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Genetic tool development in marine protists: emerging model organisms for experimental cell biology

dc.contributor.authorFaktorová, Drahomíra
dc.contributor.authorNisbet, R. Ellen R.
dc.contributor.authorFernández Robledo, José A.
dc.contributor.authorCasacuberta, Elena
dc.contributor.authorSudek, Lisa
dc.contributor.authorAllen, Andrew E.
dc.contributor.authorAres, Manuel
dc.contributor.authorAresté, Cristina
dc.contributor.authorBalestreri, Cecilia
dc.contributor.authorBarbrook, Adrian C.
dc.contributor.authorBeardslee, Patrick
dc.contributor.authorBender, Sara
dc.contributor.authorBooth, David S.
dc.contributor.authorBouget, François-Yves
dc.contributor.authorBowler, Chris
dc.contributor.authorBreglia, Susana A.
dc.contributor.authorBrownlee, Colin
dc.contributor.authorBurger, Gertraud
dc.contributor.authorCerutti, Heriberto
dc.contributor.authorCesaroni, Rachele
dc.contributor.authorChiurillo, Miguel A.
dc.contributor.authorClemente, Thomas
dc.contributor.authorColes, Duncan B.
dc.contributor.authorCollier, Jackie L.
dc.contributor.authorCooney, Elizabeth C.
dc.contributor.authorCoyne, Kathryn
dc.contributor.authorDocampo, Roberto
dc.contributor.authorDupont, Christopher L.
dc.contributor.authorEdgcomb, Virginia
dc.contributor.authorEinarsson, Elin
dc.contributor.authorElustondo, Pía A.
dc.contributor.authorFederici, Fernan
dc.contributor.authorFreire-Beneitez, Veronica
dc.contributor.authorFreyria, Nastasia J.
dc.contributor.authorFukuda, Kodai
dc.contributor.authorGarcía, Paulo A.
dc.contributor.authorGirguis, Peter R.
dc.contributor.authorGomaa, Fatma
dc.contributor.authorGornik, Sebastian G.
dc.contributor.authorGuo, Jian
dc.contributor.authorHampl, Vladimír
dc.contributor.authorHanawa, Yutaka
dc.contributor.authorHaro-Contreras, Esteban R.
dc.contributor.authorHehenberger, Elisabeth
dc.contributor.authorHighfield, Andrea
dc.contributor.authorHirakawa, Yoshihisa
dc.contributor.authorHopes, Amanda
dc.contributor.authorHowe, Christopher J.
dc.contributor.authorHu, Ian
dc.contributor.authorIbañez, Jorge
dc.contributor.authorIrwin, Nicholas A. T.
dc.contributor.authorIshii, Yuu
dc.contributor.authorJanowicz, Natalia Ewa
dc.contributor.authorJones, Adam C.
dc.contributor.authorKachale, Ambar
dc.contributor.authorFujimura-Kamada, Konomi
dc.contributor.authorKaur, Binnypreet
dc.contributor.authorKaye, Jonathan Z.
dc.contributor.authorKazana, Eleanna
dc.contributor.authorKeeling, Patrick J.
dc.contributor.authorKing, Nicole
dc.contributor.authorKlobutcher, Lawrence A.
dc.contributor.authorLander, Noelia
dc.contributor.authorLassadi, Imen
dc.contributor.authorLi, Zhuhong
dc.contributor.authorLin, Senjie
dc.contributor.authorLozano, Jean-Claude
dc.contributor.authorLuan, Fulei
dc.contributor.authorMaruyama, Shinichiro
dc.contributor.authorMatute, Tamara
dc.contributor.authorMiceli, Cristina
dc.contributor.authorMinagawa, Jun
dc.contributor.authorMoosburner, Mark
dc.contributor.authorNajle, Sebastián R.
dc.contributor.authorNanjappa, Deepak
dc.contributor.authorNimmo, Isabel C.
dc.contributor.authorNoble, Luke
dc.contributor.authorNovák Vanclová, Anna M. G.
dc.contributor.authorNowacki, Mariusz
dc.contributor.authorNuñez, Isaac
dc.contributor.authorPain, Arnab
dc.contributor.authorPiersanti, Angela
dc.contributor.authorPucciarelli, Sandra
dc.contributor.authorPyrih, Jan
dc.contributor.authorRest, Joshua S.
dc.contributor.authorRius, Mariana
dc.contributor.authorRobertson, Deborah
dc.contributor.authorRuaud, Albane
dc.contributor.authorRuiz-Trillo, Iñaki
dc.contributor.authorSigg, Monika A.
dc.contributor.authorSilver, Pamela A.
dc.contributor.authorSlamovits, Claudio H.
dc.contributor.authorJason Smith, G.
dc.contributor.authorSprecher, Brittany N.
dc.contributor.authorStern, Rowena
dc.contributor.authorSwart, Estienne C.
