{"id":1641,"date":"2016-03-27T20:04:40","date_gmt":"2016-03-27T20:04:40","guid":{"rendered":"http:\/\/blogs.hsc.edu\/biology\/?p=1641"},"modified":"2023-09-26T13:26:17","modified_gmt":"2023-09-26T13:26:17","slug":"hampden-sydney-genomics-students-publish-their-annotated-bacteriophage-sequence-on-national-databasem","status":"publish","type":"post","link":"https:\/\/blogs.hsc.edu\/biology\/2016\/03\/27\/hampden-sydney-genomics-students-publish-their-annotated-bacteriophage-sequence-on-national-databasem\/","title":{"rendered":"Hampden-Sydney genomics students publish their annotated bacteriophage sequence on national database"},"content":{"rendered":"<p>As the final product of the Hampden-Sydney Genomics and Bioinformatics course from the spring 2014 semester, the National Center for Biotechnology Information has accepted \u00a0the class&#8217; sequence annotation of a bacteriophage discovered at Hampden-Sydney for publication in the GenBank database. \u00a0The sequence, authored by Josh Dimmick &#8217;15, Grayland Godfrey &#8217;15, William Banning &#8217;15, Mitch Cavallarin &#8217;15, Tommy Isom &#8217;14, Hakeem Mohammed &#8217;14. Jackson Parker &#8217;14, Francis Polakiewicz &#8217;14, Putney Smith &#8217;14, and Professor Mike Wolyniak, was a part of Hampden-Sydney&#8217;s participation in the Howard Hughes Medical Institute (HHMI) Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science (SEA-PHAGES) program. \u00a0Dr. Vassie Ware of Lehigh University collaborated with the final stages of preparing the sequence, which will directly contribute to a national research initiative based out of the University of Pittsburgh that seeks to understand how viruses that infect various bacterial species have evolved over time.<\/p>\n<p>Bacteriophage McFly was isolated by a previous Hampden-Sydney Molecular and Cellular Biology course by Seth Ayers &#8217;11. \u00a0It is a virus that infects the species\u00a0<em>Mycobacterium smegmatus<\/em> and has a genome of approximately 50,000 basepairs. \u00a0The student authors listed above used several bioinformatics databases over the course of a semester to identify and characterize the predicted genes in the McFly sequence. \u00a0McFly is the third bacteriophage Hampden-Sydney students have contributed to the national sequence database, joining Arturo and Cheetobro. \u00a0The SEA-PHAGES initiative allows students from Hampden-Sydney to join undergraduates from across the nation in conducting original research as a component of their scientific training.<\/p>\n<p>To explore McFly, visit the sequence file at\u00a0<a href=\"https:\/\/www.ncbi.nlm.nih.gov\/nuccore\/1007010572\">https:\/\/www.ncbi.nlm.nih.gov\/nuccore\/1007010572<\/a><\/p>\n<div id=\"attachment_1642\" style=\"width: 210px\" class=\"wp-caption alignnone\"><a href=\"http:\/\/blogs.hsc.edu\/biology\/wp-content\/uploads\/sites\/5\/2016\/03\/McFly_EMPic_1_Thumbs.jpg\"><img decoding=\"async\" aria-describedby=\"caption-attachment-1642\" class=\"size-full wp-image-1642\" src=\"http:\/\/blogs.hsc.edu\/biology\/wp-content\/uploads\/sites\/5\/2016\/03\/McFly_EMPic_1_Thumbs.jpg\" alt=\"Electron micrograph of McFly, isolated at Hampden-Sydney in 2011.\" width=\"200\" height=\"200\" \/><\/a><p id=\"caption-attachment-1642\" class=\"wp-caption-text\">Electron micrograph of McFly, isolated at Hampden-Sydney in 2011.<\/p><\/div>\n","protected":false},"excerpt":{"rendered":"<p>As the final product of the Hampden-Sydney Genomics and Bioinformatics course from the spring 2014 semester, the National Center for Biotechnology Information has accepted \u00a0the class&#8217; sequence annotation of a bacteriophage discovered at Hampden-Sydney for publication in the GenBank database. &hellip; <a href=\"https:\/\/blogs.hsc.edu\/biology\/2016\/03\/27\/hampden-sydney-genomics-students-publish-their-annotated-bacteriophage-sequence-on-national-databasem\/\">Continue reading <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[1],"tags":[],"class_list":["post-1641","post","type-post","status-publish","format-standard","hentry","category-uncategorized"],"_links":{"self":[{"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/posts\/1641","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/comments?post=1641"}],"version-history":[{"count":1,"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/posts\/1641\/revisions"}],"predecessor-version":[{"id":2068,"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/posts\/1641\/revisions\/2068"}],"wp:attachment":[{"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/media?parent=1641"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/categories?post=1641"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/blogs.hsc.edu\/biology\/wp-json\/wp\/v2\/tags?post=1641"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}