Genetic tool development in marine protists: emerging model organisms for experimental cell biology.,Nature Methods

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Genetic tool development in marine protists: emerging model organisms for experimental cell biology.
Nature Methods ( IF 48.0 ) Pub Date : 2020-04-06 , DOI: 10.1038/s41592-020-0796-x
Drahomíra Faktorová ₁ , R Ellen R Nisbet _{2,

3} , José A Fernández Robledo ₄ , Elena Casacuberta ₅ , Lisa Sudek ₆ , Andrew E Allen _{7,

8} , Manuel Ares ₉ , Cristina Aresté ₅ , Cecilia Balestreri ₁₀ , Adrian C Barbrook ₂ , Patrick Beardslee ₁₁ , Sara Bender ₁₂ , David S Booth ₁₃ , François-Yves Bouget ₁₄ , Chris Bowler ₁₅ , Susana A Breglia ₁₆ , Colin Brownlee ₁₀ , Gertraud Burger ₁₇ , Heriberto Cerutti ₁₁ , Rachele Cesaroni ₁₈ , Miguel A Chiurillo ₁₉ , Thomas Clemente ₁₁ , Duncan B Coles ₄ , Jackie L Collier ₂₀ , Elizabeth C Cooney ₂₁ , Kathryn Coyne ₂₂ , Roberto Docampo ₁₉ , Christopher L Dupont ₈ , Virginia Edgcomb ₂₃ , Elin Einarsson ₂ , Pía A Elustondo _{16,

24} , Fernan Federici ₂₅ , Veronica Freire-Beneitez _{26,

27} , Nastasia J Freyria ₄ , Kodai Fukuda ₂₈ , Paulo A García ₂₉ , Peter R Girguis ₃₀ , Fatma Gomaa ₃₀ , Sebastian G Gornik ₃₁ , Jian Guo _{6,

9} , Vladimír Hampl ₃₂ , Yutaka Hanawa ₃₃ , Esteban R Haro-Contreras ₁₆ , Elisabeth Hehenberger ₂₁ , Andrea Highfield ₁₀ , Yoshihisa Hirakawa ₃₃ , Amanda Hopes ₃₄ , Christopher J Howe ₂ , Ian Hu ₂ , Jorge Ibañez ₂₅ , Nicholas A T Irwin ₂₁ , Yuu Ishii ₃₅ , Natalia Ewa Janowicz ₃₂ , Adam C Jones ₁₂ , Ambar Kachale ₁ , Konomi Fujimura-Kamada ₃₆ , Binnypreet Kaur ₁ , Jonathan Z Kaye ₁₂ , Eleanna Kazana _{26,

27} , Patrick J Keeling ₂₁ , Nicole King ₁₃ , Lawrence A Klobutcher ₃₇ , Noelia Lander ₁₉ , Imen Lassadi ₂ , Zhuhong Li ₁₉ , Senjie Lin ₃₇ , Jean-Claude Lozano ₁₄ , Fulei Luan ₁₁ , Shinichiro Maruyama ₃₅ , Tamara Matute ₂₅ , Cristina Miceli ₃₈ , Jun Minagawa _{36,

39} , Mark Moosburner _{7,

8} , Sebastián R Najle _{5,

40} , Deepak Nanjappa ₂₂ , Isabel C Nimmo ₂ , Luke Noble _{41,

42} , Anna M G Novák Vanclová ₃₂ , Mariusz Nowacki ₁₈ , Isaac Nuñez ₂₅ , Arnab Pain _{43,

44} , Angela Piersanti ₃₈ , Sandra Pucciarelli ₃₈ , Jan Pyrih _{26,

32} , Joshua S Rest ₄₅ , Mariana Rius ₂₀ , Deborah Robertson ₄₆ , Albane Ruaud _{25,

47} , Iñaki Ruiz-Trillo _{5,

48,

49} , Monika A Sigg ₁₃ , Pamela A Silver _{50,

51} , Claudio H Slamovits ₁₆ , G Jason Smith ₅₂ , Brittany N Sprecher ₃₇ , Rowena Stern ₁₀ , Estienne C Swart _{18,

47} , Anastasios D Tsaousis _{26,

27} , Lev Tsypin _{53,

54} , Aaron Turkewitz ₅₃ , Jernej Turnšek _{7,

8,

50,

51} , Matus Valach ₁₇ , Valérie Vergé ₁₄ , Peter von Dassow _{25,

55} , Tobias von der Haar ₂₆ , Ross F Waller ₂ , Lu Wang ₅₆ , Xiaoxue Wen ₁₁ , Glen Wheeler ₁₀ , April Woods ₅₂ , Huan Zhang ₃₇ , Thomas Mock ₃₄ , Alexandra Z Worden _{6,

