Protist genomics: key to understanding eukaryotic evolution

  • 1Ecological Genomics, Department of Biology, Institute of Zoology, Biocenter Cologne, University of Cologne, Cologne, Germany; Global Change Limnology, School of Life Sciences, Technical University of Munich, Munich, Germany. Electronic address: a.schoenle@tum.de.
  • 2Wellcome Sanger Institute, Cambridge, UK.
  • 3Department of Biochemistry & Molecular Biology, Dalhousie University, Halifax, Canada; Institute for Comparative Genomics, Dalhousie University, Halifax, Canada.
  • 4Department of Organismal Biology, Uppsala University, Uppsala, Sweden.
  • 5University of Göttingen, Institute of Microbiology and Genetics, Göttingen Center for Molecular Biosciences (GZMB), Campus Institute Data Science (CIDAS), Dept. of Applied Bioinformatics, 37077 Göttingen, Germany.
  • 6Terrestrial Ecology, Department of Biology, Institute of Zoology, Biocenter Cologne, University of Cologne, Cologne, Germany.
  • 7Unité d'Ecologie Systématique et Evolution, CNRS, AgroParisTech, Université Paris-Saclay, Gif Sur Yvette, France.
  • 8UMR7245, National Museum of Natural History and CNRS, Paris, France.
  • 9Institute of Parasitology, Biology Centre, Czech Academy of Sciences, České Budějovice, Czechia.
  • 10Department of Biology, Institute of Zoology, Biocenter Cologne, University of Cologne, Cologne, Germany.
  • 11Department of Biodiversity and Evolutionary Biology, Museo Nacional de Ciencias Naturales (MNCN-CSIC), c/ José Gutiérrez Abascal 2, 28006 Madrid, Spain.
  • 12Department of Mycology, Royal Botanical Garden-CSIC, Madrid, Spain.
  • 13Okinawa Institute of Science and Technology Graduate University, Okinawa, Japan.
  • 14Institute of Parasitology, Biology Centre, Czech Academy of Sciences, České Budějovice, Czechia; Faculty of Science, University of South Bohemia, České Budějovice, Czechia.
  • 15Department of Marine Biology and Oceanography, Institut de Ciències del Mar (ICM-CSIC), Barcelona, Catalonia, Spain.
  • 16Faculty of Life Sciences, University of Vienna, Vienna, Austria.
  • 17General Ecology, Department of Biology, Institute of Zoology, Biocenter Cologne, University of Cologne, Cologne, Germany.
  • 18Department of Evolutionary and Integrative Ecology, Leibniz Institute of Freshwater Ecology and Inland Fisheries, Berlin, Germany; Department of Environmental Microbiomics, Institute of Environmental Technology, Technical University of Berlin, Berlin, Germany.
  • 19Marine Biological Laboratory, Woods Hole, MA, USA.
  • 20Life Science Research Centre, University of Ostrava, Ostrava, Czechia.
  • 21Biodiversity Program, Institut de Biologia Evolutiva (CSIC - Universitat Pompeu Fabra), Barcelona, Catalonia, Spain.
  • 22Ecological Genomics, Department of Biology, Institute of Zoology, Biocenter Cologne, University of Cologne, Cologne, Germany; Global Change Limnology, School of Life Sciences, Technical University of Munich, Munich, Germany.

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Abstract

All eukaryotes other than animals, plants, and fungi are protists. Protists are highly diverse and found in nearly all environments, with key roles in planetary health and biogeochemical cycles. They represent the majority of eukaryotic diversity, making them essential for understanding eukaryotic evolution. However, these mainly unicellular, microscopic organisms are understudied and the generation of protist genomes lags far behind most multicellular lineages. Current genomic methods, which are primarily designed for animals and plants, are poorly suited for protists. Advancing protist genome research requires reevaluating plant- and animal-centric genomic standards. Future efforts must leverage emerging technologies and bioinformatics tools, ultimately enhancing our understanding of eukaryotic molecular and cell biology, ecology, and evolution.

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