A large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relatives

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cg.identifier.doihttps://doi.org/10.1111/1755-0998.12587en
cg.isijournalISI Journalen
cg.issn1755-098Xen
cg.issue3en
cg.journalMolecular Ecology Resourcesen
cg.reviewStatusPeer Reviewen
cg.subject.ciatGENETIC RESOURCESen
cg.subject.ciatMARKETSen
cg.volume17en
dc.contributor.authorSarah, Gautieren
dc.contributor.authorHoma, Felixen
dc.contributor.authorPointet, Stéphanieen
dc.contributor.authorContreras, Sandyen
dc.contributor.authorSabot, Françoisen
dc.contributor.authorNabholz, Benoiten
dc.contributor.authorSantoni, Sylvainen
dc.contributor.authorSauné, Laureen
dc.contributor.authorArdisson, Morganeen
dc.contributor.authorChantret, Nathalieen
dc.contributor.authorSauvage, Christopheren
dc.contributor.authorTregear, Jamesen
dc.contributor.authorJourda, Cyrilen
dc.contributor.authorPot, Daviden
dc.contributor.authorVigouroux, Yvesen
dc.contributor.authorChair, Hanaen
dc.contributor.authorScarcelli, Noraen
dc.contributor.authorBillot, Claireen
dc.contributor.authorYahiaoui, Nabilaen
dc.contributor.authorBacilieri, Robertoen
dc.contributor.authorKhadari, Bouchaiben
dc.contributor.authorBoccara, Michelen
dc.contributor.authorBarnaud, Adélineen
dc.contributor.authorPéros, Jean-Pierreen
dc.contributor.authorLabouisse, Jean-Pierreen
dc.contributor.authorPham, Jean-Louisen
dc.contributor.authorDavid, Jacquesen
dc.contributor.authorGlémin, Sylvainen
dc.contributor.authorRuíz, Manuelen
dc.date.accessioned2016-08-10T19:32:27Zen
dc.date.available2016-08-10T19:32:27Zen
dc.identifier.urihttps://hdl.handle.net/10568/76382
dc.titleA large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relativesen
dcterms.abstractWe produced a unique large dataset of reference transcriptomes to obtain new knowledge about the evolution of plant genomes and crop domestication. For this purpose we validated a RNA-Seq data assembly protocol to perform comparative population genomics. For the validation, we assessed and compared the quality of de novo Illumina short-read assemblies using data from two crops for which an annotated reference genome was available, namely grapevine and sorghum. We used the same protocol for the release of 26 new transcriptomes of crop plants and wild relatives, including still understudied crops such as yam, pearl millet and fonio. The species list has a wide taxonomic representation with the inclusion of 15 monocots and 11 eudicots. All contigs were annotated using BLAST, prot4EST, and Blast2GO. A strong originality of the dataset is that each crop is associated with close relative species, which will permit whole genome comparative evolutionary studies between crops and their wild related species. This large resource will thus serve research communities working on both crops and model organisms. All the data are available at http://arcad-bioinformatics.southgreen.fr/.en
dcterms.accessRightsOpen Access
dcterms.available2016-08-29
dcterms.bibliographicCitationSarah, Gautier; Homa, Felix; Pointet, Stéphanie; Contreras, Sandy; Sabot, François; Nabholz, Benoit; Santoni, Sylvain; Sauné, Laure; Ardisson, Morgane; Chantret, Nathalie; Sauvage, Christopher; Tregear, James; Jourda, Cyril; Pot, David; Vigouroux, Yves; Chair, Hana; Scarcelli, Nora; Billot, Claire; Yahiaoui, Nabila; Bacilieri, Roberto; Khadari, Bouchaib; Boccara, Michel; Barnaud, Adéline; Péros, Jean-Pierre; Labouisse, Jean-Pierre; Pham, Jean-Louis; David, Jacques; Glémin, Sylvain; Ruiz, Manuel. 2016. A large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relatives. Molecular Ecology Resources. Accepted Author Manuscript doi:10.1111/1755-0998.12587en
dcterms.extentp. 565-580en
dcterms.issued2017-05
dcterms.languageen
dcterms.licenseCopyrighted; all rights reserved
dcterms.publisherWileyen
dcterms.subjectrna sequenceen
dcterms.subjectgenomesen
dcterms.subjectwild plantsen
dcterms.subjectplant genetic resourcesen
dcterms.subjectmappingen
dcterms.subjectsecuencia de arnen
dcterms.subjectgenomasen
dcterms.subjectplantas silvestresen
dcterms.subjectrecursos genéticos vegetalesen
dcterms.typeJournal Article

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