57} , Julius Lukeš ₁

Affiliation

Institute of Parasitology, Biology Centre, Czech Academy of Sciences and Faculty of Sciences, University of South Bohemia, České Budějovice, Czech Republic.
Department of Biochemistry, University of Cambridge, Cambridge, UK.
School of Biosciences, University of Nottingham, Sutton Bonington, UK.
Bigelow Laboratory for Ocean Sciences, East Boothbay, ME, USA.
Institut de Biologia Evolutiva, CSIC-Universitat Pompeu Fabra, Barcelona, Spain.
Monterey Bay Aquarium Research Institute, Moss Landing, CA, USA.
Integrative Oceanography Division, Scripps Institution of Oceanography, University of California, San Diego, CA, USA.
Microbial and Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, USA.
Molecular, Cell and Developmental Biology, University of California, Santa Cruz, CA, USA.
The Marine Biological Association, Plymouth and School of Ocean and Earth Sciences, University of Southampton, Southampton, UK.
School of Biological Sciences, University of Nebraska, Lincoln, NE, USA.
Gordon and Betty Moore Foundation, Palo Alto, CA, USA.
Department of Molecular and Cell Biology, University of California, Berkeley, CA, USA.
Sorbonne Université, CNRS UMR7621, Observatoire Océanologique, Banyuls sur Mer, France.
Institut de Biologie de l'Ecole Normale Supérieure (IBENS), Ecole Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France.
Centre for Comparative Genomics and Evolutionary Bioinformatics, Dalhousie University, Halifax, Nova Scotia, Canada.
Department of Biochemistry and Robert-Cedergren Centre for Bioinformatics and Genomics, Université de Montréal, Montreal, Quebec, Canada.
Institute of Cell Biology, University of Bern, Bern, Switzerland.
Center for Tropical and Emerging Global Diseases, University of Georgia, Athens, GA, USA.
School of Marine and Atmospheric Sciences, Stony Brook University, Stony Brook, NY, USA.
Department of Botany, University of British Columbia, Vancouver, British Columbia, Canada.
University of Delaware College of Earth, Ocean and Environment, Lewes, DE, USA.
Woods Hole Oceanographic Institution, Woods Hole, MA, USA.
AGADA Biosciences Inc., Halifax, Nova Scotia, Canada.
Facultad Ciencias Biológicas, Pontificia Universidad Católica de Chile, Fondo de Desarrollo de Areas Prioritarias, Center for Genome Regulation and Millennium Institute for Integrative Biology (iBio), Santiago de Chile, Chile.
School of Biosciences, University of Kent, Canterbury, Kent, UK.
Laboratory of Molecular and Evolutionary Parasitology, University of Kent, Kent, UK.
Graduate School of Life and Environmental Sciences, University of Tsukuba, Ibaraki, Japan.
Department of Mechanical Engineering, Massachusetts Institute of Technology, Boston, MA, USA.
Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA.
Centre for Organismal Studies, University of Heidelberg, Heidelberg, Germany.
Department of Parasitology, Faculty of Science, Charles University, BIOCEV, Vestec, Czech Republic.
Faculty of Life and Environmental Sciences, University of Tsukuba, Ibaraki, Japan.
School of Environmental Sciences, University of East Anglia, Norwich, UK.
Graduate School of Life Sciences, Tohoku University, Sendai, Miyagi, Japan.
Division of Environmental Photobiology, National Institute for Basic Biology, Okazaki, Aichi, Japan.
Department of Marine Sciences, University of Connecticut , Groton, CT, USA.
School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy.
Department of Basic Biology, School of Life Science, Graduate University for Advanced Studies, Okazaki, Aichi, Japan.
Instituto de Biología Molecular y Celular, CONICET, and Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Rosario, Argentina.
Center for Genomics and Systems Biology, New York University, New York, NY, USA.
Institute de Biologie de l'ENS, Département de biologie, École Normale Supérieure, CNRS, INSERM, Paris, France.
Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.
Center for Zoonosis Control, Global Institution for Collaborative Research and Education, Hokkaido University, Sapporo, Japan.
Department of Ecology and Evolution, Stony Brook University, Stony Brook, NY, USA.
Lasry Center for Biosciences, Clark University, Worcester, MA, USA.
Max Planck Institute for Developmental Biology, Tübingen, Germany.
Departament de Genètica Microbiologia i Estadıśtica, Universitat de Barcelona, Barcelona, Spain.
Catalan Institution for Research and Advanced Studies, Barcelona, Spain.
Department of Systems Biology, Harvard Medical School, Boston, MA, USA.
Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, USA.
Department of Environmental Biotechnology, Moss Landing Marine Laboratories, Moss Landing, CA, USA.
Department of Molecular Genetics and Cell Biology, University of Chicago, Chicago, IL, USA.
Department of Biology, California Institute of Technology, Pasadena, CA, USA.
Instituto Milenio de Oceanografia de Chile, Concepción, Chile.
Institute of Oceanography, Minjiang University, Fuzhou, China.
Ocean EcoSystems Biology Unit, Marine Ecology Division, Helmholtz Centre for Ocean Research, Kiel, Germany.

Diverse microbial ecosystems underpin life in the sea. Among these microbes are many unicellular eukaryotes that span the diversity of the eukaryotic tree of life. However, genetic tractability has been limited to a few species, which do not represent eukaryotic diversity or environmentally relevant taxa. Here, we report on the development of genetic tools in a range of protists primarily from marine environments. We present evidence for foreign DNA delivery and expression in 13 species never before transformed and for advancement of tools for eight other species, as well as potential reasons for why transformation of yet another 17 species tested was not achieved. Our resource in genetic manipulation will provide insights into the ancestral eukaryotic lifeforms, general eukaryote cell biology, protein diversification and the evolution of cellular pathways.

中文翻译：

海洋原生生物的遗传工具开发：实验细胞生物学的新兴模式生物。

多样化的微生物生态系统支撑着海洋中的生命。在这些微生物中有许多单细胞真核生物，它们跨越了真核生命树的多样性。然而，遗传易处理性仅限于少数物种，它们不代表真核生物多样性或与环境相关的分类群。在这里，我们报告了主要来自海洋环境的一系列原生生物的遗传工具的开发。我们提供了 13 个从未发生过转化的物种中外源 DNA 传递和表达的证据，以及其他 8 个物种的工具改进的证据，以及为什么另外 17 个测试的物种没有实现转化的潜在原因。我们在基因操作方面的资源将提供对祖先真核生命形式、一般真核细胞生物学、

更新日期：2020-04-06

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