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

Cristina Osuna (UGent) , Gust Bilcke (UGent) , Emmelien Vancaester (UGent) , Sam De Decker (UGent) , Atle M. Bones, Per Winge, Nicole Poulsen, Petra Bulánková (UGent) , Bram Verhelst (UGent) , Sien Audoor (UGent) , et al.
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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. Available genomics studies have mostly focused on planktonic centric diatom. Here, the authors report the genome assembly of the marine biofilm-forming diatom Seminavis robusta and the resequencing data of a panel of accessions to reveal their evolutionary adaptations.
Keywords
General Biochemistry, Genetics and Molecular Biology, General Physics and Astronomy, General Chemistry, THALASSIOSIRA-PSEUDONANA, CELL MORPHOGENESIS, POTENTIAL ROLE, GENE, ANNOTATION, PROTEINS, MIGRATION, FRACTION, REVEALS, PROGRAM

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MLA
Osuna, Cristina, et al. “The Seminavis Robusta Genome Provides Insights into the Evolutionary Adaptations of Benthic Diatoms.” NATURE COMMUNICATIONS, vol. 11, no. 1, 2020, doi:10.1038/s41467-020-17191-8.
APA
Osuna, C., Bilcke, G., Vancaester, E., De Decker, S., Bones, A. M., Winge, P., … Vandepoele, K. (2020). The Seminavis robusta genome provides insights into the evolutionary adaptations of benthic diatoms. NATURE COMMUNICATIONS, 11(1). https://doi.org/10.1038/s41467-020-17191-8
Chicago author-date
Osuna, Cristina, Gust Bilcke, Emmelien Vancaester, Sam De Decker, Atle M. Bones, Per Winge, Nicole Poulsen, et al. 2020. “The Seminavis Robusta Genome Provides Insights into the Evolutionary Adaptations of Benthic Diatoms.” NATURE COMMUNICATIONS 11 (1). https://doi.org/10.1038/s41467-020-17191-8.
Chicago author-date (all authors)
Osuna, Cristina, Gust Bilcke, Emmelien Vancaester, Sam De Decker, Atle M. Bones, Per Winge, Nicole Poulsen, Petra Bulánková, Bram Verhelst, Sien Audoor, Darja Belišová, Aikaterini Pargana, Monia Russo, Frederike Stock genannt Schroer, 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. 2020. “The Seminavis Robusta Genome Provides Insights into the Evolutionary Adaptations of Benthic Diatoms.” NATURE COMMUNICATIONS 11 (1). doi:10.1038/s41467-020-17191-8.
Vancouver
1.
Osuna C, Bilcke G, Vancaester E, De Decker S, Bones AM, Winge P, et al. The Seminavis robusta genome provides insights into the evolutionary adaptations of benthic diatoms. NATURE COMMUNICATIONS. 2020;11(1).
IEEE
[1]
C. Osuna et al., “The Seminavis robusta genome provides insights into the evolutionary adaptations of benthic diatoms,” NATURE COMMUNICATIONS, vol. 11, no. 1, 2020.
@article{8670448,
  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. Available genomics studies have mostly focused on planktonic centric diatom. Here, the authors report the genome assembly of the marine biofilm-forming diatom Seminavis robusta and the resequencing data of a panel of accessions to reveal their evolutionary adaptations.},
  articleno    = {3320},
  author       = {Osuna, Cristina and Bilcke, Gust and Vancaester, Emmelien and De Decker, Sam and Bones, Atle M. and Winge, Per and Poulsen, Nicole and Bulánková, Petra and Verhelst, Bram and Audoor, Sien and Belišová, Darja and Pargana, Aikaterini and Russo, Monia and Stock genannt Schroer, Frederike and Cirri, Emilio and Brembu, Tore and Pohnert, Georg and Piganeau, Gwenael and Ferrante, Maria Immacolata and Mock, Thomas and Sterck, Lieven and Sabbe, Koen and De Veylder, Lieven and Vyverman, Wim and Vandepoele, Klaas},
  issn         = {2041-1723},
  journal      = {NATURE COMMUNICATIONS},
  keywords     = {General Biochemistry,Genetics and Molecular Biology,General Physics and Astronomy,General Chemistry,THALASSIOSIRA-PSEUDONANA,CELL MORPHOGENESIS,POTENTIAL ROLE,GENE,ANNOTATION,PROTEINS,MIGRATION,FRACTION,REVEALS,PROGRAM},
  language     = {eng},
  number       = {1},
  title        = {The Seminavis robusta genome provides insights into the evolutionary adaptations of benthic diatoms},
  url          = {http://dx.doi.org/10.1038/s41467-020-17191-8},
  volume       = {11},
  year         = {2020},
}

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