dc.contributor.authorTsaousis, Anastasios D.
dc.contributor.authorTsypin, Lev
dc.contributor.authorTurkewitz, Aaron
dc.contributor.authorTurnšek, Jernej
dc.contributor.authorValach, Matus
dc.contributor.authorVergé, Valérie
dc.contributor.authorvon Dassow, Peter
dc.contributor.authorvon der Haar, Tobias
dc.contributor.authorWaller, Ross F.
dc.contributor.authorWang, Lu
dc.contributor.authorWen, Xiaoxue
dc.contributor.authorWheeler, Glen
dc.contributor.authorWoods, April
dc.contributor.authorZhang, Huan
dc.contributor.authorMock, Thomas
dc.contributor.authorWorden, Alexandra Z.
dc.contributor.authorLukeš, Julius
dc.date.accessioned2020-04-12T06:17:02Z
dc.date.available2020-04-12T06:17:02Z
dc.date.issued2020-04-06
dc.date.submitted2019-07-26
dc.identifier.citationFaktorová, D., Nisbet, R. E. R., Fernández Robledo, J. A., Casacuberta, E., Sudek, L., Allen, A. E., … Barbrook, A. C. (2020). Genetic tool development in marine protists: emerging model organisms for experimental cell biology. Nature Methods. doi:10.1038/s41592-020-0796-x
dc.identifier.issn1548-7091
dc.identifier.issn1548-7105
dc.identifier.pmid32251396
dc.identifier.doi10.1038/s41592-020-0796-x
dc.identifier.doi10.1038/s41592-020-0828-6
dc.identifier.doi10.1101/718239
dc.identifier.urihttp://hdl.handle.net/10754/662478
dc.description.abstractDiverse 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.
dc.description.sponsorshipWe thank M. Salisbury and D. Lacono, C. Poirier, M. Hamilton, C. Eckmann, H. Igel, C. Yung and K. Hoadley for assistance; V.K. Nagarajan, M. Accerbi and P.J. Green who carried out Agrobacterium studies in Heterosigma akashiwo, and N. Kraeva, C. Bianchi and V. Yurchenko for the help with designing the p57-V5+NeoR construct. We are also grateful to the protocols.io team (L. Teytelman and A. Broellochs) for their support. This collaborative effort was supported by the Gordon and Betty Moore Foundation EMS Program of the Marine Microbiology Initiative (grant nos. GBMF4972 and 4972.01 to F.-Y.B.; GBMF4970 and 4970.01 to M.A. and A.Z.W.; GBMF3788 to A.Z.W.; GBMF 4968 and 4968.01 to H.C.; GBMF4984 to V.H.; GBMF4974 and 4974.01 to C. Brownlee; GBMF4964 to Y. Hirakawa; GBMF4961 to T. Mock; GBMF4958 to P.S.; GBMF4957 to A.T.; GBMF4960 to G.J.S.; GBMF4979 to K.C.; GBMF4982 and 4982.01 to J.L.C.; GBMF4964 to P.J.K.; GBMF4981 to P.v.D.; GBMF5006 to A.E.A.; GBMF4986 to C.M.; GBMF4962 to J.A.F.R.; GBMF4980 and 4980.01 to S.L.; GBMF 4977 and 4977.01 to R.F.W.; GBMF4962.01 to C.H.S.; GBMF4985 to J.M.; GBMF4976 and 4976.01 to C.H.; GBMF4963 and 4963.01 to V.E.; GBMF5007 to C.L.D.; GBMF4983 and 4983.01 to J.L.; GBMF4975 and 4975.01 to A.D.T.; GBMF4973 and 4973.01 to I.R.-T. and GBMF4965 to N.K.), by The Leverhulme Trust (RPG-2017-364) to T. Mock and A. Hopes, and by ERD funds (16_019/0000759) from the Czech Ministry of Education to J.L.
dc.publisherSpringer Nature
dc.relation.urlhttp://www.nature.com/articles/s41592-020-0796-x
dc.relation.urlhttps://authors.library.caltech.edu/97621/5/41592_2020_796_MOESM1_ESM.pdf
dc.rightsThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder.
dc.rightsThis file is an open access version redistributed from: https://authors.library.caltech.edu/97621/5/41592_2020_796_MOESM1_ESM.pdf
dc.rights.urihttps://creativecommons.org/licenses/by/4.0
dc.titleGenetic tool development in marine protists: emerging model organisms for experimental cell biology
dc.typeArticle
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentBioscience Program
dc.contributor.departmentPathogen Genomics Laboratory
dc.identifier.journalNature Methods
dc.eprint.versionPublisher's Version/PDF
dc.contributor.institutionInstitute of Parasitology, Biology Centre, Czech Academy of Sciences and Faculty of Sciences, University of South Bohemia, České Budějovice, Czech Republic.
