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

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 Pargana, Monia Russo, Frederike Stock, Emilio Cirri, Tore Brembu, Georg Pohnert, Gwenael Piganeau, Maria Immacolata Ferrante, Thomas Mock, Lieven Sterck, Koen Sabbe, Lieven De Veylder, Wim Vyverman and Klaas Vandepoele ()
Additional contact information
Cristina Maria Osuna-Cruz: Ghent University
Gust Bilcke: Ghent University
Emmelien Vancaester: 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
Bram Verhelst: Ghent University
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
Koen Sabbe: Protistology and Aquatic Ecology, Department of Biology, Ghent University
Lieven De Veylder: Ghent University
Wim Vyverman: Protistology and Aquatic Ecology, Department of Biology, Ghent University
Klaas Vandepoele: Ghent University

Nature Communications, 2020, vol. 11, issue 1, 1-13

Abstract: 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.

Date: 2020
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DOI: 10.1038/s41467-020-17191-8

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