{"id":336318,"date":"2025-05-12T16:51:32","date_gmt":"2025-05-12T11:21:32","guid":{"rendered":"https:\/\/forumias.com\/blog\/?p=336318"},"modified":"2025-05-15T20:50:37","modified_gmt":"2025-05-15T15:20:37","slug":"pangenome","status":"publish","type":"post","link":"https:\/\/forumias.com\/blog\/pangenome\/","title":{"rendered":"Pangenome"},"content":{"rendered":"<p data-start=\"118\" data-end=\"146\"><strong>News:\u00a0<\/strong>Scientists have created the first-ever \u2018pangenome\u2019 for rice by combining essential genetic segments from 144 wild and cultivated rice varieties across Asia to form a comprehensive reference genome. <strong>Pangenome<\/strong>.<strong><br \/>\n<\/strong><\/p>\n<p data-start=\"118\" data-end=\"146\"><img data-recalc-dims=\"1\" loading=\"lazy\" decoding=\"async\" class=\" wp-image-336878 aligncenter\" src=\"https:\/\/i0.wp.com\/forumias.com\/blog\/wp-content\/uploads\/2025\/05\/Pangenome.png?resize=577%2C383&#038;ssl=1\" alt=\"Pangenome\" width=\"577\" height=\"383\" srcset=\"https:\/\/i0.wp.com\/forumias.com\/blog\/wp-content\/uploads\/2025\/05\/Pangenome.png?resize=300%2C199&amp;ssl=1 300w, https:\/\/i0.wp.com\/forumias.com\/blog\/wp-content\/uploads\/2025\/05\/Pangenome.png?resize=1024%2C680&amp;ssl=1 1024w, https:\/\/i0.wp.com\/forumias.com\/blog\/wp-content\/uploads\/2025\/05\/Pangenome.png?resize=768%2C510&amp;ssl=1 768w, https:\/\/i0.wp.com\/forumias.com\/blog\/wp-content\/uploads\/2025\/05\/Pangenome.png?w=1280&amp;ssl=1 1280w\" sizes=\"auto, (max-width: 577px) 100vw, 577px\" \/><\/p>\n<h2 style=\"text-align: justify;\" data-start=\"118\" data-end=\"146\"><strong data-start=\"122\" data-end=\"146\">About Pangenome<\/strong><\/h2>\n<ul>\n<li data-start=\"149\" data-end=\"261\">A <strong data-start=\"151\" data-end=\"164\">pangenome<\/strong> is a comprehensive collection of genome sequences from multiple individuals of the same species.<\/li>\n<li data-start=\"264\" data-end=\"397\">It aims to capture the full range of <strong data-start=\"301\" data-end=\"322\">genetic variation<\/strong> across a population, offering a broader reference for genomic comparisons.<\/li>\n<li data-start=\"430\" data-end=\"520\">Scientists use pangenomes as <strong data-start=\"459\" data-end=\"480\">reference genomes<\/strong> to compare with new individual genomes. This helps in <strong data-start=\"537\" data-end=\"569\">identifying genetic variants<\/strong> that may affect traits, health, or disease susceptibility.<\/li>\n<\/ul>\n<h2 style=\"text-align: justify;\" data-start=\"523\" data-end=\"628\"><strong data-start=\"89\" data-end=\"126\">About Pangenome of Asian Rice<\/strong><\/h2>\n<ul>\n<li data-start=\"129\" data-end=\"244\">A <strong data-start=\"131\" data-end=\"144\">pangenome<\/strong> includes both core genes shared across all rice varieties and unique genes from individual strains. It provides a <strong data-start=\"258\" data-end=\"287\">comprehensive genetic map<\/strong> of Asian rice, aiding in crop improvement.<\/li>\n<li data-start=\"129\" data-end=\"244\"><strong>Significance for India:<\/strong> India, a key rice producer, recorded <strong data-start=\"535\" data-end=\"557\">220 million tonnes<\/strong> of production in 2024\u201325 across <strong data-start=\"590\" data-end=\"609\">51,000 hectares<\/strong> with an average yield of <strong data-start=\"635\" data-end=\"657\">4.2 tonnes\/hectare<\/strong>. The new pangenome database supports the development of <strong data-start=\"716\" data-end=\"758\">climate-resilient and disease-tolerant<\/strong> rice varieties.<\/li>\n<\/ul>\n<h2 style=\"text-align: justify;\" data-start=\"781\" data-end=\"812\"><strong data-start=\"785\" data-end=\"812\">Key Scientific Findings<\/strong><\/h2>\n<ul>\n<li style=\"text-align: justify;\" data-start=\"145\" data-end=\"353\">Scientists have developed the <strong data-start=\"175\" data-end=\"204\">first-ever rice pangenome<\/strong> by combining genomic sequences from <strong data-start=\"241\" data-end=\"283\">144 wild and cultivated rice varieties<\/strong> across Asia.<\/li>\n<li style=\"text-align: justify;\" data-start=\"357\" data-end=\"524\">The study reveals <strong data-start=\"375\" data-end=\"429\">3.87 billion base pairs of novel genetic sequences<\/strong> that were missing in the previously used single reference genome.