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Sökning: (WFRF:(Johnson Jeremy)) pers:(Lara Marcia) > (2016) > The spotted gar gen...

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FältnamnIndikatorerMetadata
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001oai:DiVA.org:uu-293022
003SwePub
008160511s2016 | |||||||||||000 ||eng|
0247 a https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-2930222 URI
0247 a https://doi.org/10.1038/ng.35262 DOI
040 a (SwePub)uu
041 a engb eng
042 9 SwePub
072 7a ref2 swepub-contenttype
072 7a art2 swepub-publicationtype
1001 a Braasch, Ingou Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA.;Michigan State Univ, Dept Integrat Biol, E Lansing, MI 48824 USA.4 aut
2451 0a The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons
264 c 2016-03-07
264 1b Springer Science and Business Media LLC,c 2016
338 a electronic2 rdacarrier
500 a Funding: We thank the Broad Institute Genomics Platform for constructing and sequencing gar DNA and RNA libraries and J. Turner-Maier for the gar transcriptome assembly. We thank the teams of the Bayousphere Research Laboratory (Nicholls State University) and the University of Oregon Fish Facility for gar work and husbandry. We thank J. Westlund for the design of the species illustrations. The generation of gar sequences and assemblies by the Broad Institute of MIT and Harvard University was supported by US National Institutes of Health (NIH)/National Human Genome Research Institute grant U54 HG03067. This work was further supported by US NIH grants R01 OD011116 (alias R01 RR020833) and R24 OD01119004 (J.H.P.); a Feodor Lynen Fellowship from the Alexander von Humboldt Foundation and the Volkswagen Foundation Initiative Evolutionary Biology, grant I/84 815 (I.B.); US NIH grant T32 HD055164 and National Science Foundation (NSF) Doctoral Dissertation Improvement Grant 1311436 (A.R.G.); Uehara Memorial Foundation Research Fellowship 2013, Japan Society for the Promotion of Science Postdoctoral Research Fellowship 2012-127 and Marine Biological Laboratory Research Award 2014 (T.N.); Brazilian National Council for Scientific and Technological Development (CNPq) grants 402754/2012-3 and 477658/2012-1 (I.S.); the Brinson Foundation and the University of Chicago Biological Sciences Division (N.H.S.); NSF grant BCS0725227 (K.K.); call 'ARISTEIA I' of the National Strategic Reference Framework 2007-2013 (SPARCOMP, 36), Ministry of Education and Religious Affairs of Greece (T.M.); Agence Nationale de la Recherche (ANR) grant ANR-10-GENM-017 (PhyloFish; J.B.); the Wellcome Trust (grants WT095908 and WT098051) and the European Molecular Biology Laboratory (D.B., S.M.J.S. and B.A.); the Biomedical Research Council of the Agency for Science, Technology and Research (A*STAR), Singapore (B.V.); European Research Council grant 268513 (P.W.H.H. and K.J.M.); the Ministerio de Ciencia e Innovacion (BFU2010-14875 and BFU2015-71340) and the Generalitat de Catalunya, AGAUR (SGR2014-290) (C. C.); US NIH grant R01 AI057559 (G.W.L. and J.A.Y.); US NIH grants R24 OD010922 and R01 GM079492 (C. T. A.); and the National Basic Research Program of China (973 Program) (2012CB947600) and the National Natural Science Foundation of China (NSFC) (31030062) (H.W.).
