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dc.contributor.authorSanders, Steven M.
dc.contributor.authorCartwright, Paulyn
dc.identifier.citationSteven M. Sanders and Paulyn Cartwright. Interspecific Differential Expression Analysis of RNA-Seq Data Yields Insight into Life Cycle Variation in Hydractiniid Hydrozoans. Genome Biol Evol (2015) Vol. 7 2417-2431 first published online August 6, 2015 doi:10.1093/gbe/evv153en_US
dc.description.abstractHydrozoans are known for their complex life cycles, which can alternate between an asexually reproducing polyp stage and a sexually reproducing medusa stage. Most hydrozoan species, however, lack a free-living medusa stage and instead display a developmentally truncated form, called a medusoid or sporosac, which generally remains attached to the polyp. Although evolutionary transitions in medusa truncation and loss have been investigated phylogenetically, little is known about the genes involved in the development and loss of this life cycle stage. Here, we present a new workflow for evaluating differential expression (DE) between two species using short read Illumina RNA-seq data. Through interspecific DE analyses between two hydractiniid hydrozoans, Hydractinia symbiolongicarpus and Podocoryna carnea, we identified genes potentially involved in the developmental, functional, and morphological differences between the fully developed medusa of P. carnea and reduced sporosac of H. symbiolongicarpus. A total of 10,909 putative orthologs of H. symbiolongicarpus and P. carnea were identified from de novo assemblies of short read Illumina data. DE analysis revealed 938 of these are differentially expressed between P. carnea developing and adult medusa, when compared with H. symbiolongicarpus sporosacs, the majority of which have not been previously characterized in cnidarians. In addition, several genes with no corresponding ortholog in H. symbiolongicarpus were expressed in developing medusa of P. carnea. Results presented here show interspecific DE analyses of RNA-seq data to be a sensitive and reliable method for identifying genes and gene pathways potentially involved in morphological and life cycle differences between species.en_US
dc.publisherOxford University Pressen_US
dc.rightsPublished by Oxford University Press on behalf of the Society for Molecular Biology and Evolution 2015. This work is written by US Government employees and is in the public domain in the US.en_US
dc.subjectDifferential Expressionen_US
dc.subjectComparative Expressionen_US
dc.titleInterspecific Differential Expression Analysis of RNA-Seq Data Yields Insight into Life Cycle Variation in Hydractiniid Hydrozoansen_US
kusw.kuauthorCartwright, Paulyn
kusw.kudepartmentEcology and Evolutionary Biologyen_US
kusw.oanotesPer Sherpa Romeo, 2016-11-30: Author's Pre-print: green tick author can archive pre-print (ie pre-refereeing) Author's Post-print: cross author cannot archive post-print (ie final draft post-refereeing) Publisher's Version/PDF: green tick author can archive publisher's version/PDF General Conditions:

Creative Commons Attribution License or Creative Commons Attribution Non-Commercial License available Pre-print on author's personal website, employers website or subject repository Pre-print can only be posted prior to acceptance Pre-print must be accompanied by set statement (see link) Pre-print must not be replaced with post-print, instead a link to published version with amended set statement should be made Publisher's version/PDF must be used Publisher's version/PDF on institutional repository or centrally organised repositories Published source must be acknowledged Must link to publisher version Set phrase to accompany archived copy (see policy) Eligible authors may deposit in OpenDepot Publisher will deposit on behalf of NIH, HHMI, UK MRC, Telethon and Wellcome Trust funded authors to PubMed Central and Europe PMC
kusw.oaversionScholarly/refereed, publisher versionen_US
kusw.oapolicyThis item meets KU Open Access policy criteria.en_US

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