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The Phaeodactylum genome reveals the evolutionary history of diatom genomes

Author

Listed:
  • Chris Bowler

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France
    Stazione Zoologica ‘Anton Dohrn’, Villa Comunale, I-80121 Naples, Italy)

  • Andrew E. Allen

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France
    J. Craig Venter Institute, San Diego, California 92121, USA)

  • Jonathan H. Badger

    (J. Craig Venter Institute, San Diego, California 92121, USA)

  • Jane Grimwood

    (Joint Genome Institute-Stanford, Stanford Human Genome Center, 975 California Avenue, Palo Alto, California 94304, USA)

  • Kamel Jabbari

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France)

  • Alan Kuo

    (Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA)

  • Uma Maheswari

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France)

  • Cindy Martens

    (Ghent University, Technologiepark 927, B-9052 Ghent, Belgium)

  • Florian Maumus

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France)

  • Robert P. Otillar

    (Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA)

  • Edda Rayko

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France)

  • Asaf Salamov

    (Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA)

  • Klaas Vandepoele

    (Ghent University, Technologiepark 927, B-9052 Ghent, Belgium)

  • Bank Beszteri

    (Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570 Bremerhaven, Germany)

  • Ansgar Gruber

    (Fachbereich Biologie, University of Konstanz)

  • Marc Heijde

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France)

  • Michael Katinka

    (Genoscope, CEA-Institut de Génomique, UMR CNRS no. 8030, 2 rue Gaston Crémieux, 91057 Evry Cedex, France)

  • Thomas Mock

    (School of Oceanography, University of Washington, Seattle, Washington 98195, USA
    Present addresses: University of East Anglia, School of Environmental Sciences, Norwich NR4 7TJ, UK (T.M.); Institute for Systems Biology, 1441 North 34th Street, Seattle, Washington 98103, USA (S.C.); CEA, DSV, IBEB, SBVME, UMR 6191 CNRS/CEA/Université Aix-Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, Cadarache, Saint-Paul-lez-Durance F-13108, France (M.S.).)

  • Klaus Valentin

    (Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570 Bremerhaven, Germany)

  • Fréderic Verret

    (Marine Biological Association of the UK, The Laboratory, Citadel Hill, Plymouth PL1 2PB, UK)

  • John A. Berges

    (University of Wisconsin-Milwaukee, Milwaukee, Wisconsin 53201, USA)

  • Colin Brownlee

    (Marine Biological Association of the UK, The Laboratory, Citadel Hill, Plymouth PL1 2PB, UK)

  • Jean-Paul Cadoret

    (PBA, IFREMER, BP 21105, 44311 Nantes Cedex 03, France)

  • Anthony Chiovitti

    (School of Botany, The University of Melbourne)

  • Chang Jae Choi

    (University of Wisconsin-Milwaukee, Milwaukee, Wisconsin 53201, USA)

  • Sacha Coesel

    (Stazione Zoologica ‘Anton Dohrn’, Villa Comunale, I-80121 Naples, Italy
    Present addresses: University of East Anglia, School of Environmental Sciences, Norwich NR4 7TJ, UK (T.M.); Institute for Systems Biology, 1441 North 34th Street, Seattle, Washington 98103, USA (S.C.); CEA, DSV, IBEB, SBVME, UMR 6191 CNRS/CEA/Université Aix-Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, Cadarache, Saint-Paul-lez-Durance F-13108, France (M.S.).)

  • Alessandra De Martino

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France)

  • J. Chris Detter

    (Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA)

  • Colleen Durkin

    (School of Oceanography, University of Washington, Seattle, Washington 98195, USA)

  • Angela Falciatore

    (Stazione Zoologica ‘Anton Dohrn’, Villa Comunale, I-80121 Naples, Italy)

  • Jérome Fournet

    (EA 2160, Laboratoire ‘Mer, Molécule, Santé’, Faculté des Sciences et Techniques, Université de Nantes, 2 rue de la Houssinière, 44322, BP 92208, 44322 Nantes Cedex 3, France)

  • Miyoshi Haruta

    (University of Wisconsin Biotechnology Center, 425 Henry Mall, Madison, Wisconsin 53706, USA)

  • Marie J. J. Huysman

    (Ghent University, Technologiepark 927, B-9052 Ghent, Belgium
    Laboratory of Protistology and Aquatic Ecology, Ghent University, Krijgslaan 281-S8, B-9000 Ghent, Belgium)

  • Bethany D. Jenkins

    (University of Rhode Island, 316 Morrill Hall, 45 Lower College Road, Kingston, Rhode Island 02881, USA)

  • Katerina Jiroutova

    (Biology Centre ASCR, Institute of Parasitology and University of South Bohemia, Faculty of Science, Branisovska 31, 370 05 Ceske Budejovice, Czech Republic)

  • Richard E. Jorgensen

    (University of Arizona, Tucson, Arizona 85719, USA)

  • Yolaine Joubert

    (EA 2160, Laboratoire ‘Mer, Molécule, Santé’, Faculté des Sciences et Techniques, Université de Nantes, 2 rue de la Houssinière, 44322, BP 92208, 44322 Nantes Cedex 3, France)

  • Aaron Kaplan

    (The Hebrew University of Jerusalem)

  • Nils Kröger

    (School of Chemistry and Biochemistry, School of Materials Science and Engineering, School of Biology, Georgia Institute of Technology, 901 Atlantic Drive NW, Atlanta, Georgia 30332-0400, USA)

  • Peter G. Kroth

    (Fachbereich Biologie, University of Konstanz)

  • Julie La Roche

    (Leibniz-Institut für Meereswissenschaften)

  • Erica Lindquist

    (Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA)

  • Markus Lommer

    (Leibniz-Institut für Meereswissenschaften)

  • Véronique Martin–Jézéquel

    (EA 2160, Laboratoire ‘Mer, Molécule, Santé’, Faculté des Sciences et Techniques, Université de Nantes, 2 rue de la Houssinière, 44322, BP 92208, 44322 Nantes Cedex 3, France)

  • Pascal J. Lopez

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France)

  • Susan Lucas

    (Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA)

  • Manuela Mangogna

    (Stazione Zoologica ‘Anton Dohrn’, Villa Comunale, I-80121 Naples, Italy)

  • Karen McGinnis

    (University of Arizona, Tucson, Arizona 85719, USA)

  • Linda K. Medlin

    (Alfred Wegener Institute for Polar and Marine Research, Am Handelshafen 12, 27570 Bremerhaven, Germany
    Marine Biological Association of the UK, The Laboratory, Citadel Hill, Plymouth PL1 2PB, UK)

  • Anton Montsant

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France
    Stazione Zoologica ‘Anton Dohrn’, Villa Comunale, I-80121 Naples, Italy)

  • Marie-Pierre Oudot–Le Secq

    (University of British Columbia, 3529-6270 University Boulevard, Vancouver, British Columbia V6T 1Z4, Canada)

  • Carolyn Napoli

    (University of Arizona, Tucson, Arizona 85719, USA)

  • Miroslav Obornik

    (Biology Centre ASCR, Institute of Parasitology and University of South Bohemia, Faculty of Science, Branisovska 31, 370 05 Ceske Budejovice, Czech Republic)

  • Micaela Schnitzler Parker

    (School of Oceanography, University of Washington, Seattle, Washington 98195, USA)

  • Jean-Louis Petit

    (Genoscope, CEA-Institut de Génomique, UMR CNRS no. 8030, 2 rue Gaston Crémieux, 91057 Evry Cedex, France)

  • Betina M. Porcel

    (Genoscope, CEA-Institut de Génomique, UMR CNRS no. 8030, 2 rue Gaston Crémieux, 91057 Evry Cedex, France)

  • Nicole Poulsen

    (School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, Georgia 30332-0400, USA)

  • Matthew Robison

    (University of Wisconsin Biotechnology Center, 425 Henry Mall, Madison, Wisconsin 53706, USA)

  • Leszek Rychlewski

    (BioInfoBank Institute, Limanowskiego 24A/16, 60-744 Poznan, Poland)

  • Tatiana A. Rynearson

    (Graduate School of Oceanography, University of Rhode Island, South Ferry Road, Narragansett, Rhode Island 02882-1197, USA)

  • Jeremy Schmutz

    (Joint Genome Institute-Stanford, Stanford Human Genome Center, 975 California Avenue, Palo Alto, California 94304, USA)

  • Harris Shapiro

    (Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA)

  • Magali Siaut

    (Stazione Zoologica ‘Anton Dohrn’, Villa Comunale, I-80121 Naples, Italy
    Present addresses: University of East Anglia, School of Environmental Sciences, Norwich NR4 7TJ, UK (T.M.); Institute for Systems Biology, 1441 North 34th Street, Seattle, Washington 98103, USA (S.C.); CEA, DSV, IBEB, SBVME, UMR 6191 CNRS/CEA/Université Aix-Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, Cadarache, Saint-Paul-lez-Durance F-13108, France (M.S.).)

  • Michele Stanley

    (Microbial & Molecular Biology, Scottish Association for Marine Science, Dunstaffnage Marine Laboratory, Oban, Argyll PA37 1QA, UK)

  • Michael R. Sussman

    (University of Wisconsin Biotechnology Center, 425 Henry Mall, Madison, Wisconsin 53706, USA)

  • Alison R. Taylor

    (Marine Biological Association of the UK, The Laboratory, Citadel Hill, Plymouth PL1 2PB, UK
    The University of North Carolina Wilmington, 601 South College Road, Wilmington, North Carolina 28403, USA)

  • Assaf Vardi

    (CNRS UMR8186, Ecole Normale Supérieure, 46 rue d’Ulm, 75005 Paris, France
    Environmental Biophysics and Molecular Ecology Group, Institute of Marine and Coastal Sciences, Rutgers University, 71 Dudley Road, New Brunswick, New Jersey 08901, USA)

  • Peter von Dassow

    (CNRS UMR7144, Station Biologique de Roscoff, Place George Teissier BP74, 29682 Roscoff Cedex, France)

  • Wim Vyverman

    (Laboratory of Protistology and Aquatic Ecology, Ghent University, Krijgslaan 281-S8, B-9000 Ghent, Belgium)

  • Anusuya Willis

    (School of Botany, The University of Melbourne)

  • Lucjan S. Wyrwicz

    (BioInfoBank Institute, Limanowskiego 24A/16, 60-744 Poznan, Poland)

  • Daniel S. Rokhsar

    (Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA)

  • Jean Weissenbach

    (Genoscope, CEA-Institut de Génomique, UMR CNRS no. 8030, 2 rue Gaston Crémieux, 91057 Evry Cedex, France)

  • E. Virginia Armbrust

    (School of Oceanography, University of Washington, Seattle, Washington 98195, USA)

  • Beverley R. Green

    (University of British Columbia, 3529-6270 University Boulevard, Vancouver, British Columbia V6T 1Z4, Canada)

  • Yves Van de Peer

    (Ghent University, Technologiepark 927, B-9052 Ghent, Belgium)

  • Igor V. Grigoriev

    (Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, California 94598, USA)

Abstract

Diatoms' chequered history Diatoms, a type of microscopic marine and freshwater alga, dominate the oceans and are responsible for about a fifth of the primary productivity on Earth. The complete genome sequence of Phaeodactylum tricornutum is reported in this issue, the second diatom to be sequenced. Comparisons with Thalassiosira pseudonana, the first, reveal that hundreds of diatom genes have been acquired by gene transfer from bacteria — or vice versa. Gene transfer appears to have been common during diatom evolution, creating unorthodox combinations of genes — including some from plants and animals — likely to play major roles in nutrient management and environmental signalling.

Suggested Citation

  • Chris Bowler & Andrew E. Allen & Jonathan H. Badger & Jane Grimwood & Kamel Jabbari & Alan Kuo & Uma Maheswari & Cindy Martens & Florian Maumus & Robert P. Otillar & Edda Rayko & Asaf Salamov & Klaas , 2008. "The Phaeodactylum genome reveals the evolutionary history of diatom genomes," Nature, Nature, vol. 456(7219), pages 239-244, November.
    • Handle: RePEc:nat:nature:v:456:y:2008:i:7219:d:10.1038_nature07410
    DOI: 10.1038/nature07410
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    Cited by:

    1. Huan Zhang & Xiaofeng Xiong & Kangning Guo & Mengyuan Zheng & Tianjun Cao & Yuqing Yang & Jiaojiao Song & Jie Cen & Jiahuan Zhang & Yanyou Jiang & Shan Feng & Lijin Tian & Xiaobo Li, 2024. "A rapid aureochrome opto-switch enables diatom acclimation to dynamic light," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
    2. Bidhan Chandra Dhar & Lucia Cimarelli & Kumar Saurabh Singh & Letizia Brandi & Anna Brandi & Camilla Puccinelli & Stefania Marcheggiani & Roberto Spurio, 2015. "Molecular Detection of a Potentially Toxic Diatom Species," IJERPH, MDPI, vol. 12(5), pages 1-21, May.
    3. Riss M. Kellogg & Mark A. Moosburner & Natalie R. Cohen & Nicholas J. Hawco & Matthew R. McIlvin & Dawn M. Moran & Giacomo R. DiTullio & Adam V. Subhas & Andrew E. Allen & Mak A. Saito, 2022. "Adaptive responses of marine diatoms to zinc scarcity and ecological implications," Nature Communications, Nature, vol. 13(1), pages 1-13, December.

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