520 a To connect human biology to fish biomedical models, we sequenced the genome of spotted gar (Lepisosteus oculatus), whose lineage diverged from teleosts before teleost genome duplication (TGD). The slowly evolving gar genome has conserved in content and size many entire chromosomes from bony vertebrate ancestors. Gar bridges teleosts to tetrapods by illuminating the evolution of immunity, mineralization and development (mediated, for example, by Hox, ParaHox and microRNA genes). Numerous conserved noncoding elements (CNEs; often cis regulatory) undetectable in direct human-teleost comparisons become apparent using gar: functional studies uncovered conserved roles for such cryptic CNEs, facilitating annotation of sequences identified in human genome-wide association studies. Transcriptomic analyses showed that the sums of expression domains and expression levels for duplicated teleost genes often approximate the patterns and levels of expression for gar genes, consistent with subfunctionalization. The gar genome provides a resource for understanding evolution after genome duplication, the origin of vertebrate genomes and the function of human regulatory sequences.
650 7a MEDICIN OCH HÄLSOVETENSKAPx Medicinska och farmaceutiska grundvetenskaperx Medicinsk genetik0 (SwePub)301072 hsv//swe
650 7a MEDICAL AND HEALTH SCIENCESx Basic Medicinex Medical Genetics0 (SwePub)301072 hsv//eng
7001 a Gehrke, Andrew R.u Univ Chicago, Dept Organismal Biol & Anat, 1025 E 57Th St, Chicago, IL 60637 USA.4 aut
7001 a Smith, Jeramiah J.u Univ Kentucky, Dept Biol, Lexington, KY USA.4 aut
7001 a Kawasaki, Kazuhikou Penn State Univ, Dept Anthropol, University Pk, PA 16802 USA.4 aut
7001 a Manousaki, Terezau Hellen Ctr Marine Res, Inst Marine Biol Biotechnol & Aquaculture, Iraklion, Greece.4 aut
7001 a Pasquier, Jeremyu INRA, LPGP, UR1037, Campus Beaulieu, F-35042 Rennes, France.4 aut
7001 a Amores, Angelu Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA.4 aut
7001 a Desvignes, Thomasu Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA.4 aut
7001 a Batzel, Peteru Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA.4 aut
7001 a Catchen, Julianu Univ Illinois, Dept Anim Biol, Urbana, IL 61801 USA.4 aut
7001 a Berlin, Aaron M.u MIT, Broad Inst, 77 Massachusetts Ave, Cambridge, MA 02139 USA.;Harvard, Cambridge, MA USA.4 aut
7001 a Campbell, Michael S.u Univ Utah, Eccles Inst Human Genet, Salt Lake City, UT USA.;Cold Spring Harbor Lab, POB 100, Cold Spring Harbor, NY 11724 USA.4 aut
7001 a Barrell, Danielu Wellcome Trust Sanger Inst, Wellcome Trust Genome Campus, Hinxton, England.;European Bioinformat Inst, European Mol Biol Lab, Wellcome Trust Genome Campus, Hinxton, England.4 aut
7001 a Martin, Kyle J.u Univ Oxford, Dept Zool, Oxford, England.;Univ Sheffield, Dept Anim & Plant Sci, Sheffield S10 2TN, S Yorkshire, England.4 aut
7001 a Mulley, John F.u Bangor Univ, Sch Biol Sci, Bangor, Gwynedd, Wales.4 aut
7001 a Ravi, Vydianathanu ASTAR, Inst Mol & Cell Biol, Comparat Genom Lab, Singapore, Singapore.4 aut
