders","author":"biochemistry","date":"March 27, 2019","format":false,"excerpt":"\u00a0 Researchers have finally identified a reliable way to edit the genes of blood stem cells. \u00a0 The elongated red blood cells of people with sickle-cell disease can block small blood vessels, reducing the flow of oxygen to nearby tissues. 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