<\/li>\n<li style=\"text-align: justify;\" data-start=\"528\" data-end=\"593\">A total of <strong data-start=\"539\" data-end=\"555\">69,531 genes<\/strong> were identified across the pangenome:\n<ul>\n<li data-start=\"598\" data-end=\"644\"><strong data-start=\"598\" data-end=\"619\">28,907 core genes<\/strong> common to all varieties.<\/li>\n<li data-start=\"598\" data-end=\"644\"><strong data-start=\"649\" data-end=\"687\">13,728 genes specific to wild rice<\/strong>.<\/li>\n<li data-start=\"693\" data-end=\"857\">Approximately <strong data-start=\"707\" data-end=\"733\">20% of the total genes<\/strong> were unique to wild rice, offering critical insights into environmental adaptation and potential for breeding improvements.<\/li>\n<\/ul>\n<\/li>\n<li style=\"text-align: justify;\" data-start=\"861\" data-end=\"1016\">The research supports the hypothesis that all Asian cultivated rice originated from a <strong data-start=\"947\" data-end=\"985\">wild rice variety known as Or-IIIa<\/strong>, an ancestor of japonica rice.<\/li>\n<li style=\"text-align: justify;\" data-start=\"1020\" data-end=\"1289\"><strong data-start=\"1020\" data-end=\"1052\">Population genetics analysis<\/strong> confirms that <strong data-start=\"1067\" data-end=\"1084\">japonica rice<\/strong> was the first to be domesticated from <strong data-start=\"1123\" data-end=\"1150\">O. rufipogon group IIIa<\/strong> in China. Later, <strong data-start=\"1168\" data-end=\"1183\">indica rice<\/strong> evolved through hybridization with <strong data-start=\"1219\" data-end=\"1245\">local wild rice (Or-I)<\/strong> populations as japonica spread across Asia.<\/li>\n<li style=\"text-align: justify;\" data-start=\"1293\" data-end=\"1480\">The use of <strong data-start=\"1304\" data-end=\"1330\">PacBio HiFi sequencing<\/strong> and advanced computational tools allowed for a deep analysis of <strong data-start=\"1395\" data-end=\"1434\">gene flow and evolutionary pathways<\/strong> between domesticated and wild rice varieties.<\/li>\n<li style=\"text-align: justify;\" data-start=\"1484\" data-end=\"1695\">The study significantly enhances understanding of <strong data-start=\"1534\" data-end=\"1594\">rice domestication, phenotypic diversity, and resilience<\/strong>, providing a foundation for breeding <strong data-start=\"1632\" data-end=\"1694\">superior, climate-resilient, and high-yield rice cultivars<\/strong>.<\/li>\n<\/ul>\n","protected":false},"excerpt":{"rendered":"<p>News:\u00a0Scientists have created the first-ever \u2018pangenome\u2019 for rice by combining essential genetic segments from 144 wild and cultivated rice varieties across Asia to form a comprehensive reference genome. Pangenome. About Pangenome A pangenome is a comprehensive collection of genome sequences from multiple individuals of the same species. It aims to capture the full range of&hellip; <a class=\"more-link\" href=\"https:\/\/forumias.com\/blog\/pangenome\/\">Continue reading <span class=\"screen-reader-text\">Pangenome<\/span><\/a><\/p>\n","protected":false},"author":10366,"featured_media":336878,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"jetpack_post_was_ever_published":false,"footnotes":""},"categories":[1566,1738,12039],"tags":[11872,10498],"class_list":["post-336318","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-daily-factly-articles","category-science-and-technology-daily-factly-articles","category-knolls","tag-9pm-daily-factly","tag-the-hindu","entry"],"jetpack_featured_media_url":"https:\/\/i0.wp.com\/forumias.com\/blog\/wp-content\/uploads\/2025\/05\/Pangenome.png?fit=1280%2C850&ssl=1","views":"","jetpack_sharing_enabled":true,"_links":{"self":[{"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/posts\/336318","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/users\/10366"}],"replies":[{"embeddable":true,"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/comments?post=336318"}],"version-history":[{"count":0,"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/posts\/336318\/revisions"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/media\/336878"}],"wp:attachment":[{"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/media?parent=336318"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/categories?post=336318"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/forumias.com\/blog\/wp-json\/wp\/v2\/tags?post=336318"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}