7001 a Lee, Alison P.u ASTAR, Inst Mol & Cell Biol, Comparat Genom Lab, Singapore, Singapore.4 aut
7001 a Nakamura, Tetsuyau Univ Chicago, Dept Organismal Biol & Anat, 1025 E 57Th St, Chicago, IL 60637 USA.4 aut
7001 a Chalopin, Domitilleu Ecole Normale Super Lyon, Inst Genom Fonct Lyon, F-69364 Lyon, France.;Univ Georgia, Dept Genet, Athens, GA 30602 USA.4 aut
7001 a Fan, Shaohuau Univ Konstanz, Dept Biol, Constance, Germany.;Univ Penn, Dept Genet, Philadelphia, PA 19104 USA.4 aut
7001 a Wcisel, Dustinu N Carolina State Univ, Dept Mol Biomed Sci, Raleigh, NC 27695 USA.;N Carolina State Univ, Ctr Comparat Med & Translat Res, Raleigh, NC 27695 USA.4 aut
7001 a Canestro, Cristianu Univ Barcelona, Dept Genet, Barcelona, Spain.;Univ Barcelona, Inst Recerca Biodiversitat, Barcelona, Spain.4 aut
7001 a Sydes, Jasonu Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA.4 aut
7001 a Beaudry, Felix E. G.u Univ Victoria, Dept Biol, POB 1700, Victoria, BC V8W 2Y2, Canada.4 aut
7001 a Sun, Yiu Soochow Univ, Ctr Circadian Clocks, Suzhou, Peoples R China.;Soochow Univ, Coll Med, Sch Biol & Basic Med Sci, Suzhou, Peoples R China.4 aut
7001 a Hertel, Janau Univ Leipzig, Dept Comp Sci, Bioinformat Grp, D-04109 Leipzig, Germany.;UFZ Helmholtz Ctr Environm Res, Young Investigators Grp Bioinformat & Transcript, Leipzig, Germany.4 aut
7001 a Beam, Michael J.u Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA.4 aut
7001 a Fasold, Mariou Univ Leipzig, Dept Comp Sci, Bioinformat Grp, D-04109 Leipzig, Germany.;ecSeq Bioinformat, Leipzig, Germany.4 aut
7001 a Ishiyama, Mikiou Nippon Dent Univ Coll Niigata, Dept Dent Hyg, Niigata, Japan.4 aut
7001 a Johnson, Jeremyu MIT, Broad Inst, 77 Massachusetts Ave, Cambridge, MA 02139 USA.;Harvard, Cambridge, MA USA.4 aut
7001 a Kehr, Steffiu Univ Leipzig, Dept Comp Sci, Bioinformat Grp, D-04109 Leipzig, Germany.4 aut
7001 a Lara, Marciau MIT, Broad Inst, 77 Massachusetts Ave, Cambridge, MA 02139 USA.;Harvard, Cambridge, MA USA.4 aut
7001 a Letaw, John H.u Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA.4 aut
7001 a Litman, Gary W.u Univ S Florida, Morsani Coll Med, Dept Pediat, St Petersburg, FL 33701 USA.4 aut
7001 a Litman, Ronda T.u Univ S Florida, Morsani Coll Med, Dept Pediat, St Petersburg, FL 33701 USA.4 aut
7001 a Mikami, Masatou Nippon Dent Univ, Sch Life Dent Niigata, Dept Microbiol, Niigata, Japan.4 aut
7001 a Ota, Tatsuyau SOKENDAI Grad Univ Adv Studies, Dept Evolutionary Studies Biosyst, Hayama, Japan.4 aut
7001 a Saha, Nil Ratanu Benaroya Res Inst, Mol Genet Program, Seattle, WA USA.4 aut
7001 a Williams, Louiseu MIT, Broad Inst, 77 Massachusetts Ave, Cambridge, MA 02139 USA.;Harvard, Cambridge, MA USA.4 aut
7001 a Stadler, Peter F.u Univ Leipzig, Dept Comp Sci, Bioinformat Grp, D-04109 Leipzig, Germany.4 aut
7001 a Wang, Hanu Soochow Univ, Ctr Circadian Clocks, Suzhou, Peoples R China.;Soochow Univ, Coll Med, Sch Biol & Basic Med Sci, Suzhou, Peoples R China.4 aut
7001 a Taylor, John S.u Univ Victoria, Dept Biol, POB 1700, Victoria, BC V8W 2Y2, Canada.4 aut