dc.contributor.institutionDepartment of Biochemistry, University of Cambridge, Cambridge, UK.
dc.contributor.institutionBigelow Laboratory for Ocean Sciences, East Boothbay, ME, USA.
dc.contributor.institutionInstitut de Biologia Evolutiva, CSIC-Universitat Pompeu Fabra, Barcelona, Spain.
dc.contributor.institutionMonterey Bay Aquarium Research Institute, Moss Landing, CA, USA.
dc.contributor.institutionIntegrative Oceanography Division, Scripps Institution of Oceanography, University of California, San Diego, CA, USA.
dc.contributor.institutionMolecular, Cell and Developmental Biology, University of California, Santa Cruz, CA, USA.
dc.contributor.institutionThe Marine Biological Association, Plymouth and School of Ocean and Earth Sciences, University of Southampton, Southampton, UK.
dc.contributor.institutionSchool of Biological Sciences, University of Nebraska, Lincoln, NE, USA.
dc.contributor.institutionGordon and Betty Moore Foundation, Palo Alto, CA, USA.
dc.contributor.institutionDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.
dc.contributor.institutionSorbonne Université, CNRS UMR7621, Observatoire Océanologique, Banyuls sur Mer, France.
dc.contributor.institutionInstitut de Biologie de l'Ecole Normale Supérieure (IBENS), Ecole Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France.
dc.contributor.institutionCentre for Comparative Genomics and Evolutionary Bioinformatics, Dalhousie University, Halifax, Nova Scotia, Canada.
dc.contributor.institutionDepartment of Biochemistry and Robert-Cedergren Centre for Bioinformatics and Genomics, Université de Montréal, Montreal, Quebec, Canada.
dc.contributor.institutionInstitute of Cell Biology, University of Bern, Bern, Switzerland.
dc.contributor.institutionCenter for Tropical and Emerging Global Diseases, University of Georgia, Athens, GA, USA.
dc.contributor.institutionSchool of Marine and Atmospheric Sciences, Stony Brook University, Stony Brook, NY, USA.
dc.contributor.institutionDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada.
dc.contributor.institutionUniversity of Delaware College of Earth, Ocean and Environment, Lewes, DE, USA.
dc.contributor.institutionMicrobial and Environmental Genomics, J. Craig Venter Institute, La Jolla, CA, USA.
dc.contributor.institutionWoods Hole Oceanographic Institution, Woods Hole, MA, USA.
dc.contributor.institutionFacultad 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.
dc.contributor.institutionSchool of Biosciences, University of Kent, Canterbury, Kent, UK.
dc.contributor.institutionGraduate School of Life and Environmental Sciences, University of Tsukuba, Ibaraki, Japan.
dc.contributor.institutionDepartment of Mechanical Engineering, Massachusetts Institute of Technology, Boston, MA, USA.
dc.contributor.institutionDepartment of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA.
dc.contributor.institutionCentre for Organismal Studies, University of Heidelberg, Heidelberg, Germany.
dc.contributor.institutionDepartment of Parasitology, Faculty of Science, Charles University, BIOCEV, Vestec, Czech Republic.
dc.contributor.institutionFaculty of Life and Environmental Sciences, University of Tsukuba, Ibaraki, Japan.
dc.contributor.institutionSchool of Environmental Sciences, University of East Anglia, Norwich, UK.
dc.contributor.institutionGraduate School of Life Sciences, Tohoku University, Sendai, Miyagi, Japan.
dc.contributor.institutionDivision of Environmental Photobiology, National Institute for Basic Biology, Okazaki, Aichi, Japan.
dc.contributor.institutionDepartment of Marine Sciences, University of Connecticut , Groton, CT, USA.
dc.contributor.institutionSchool of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy.
dc.contributor.institutionCenter for Genomics and Systems Biology, New York University, New York, NY, USA.
dc.contributor.institutionDepartment of Ecology and Evolution, Stony Brook University, Stony Brook, NY, USA.
dc.contributor.institutionLasry Center for Biosciences, Clark University, Worcester, MA, USA.
dc.contributor.institutionDepartment of Systems Biology, Harvard Medical School, Boston, MA, USA.
dc.contributor.institutionDepartment of Environmental Biotechnology, Moss Landing Marine Laboratories, Moss Landing, CA, USA.
dc.contributor.institutionDepartment of Molecular Genetics and Cell Biology, University of Chicago, Chicago, IL, USA.
dc.contributor.institutionInstitute of Oceanography, Minjiang University, Fuzhou, China.
kaust.personPain, Arnab
dc.date.accepted2020-03-02
refterms.dateFOA2020-05-18T06:26:41Z
dc.date.published-online2020-04-06
dc.date.published-print2020-05


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This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder.
Except where otherwise noted, this item's license is described as This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder.