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The Seminavis robusta genome provides insights into the evolutionary adaptations of benthic diatoms

Author

Listed:
  • Cristina Maria Osuna-Cruz

    (Ghent University
    VIB Center for Plant Systems Biology
    Bioinformatics Institute Ghent, Ghent University)

  • Gust Bilcke

    (Ghent University
    VIB Center for Plant Systems Biology
    Protistology and Aquatic Ecology, Department of Biology, Ghent University
    Computer Science and Statistics, Ghent University)

  • Emmelien Vancaester

    (Ghent University
    VIB Center for Plant Systems Biology
    Bioinformatics Institute Ghent, Ghent University)

  • Sam De Decker

    (Protistology and Aquatic Ecology, Department of Biology, Ghent University)

  • Atle M. Bones

    (Cell Molecular Biology and Genomics Group, Department of Biology, Norwegian University of Science and Technology)

  • Per Winge

    (Cell Molecular Biology and Genomics Group, Department of Biology, Norwegian University of Science and Technology)

  • Nicole Poulsen

    (B CUBE Center for Molecular Bioengineering, Technical University of Dresden)

  • Petra Bulankova

    (Ghent University
    VIB Center for Plant Systems Biology)

  • Bram Verhelst

    (Ghent University
    VIB Center for Plant Systems Biology)

  • Sien Audoor

    (Protistology and Aquatic Ecology, Department of Biology, Ghent University)

  • Darja Belisova

    (Protistology and Aquatic Ecology, Department of Biology, Ghent University)

  • Aikaterini Pargana

    (Protistology and Aquatic Ecology, Department of Biology, Ghent University)

  • Monia Russo

    (Integrative Marine Ecology, Stazione Zoologica Anton Dohrn)

  • Frederike Stock

    (Protistology and Aquatic Ecology, Department of Biology, Ghent University)

  • Emilio Cirri

    (Friedrich Schiller University Jena, Institute of Inorganic and Analytical Chemistry)

  • Tore Brembu

    (Cell Molecular Biology and Genomics Group, Department of Biology, Norwegian University of Science and Technology)

  • Georg Pohnert

    (Friedrich Schiller University Jena, Institute of Inorganic and Analytical Chemistry)

  • Gwenael Piganeau

    (Sorbonne Université, CNRS, UMR 7232 Biologie Intégrative des Organismes Marins BIOM, Observatoire Océanologique)

  • Maria Immacolata Ferrante

    (Integrative Marine Ecology, Stazione Zoologica Anton Dohrn)

  • Thomas Mock

    (School of Environmental Sciences, University of East Anglia, Norwich Research Park)

  • Lieven Sterck

    (Ghent University
    VIB Center for Plant Systems Biology)

  • Koen Sabbe

    (Protistology and Aquatic Ecology, Department of Biology, Ghent University)

  • Lieven De Veylder

    (Ghent University
    VIB Center for Plant Systems Biology)

  • Wim Vyverman

    (Protistology and Aquatic Ecology, Department of Biology, Ghent University)

  • Klaas Vandepoele

    (Ghent University
    VIB Center for Plant Systems Biology
    Bioinformatics Institute Ghent, Ghent University)

Abstract

Benthic diatoms are the main primary producers in shallow freshwater and coastal environments, fulfilling important ecological functions such as nutrient cycling and sediment stabilization. However, little is known about their evolutionary adaptations to these highly structured but heterogeneous environments. Here, we report a reference genome for the marine biofilm-forming diatom Seminavis robusta, showing that gene family expansions are responsible for a quarter of all 36,254 protein-coding genes. Tandem duplications play a key role in extending the repertoire of specific gene functions, including light and oxygen sensing, which are probably central for its adaptation to benthic habitats. Genes differentially expressed during interactions with bacteria are strongly conserved in other benthic diatoms while many species-specific genes are strongly upregulated during sexual reproduction. Combined with re-sequencing data from 48 strains, our results offer insights into the genetic diversity and gene functions in benthic diatoms.

Suggested Citation

  • Cristina Maria Osuna-Cruz & Gust Bilcke & Emmelien Vancaester & Sam De Decker & Atle M. Bones & Per Winge & Nicole Poulsen & Petra Bulankova & Bram Verhelst & Sien Audoor & Darja Belisova & Aikaterini, 2020. "The Seminavis robusta genome provides insights into the evolutionary adaptations of benthic diatoms," Nature Communications, Nature, vol. 11(1), pages 1-13, December.
    • Handle: RePEc:nat:natcom:v:11:y:2020:i:1:d:10.1038_s41467-020-17191-8
    DOI: 10.1038/s41467-020-17191-8
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