7001 a Fontenot, Quentonu Nicholls State Univ, Dept Biol Sci, Thibodaux, LA 70310 USA.4 aut
7001 a Ferrara, Allyseu Nicholls State Univ, Dept Biol Sci, Thibodaux, LA 70310 USA.4 aut
7001 a Searle, Stephen M. J.u Wellcome Trust Sanger Inst, Wellcome Trust Genome Campus, Hinxton, England.4 aut
7001 a Aken, Bronwenu Wellcome Trust Sanger Inst, Wellcome Trust Genome Campus, Hinxton, England.;European Bioinformat Inst, European Mol Biol Lab, Wellcome Trust Genome Campus, Hinxton, England.4 aut
7001 a Yandell, Marku Univ Utah, Eccles Inst Human Genet, Salt Lake City, UT USA.4 aut
7001 a Schneider, Igoru Fed Univ Para, Inst Ciencias Biol, BR-66059 Belem, Para, Brazil.4 aut
7001 a Yoder, Jeffrey A.u N Carolina State Univ, Dept Mol Biomed Sci, Raleigh, NC 27695 USA.;N Carolina State Univ, Ctr Comparat Med & Translat Res, Raleigh, NC 27695 USA.4 aut
7001 a Volff, Jean-Nicolasu Ecole Normale Super Lyon, Inst Genom Fonct Lyon, F-69364 Lyon, France.4 aut
7001 a Meyer, Axelu Univ Konstanz, Dept Biol, Constance, Germany.;Univ Konstanz, Int Max Planck Res Sch Organismal Biol, Constance, Germany.4 aut
7001 a Amemiya, Chris T.u Benaroya Res Inst, Mol Genet Program, Seattle, WA USA.4 aut
7001 a Venkatesh, Byrappau ASTAR, Inst Mol & Cell Biol, Comparat Genom Lab, Singapore, Singapore.4 aut
7001 a Holland, Peter W. H.u Univ Oxford, Dept Zool, Oxford, England.4 aut
7001 a Guiguen, Yannu INRA, LPGP, UR1037, Campus Beaulieu, F-35042 Rennes, France.4 aut
7001 a Bobe, Julienu INRA, LPGP, UR1037, Campus Beaulieu, F-35042 Rennes, France.4 aut
7001 a Shubin, Neil H.u Univ Chicago, Dept Organismal Biol & Anat, 1025 E 57Th St, Chicago, IL 60637 USA.4 aut
7001 a Di Palma, Federicau MIT, Broad Inst, 77 Massachusetts Ave, Cambridge, MA 02139 USA.;Harvard, Cambridge, MA USA.;Genome Anal Ctr, Vertebrate & Hlth Genom, Norwich, Norfolk, England.4 aut
7001 a Alfoeldi, Jessicau MIT, Broad Inst, 77 Massachusetts Ave, Cambridge, MA 02139 USA.;Harvard, Cambridge, MA USA.4 aut
7001 a Lindblad-Toh, Kerstinu Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab,MIT, Broad Inst, 77 Massachusetts Ave, Cambridge, MA 02139 USA.;Harvard, Cambridge, MA USA.;Uppsala Univ, Dept Med Biochem & Microbiol, Sci Life Lab, Uppsala, Sweden.4 aut0 (Swepub:uu)kerli865
7001 a Postlethwait, John H.u Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA.4 aut
7102 a Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA.;Michigan State Univ, Dept Integrat Biol, E Lansing, MI 48824 USA.b Univ Chicago, Dept Organismal Biol & Anat, 1025 E 57Th St, Chicago, IL 60637 USA.4 org
7730 t Nature Geneticsd : Springer Science and Business Media LLCg 48:4, s. 427-437q 48:4<427-437x 1061-4036x 1546-1718
8564 u https://doi.org/10.1038/ng.3526y Fulltext
8564 u https://uu.diva-portal.org/smash/get/diva2:927223/FULLTEXT01.pdfx primaryx Raw objecty fulltext:print
8564 u https://www.nature.com/articles/ng.3526.pdf
8564 8u https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-293022
8564 8u https://doi.org/10.1038/ng.3526

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