The Atlantic salmon genome provides insights into rediploidization
dc.date.accessioned | 2018-08-18T09:14:30Z | |
dc.date.available | 2018-08-18T09:14:30Z | |
dc.date.created | 2016-05-25T15:42:21Z | |
dc.date.issued | 2016 | |
dc.identifier.citation | Lien, Sigbjørn Koop, Ben F Sandve, Simen Rød Miller, Jason R. Kent, Matthew Peter Nome, Torfinn Hvidsten, Torgeir Rhoden Leong, Jong Minkley, David R. Zimin, Aleksey Grammes, Fabian Grove, Harald Gjuvsland, Arne Bjørke Walenz, Brian Hermansen, Russell A. von Schalburg, Kristian R. Rondeau, Eric Genova, Alex Di Antony Samy, Jeevan Karloss Vik, Jon Olav Vigeland, Magnus Dehli Caler, Lis Grimholt, Unni Jentoft, Sissel Våge, Dag Inge de Jong, Pieter J. Moen, Thomas Baranski, Matthew Palti, Yniv Smith, Douglas W. Yorke, James A. Nederbragt, Alexander J. Tooming-Klunderud, Ave Jakobsen, Kjetill Sigurd Jiang, Xuanting Fan, Dingding Hu, Yan Liberles, David A. Vidal, Rodrigo Iturra, Patricia Jones, Steven J.M. Jonassen, Inge Maass, Alejandro Omholt, Stig William Davidson, William S . The Atlantic salmon genome provides insights into rediploidization. Nature. 2016, 533(7602), 200-205 | |
dc.identifier.uri | http://hdl.handle.net/10852/63167 | |
dc.description.abstract | The whole-genome duplication 80 million years ago of the common ancestor of salmonids (salmonid-specific fourth vertebrate whole-genome duplication, Ss4R) provides unique opportunities to learn about the evolutionary fate of a duplicated vertebrate genome in 70 extant lineages. Here we present a high-quality genome assembly for Atlantic salmon (Salmo salar), and show that large genomic reorganizations, coinciding with bursts of transposon-mediated repeat expansions, were crucial for the post-Ss4R rediploidization process. Comparisons of duplicate gene expression patterns across a wide range of tissues with orthologous genes from a pre-Ss4R outgroup unexpectedly demonstrate far more instances of neofunctionalization than subfunctionalization. Surprisingly, we find that genes that were retained as duplicates after the teleost-specific whole-genome duplication 320 million years ago were not more likely to be retained after the Ss4R, and that the duplicate retention was not influenced to a great extent by the nature of the predicted protein interactions of the gene products. Finally, we demonstrate that the Atlantic salmon assembly can serve as a reference sequence for the study of other salmonids for a range of purposes. | en_US |
dc.language | EN | |
dc.publisher | Macmillan Publishers Ltd. | |
dc.rights | Attribution 4.0 International | |
dc.rights.uri | https://creativecommons.org/licenses/by/4.0/ | |
dc.title | The Atlantic salmon genome provides insights into rediploidization | en_US |
dc.type | Journal article | en_US |
dc.creator.author | Lien, Sigbjørn | |
dc.creator.author | Koop, Ben F | |
dc.creator.author | Sandve, Simen Rød | |
dc.creator.author | Miller, Jason R. | |
dc.creator.author | Kent, Matthew Peter | |
dc.creator.author | Nome, Torfinn | |
dc.creator.author | Hvidsten, Torgeir Rhoden | |
dc.creator.author | Leong, Jong | |
dc.creator.author | Minkley, David R. | |
dc.creator.author | Zimin, Aleksey | |
dc.creator.author | Grammes, Fabian | |
dc.creator.author | Grove, Harald | |
dc.creator.author | Gjuvsland, Arne Bjørke | |
dc.creator.author | Walenz, Brian | |
dc.creator.author | Hermansen, Russell A. | |
dc.creator.author | von Schalburg, Kristian R. | |
dc.creator.author | Rondeau, Eric | |
dc.creator.author | Genova, Alex Di | |
dc.creator.author | Antony Samy, Jeevan Karloss | |
dc.creator.author | Vik, Jon Olav | |
dc.creator.author | Vigeland, Magnus Dehli | |
dc.creator.author | Caler, Lis | |
dc.creator.author | Grimholt, Unni | |
dc.creator.author | Jentoft, Sissel | |
dc.creator.author | Våge, Dag Inge | |
dc.creator.author | de Jong, Pieter J. | |
dc.creator.author | Moen, Thomas | |
dc.creator.author | Baranski, Matthew | |
dc.creator.author | Palti, Yniv | |
dc.creator.author | Smith, Douglas W. | |
dc.creator.author | Yorke, James A. | |
dc.creator.author | Nederbragt, Alexander J. | |
dc.creator.author | Tooming-Klunderud, Ave | |
dc.creator.author | Jakobsen, Kjetill Sigurd | |
dc.creator.author | Jiang, Xuanting | |
dc.creator.author | Fan, Dingding | |
dc.creator.author | Hu, Yan | |
dc.creator.author | Liberles, David A. | |
dc.creator.author | Vidal, Rodrigo | |
dc.creator.author | Iturra, Patricia | |
dc.creator.author | Jones, Steven J.M. | |
dc.creator.author | Jonassen, Inge | |
dc.creator.author | Maass, Alejandro | |
dc.creator.author | Omholt, Stig William | |
dc.creator.author | Davidson, William S | |
cristin.unitcode | 185,53,18,10 | |
cristin.unitname | Avdeling for medisinsk genetikk | |
cristin.ispublished | true | |
cristin.fulltext | original | |
cristin.qualitycode | 2A | |
dc.identifier.cristin | 1357548 | |
dc.identifier.bibliographiccitation | info:ofi/fmt:kev:mtx:ctx&ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Nature&rft.volume=533&rft.spage=200&rft.date=2016 | |
dc.identifier.jtitle | Nature | |
dc.identifier.volume | 533 | |
dc.identifier.issue | 7602 | |
dc.identifier.startpage | 200 | |
dc.identifier.endpage | 205 | |
dc.identifier.doi | http://dx.doi.org/10.1038/nature17164 | |
dc.identifier.urn | URN:NBN:no-65729 | |
dc.type.document | Tidsskriftartikkel | en_US |
dc.type.peerreviewed | Peer reviewed | |
dc.source.issn | 0028-0836 | |
dc.identifier.fulltext | Fulltext https://www.duo.uio.no/bitstream/handle/10852/63167/1/nature17164.pdf | |
dc.type.version | PublishedVersion | |
dc.relation.project | NFR/222378 | |
dc.relation.project | NFR/179569 |
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