{"id":554,"date":"2018-12-30T23:58:01","date_gmt":"2018-12-30T23:58:01","guid":{"rendered":"http:\/\/sites.rutgers.edu\/coralbase\/?page_id=554"},"modified":"2019-01-08T18:10:38","modified_gmt":"2019-01-08T18:10:38","slug":"findings","status":"publish","type":"page","link":"https:\/\/sites.rutgers.edu\/coralbase\/findings\/","title":{"rendered":"Findings"},"content":{"rendered":"

Genome sequencing and analysis of the rice coral Montipora capitata<\/em><\/strong><\/span><\/p>\n

Alexander Shumaker, Hollie Putnam, Huan Qiu, Udi Zelzion, Dana C. Price, Nicole Wagner, Arik Harel, Ruth Gates, Hwan Su Yoon, and Debashish Bhattacharya<\/p>\n

Ongoing efforts to conserve coral reefs by identifying the major stress response pathways and thereby laying the foundation to select resistant genotypes rely on a robust genomic foundation. We recently generated a high quality long-read based ~886 million base pair (Mbp) nuclear genome assembly and transcriptome data from the dominant rice coral, Montipora capitata<\/em> from Hawai\u2019i. Our work provides insights into the architecture of coral genomes and shows how they differ in size and gene inventory, we postulate that significant population size reduction explains the large genome size in M. capitata<\/em>. The Hawaiian population represents an endemic with reduced standing genetic variation that has resulted in the expansion of parasitic genetic elements such as transposons. We also describe a recent example of foreign gene acquisition via a bacterial gene transfer agent (GTA; see figure). GTAs are small segments of DNA (ca. 4 kbp in size) that move between cells in a bacterial population, but here we describe a GTA that has moved between kingdoms. This result identifies a pathway for bacterial gene integration into coral nuclear genomes, something we have described previously in a taxonomically broad analysis of coral genomic data (Bhattacharya et al. 2016; eLife<\/em> DOI:10.7554\/eLife.13288<\/a>). Our work also illustrates the major pathways of stress response that can be used to predict regulatory components of the transcriptional networks in M. capitata<\/em>. These genomic resources provide insights into the adaptive potential of sessile, long-lived coral species in both natural and human influenced environments. Ultimately, our results will be used to support functional and population genomic studies aimed at Hawaiian reef restoration and conservation.<\/p>\n","protected":false},"excerpt":{"rendered":"

Genome sequencing and analysis of the rice coral Montipora capitata Alexander Shumaker, Hollie Putnam, Huan Qiu, Udi Zelzion, Dana C. Price, Nicole Wagner, Arik Harel, Ruth Gates, Hwan Su Yoon, … Read More<\/a><\/p>\n","protected":false},"author":82,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_acf_changed":false,"footnotes":""},"class_list":["post-554","page","type-page","status-publish","hentry"],"acf":[],"yoast_head":"\nFindings - CoralBase<\/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:\/\/sites.rutgers.edu\/coralbase\/findings\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Findings - CoralBase\" \/>\n<meta property=\"og:description\" content=\"Genome sequencing and analysis of the rice coral Montipora capitata Alexander Shumaker, Hollie Putnam, Huan Qiu, Udi Zelzion, Dana C. Price, Nicole Wagner, Arik Harel, Ruth Gates, Hwan Su Yoon, … Read More\" \/>\n<meta property=\"og:url\" content=\"https:\/\/sites.rutgers.edu\/coralbase\/findings\/\" \/>\n<meta property=\"og:site_name\" content=\"CoralBase\" \/>\n<meta property=\"article:modified_time\" content=\"2019-01-08T18:10:38+00:00\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:label1\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data1\" content=\"1 minute\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"WebPage\",\"@id\":\"https:\/\/sites.rutgers.edu\/coralbase\/findings\/\",\"url\":\"https:\/\/sites.rutgers.edu\/coralbase\/findings\/\",\"name\":\"Findings - CoralBase\",\"isPartOf\":{\"@id\":\"https:\/\/sites.rutgers.edu\/coralbase\/#website\"},\"datePublished\":\"2018-12-30T23:58:01+00:00\",\"dateModified\":\"2019-01-08T18:10:38+00:00\",\"breadcrumb\":{\"@id\":\"https:\/\/sites.rutgers.edu\/coralbase\/findings\/#breadcrumb\"},\"inLanguage\":\"en-US\",\"potentialAction\":[{\"@type\":\"ReadAction\",\"target\":[\"https:\/\/sites.rutgers.edu\/coralbase\/findings\/\"]}]},{\"@type\":\"BreadcrumbList\",\"@id\":\"https:\/\/sites.rutgers.edu\/coralbase\/findings\/#breadcrumb\",\"itemListElement\":[{\"@type\":\"ListItem\",\"position\":1,\"name\":\"Home\",\"item\":\"https:\/\/sites.rutgers.edu\/coralbase\/\"},{\"@type\":\"ListItem\",\"position\":2,\"name\":\"Findings\"}]},{\"@type\":\"WebSite\",\"@id\":\"https:\/\/sites.rutgers.edu\/coralbase\/#website\",\"url\":\"https:\/\/sites.rutgers.edu\/coralbase\/\",\"name\":\"CoralBase\",\"description\":\"\",\"potentialAction\":[{\"@type\":\"SearchAction\",\"target\":{\"@type\":\"EntryPoint\",\"urlTemplate\":\"https:\/\/sites.rutgers.edu\/coralbase\/?s={search_term_string}\"},\"query-input\":{\"@type\":\"PropertyValueSpecification\",\"valueRequired\":true,\"valueName\":\"search_term_string\"}}],\"inLanguage\":\"en-US\"}]}<\/script>\n<!-- \/ Yoast SEO plugin. -->","yoast_head_json":{"title":"Findings - CoralBase","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:\/\/sites.rutgers.edu\/coralbase\/findings\/","og_locale":"en_US","og_type":"article","og_title":"Findings - CoralBase","og_description":"Genome sequencing and analysis of the rice coral Montipora capitata Alexander Shumaker, Hollie Putnam, Huan Qiu, Udi Zelzion, Dana C. Price, Nicole Wagner, Arik Harel, Ruth Gates, Hwan Su Yoon, … Read More","og_url":"https:\/\/sites.rutgers.edu\/coralbase\/findings\/","og_site_name":"CoralBase","article_modified_time":"2019-01-08T18:10:38+00:00","twitter_card":"summary_large_image","twitter_misc":{"Est. reading time":"1 minute"},"schema":{"@context":"https:\/\/schema.org","@graph":[{"@type":"WebPage","@id":"https:\/\/sites.rutgers.edu\/coralbase\/findings\/","url":"https:\/\/sites.rutgers.edu\/coralbase\/findings\/","name":"Findings - CoralBase","isPartOf":{"@id":"https:\/\/sites.rutgers.edu\/coralbase\/#website"},"datePublished":"2018-12-30T23:58:01+00:00","dateModified":"2019-01-08T18:10:38+00:00","breadcrumb":{"@id":"https:\/\/sites.rutgers.edu\/coralbase\/findings\/#breadcrumb"},"inLanguage":"en-US","potentialAction":[{"@type":"ReadAction","target":["https:\/\/sites.rutgers.edu\/coralbase\/findings\/"]}]},{"@type":"BreadcrumbList","@id":"https:\/\/sites.rutgers.edu\/coralbase\/findings\/#breadcrumb","itemListElement":[{"@type":"ListItem","position":1,"name":"Home","item":"https:\/\/sites.rutgers.edu\/coralbase\/"},{"@type":"ListItem","position":2,"name":"Findings"}]},{"@type":"WebSite","@id":"https:\/\/sites.rutgers.edu\/coralbase\/#website","url":"https:\/\/sites.rutgers.edu\/coralbase\/","name":"CoralBase","description":"","potentialAction":[{"@type":"SearchAction","target":{"@type":"EntryPoint","urlTemplate":"https:\/\/sites.rutgers.edu\/coralbase\/?s={search_term_string}"},"query-input":{"@type":"PropertyValueSpecification","valueRequired":true,"valueName":"search_term_string"}}],"inLanguage":"en-US"}]}},"_links":{"self":[{"href":"https:\/\/sites.rutgers.edu\/coralbase\/wp-json\/wp\/v2\/pages\/554"}],"collection":[{"href":"https:\/\/sites.rutgers.edu\/coralbase\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/sites.rutgers.edu\/coralbase\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/sites.rutgers.edu\/coralbase\/wp-json\/wp\/v2\/users\/82"}],"replies":[{"embeddable":true,"href":"https:\/\/sites.rutgers.edu\/coralbase\/wp-json\/wp\/v2\/comments?post=554"}],"version-history":[{"count":10,"href":"https:\/\/sites.rutgers.edu\/coralbase\/wp-json\/wp\/v2\/pages\/554\/revisions"}],"predecessor-version":[{"id":624,"href":"https:\/\/sites.rutgers.edu\/coralbase\/wp-json\/wp\/v2\/pages\/554\/revisions\/624"}],"wp:attachment":[{"href":"https:\/\/sites.rutgers.edu\/coralbase\/wp-json\/wp\/v2\/media?parent=554"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}