Selective Factors in the Evolution of Multicellularity in Choanoflagellates
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The Architecture of Cell Differentiation in Choanoflagellates And
bioRxiv preprint doi: https://doi.org/10.1101/452185; this version posted October 29, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 The architecture of cell differentiation in choanoflagellates 2 and sponge choanocytes 3 Davis Laundon1,2,6, Ben Larson3, Kent McDonald3, Nicole King3,4 and Pawel 4 Burkhardt1,5* 5 1 Marine Biological Association of the United Kingdom, The Laboratory, Citadel Hill, 6 Plymouth, PL1 2PB, United Kingdom 7 2 Plymouth University, Drake Circus, Plymouth, PL4 8AA, United Kingdom 8 3 Department of Molecular and Cell Biology, University of California, Berkeley, USA 9 4 Howard Hughes Medical Institute 10 5 Sars International Centre for Molecular Marine Biology, University of Bergen, 11 Thormohlensgate 55, 5020 Bergen, Norway 12 6 Current Affiliation: University of East Anglia, Norwich, NR4 7TJ, United Kingdom 13 14 *Correspondence [email protected] 15 16 17 18 19 20 21 22 23 24 25 bioRxiv preprint doi: https://doi.org/10.1101/452185; this version posted October 29, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 26 SUMMARY 27 Collar cells are ancient animal cell types which are conserved across the animal 28 kingdom [1] and their closest relatives, the choanoflagellates [2]. -
1 Lessons from Simple Marine Models on the Bacterial Regulation
bioRxiv preprint doi: https://doi.org/10.1101/211797; this version posted October 31, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Lessons from simple marine models on the bacterial regulation of eukaryotic development Arielle Woznicaa and Nicole Kinga,1 a Howard Hughes Medical Institute and Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, United States 1 Corresponding author, [email protected]. 1 bioRxiv preprint doi: https://doi.org/10.1101/211797; this version posted October 31, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Highlights 2 - Cues from environmental bacteria influence the development of many marine 3 eukaryotes 4 5 - The molecular cues produced by environmental bacteria are structurally diverse 6 7 - Eukaryotes can respond to many different environmental bacteria 8 9 - Some environmental bacteria act as “information hubs” for diverse eukaryotes 10 11 - Experimentally tractable systems, like the choanoflagellate S. rosetta, promise to 12 reveal molecular mechanisms underlying these interactions 13 14 Abstract 15 Molecular cues from environmental bacteria influence important developmental 16 decisions in diverse marine eukaryotes. Yet, relatively little is understood about the 17 mechanisms underlying these interactions, in part because marine ecosystems are 18 dynamic and complex. -
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PUBLIC LIBRARY of SCIENCE | plosgenetics.org | ISSN 1553-7390 | Volume 2 | Issue 12 | DECEMBER 2006 GENETICS PUBLIC LIBRARY of SCIENCE www.plosgenetics.org Volume 2 | Issue 12 | DECEMBER 2006 Interview Review Knight in Common Armor: 1949 Unraveling the Genetics 1956 An Interview with Sir John Sulston e225 of Human Obesity e188 Jane Gitschier David M. Mutch, Karine Clément Research Articles Natural Variants of AtHKT1 1964 The Complete Genome 2039 Enhance Na+ Accumulation e210 Sequence and Comparative e206 in Two Wild Populations of Genome Analysis of the High Arabidopsis Pathogenicity Yersinia Ana Rus, Ivan Baxter, enterocolitica Strain 8081 Balasubramaniam Muthukumar, Nicholas R. Thomson, Sarah Jeff Gustin, Brett Lahner, Elena Howard, Brendan W. Wren, Yakubova, David E. Salt Matthew T. G. Holden, Lisa Crossman, Gregory L. Challis, About the Cover Drosophila SPF45: A Bifunctional 1974 Carol Churcher, Karen The jigsaw image of representatives Protein with Roles in Both e178 Mungall, Karen Brooks, Tracey of various lines of eukaryote evolution Splicing and DNA Repair Chillingworth, Theresa Feltwell, refl ects the current lack of consensus as Ahmad Sami Chaouki, Helen K. Zahra Abdellah, Heidi Hauser, to how the major branches of eukaryotes Salz Kay Jagels, Mark Maddison, fi t together. The illustrations from upper Sharon Moule, Mandy Sanders, left to bottom right are as follows: a single Mammalian Small Nucleolar 1984 Sally Whitehead, Michael A. scale from the surface of Umbellosphaera; RNAs Are Mobile Genetic e205 Quail, Gordon Dougan, Julian Amoeba, the large amoeboid organism Elements Parkhill, Michael B. Prentice used as an introduction to protists for Michel J. Weber many school children; Euglena, the iconic Low Levels of Genetic 2052 fl agellate that is often used to challenge Soft Sweeps III: The Signature 1998 Divergence across e215 ideas of plants (Euglena has chloroplasts) of Positive Selection from e186 Geographically and and animals (Euglena moves); Stentor, Recurrent Mutation Linguistically Diverse one of the larger ciliates; Cacatua, the Pleuni S. -
Bacterial Cues Regulate Multicellular Development and Mating in the Choanoflagellate, S
Bacterial cues regulate multicellular development and mating in the choanoflagellate, S. rosetta By Arielle Woznica A dissertation submitted in partial satisfaction of the requirements for the degree of Doctor of Philosophy in Molecular and Cell Biology in the Graduate Division of the University of California, Berkeley Committee in charge: Professor Nicole King, Chair Professor Russell Vance Professor Diana Bautista Professor Brian Staskawicz Spring 2017 Abstract Bacterial cues regulate multicellular development and mating in the choanoflagellate, S. rosetta By Arielle Woznica Doctor of Philosophy in Molecular and Cell Biology University of California, Berkeley Professor Nicole King, Chair Animals first diverged from their unicellular ancestors in oceans dominated by bacteria, and have lived in close association with bacteria ever since. Interactions with bacteria critically shape diverse aspects of animal biology today, including developmental processes that were long thought to be autonomous. Yet, the multicellularity of animals and the often-complex communities of bacteria with which they are associated make it challenging to characterize the mechanisms underlying many bacterial-animal interactions. Thus, developing experimentally tractable host-microbe model systems will be essential for revealing the molecules and mechanisms by which bacteria influence animal development. The choanoflagellate Salpingoeca rosetta, one of the closest living relatives of animals, has emerged as an attractive model for studying host-microbe interactions. Like all choanoflagellates, S. rosetta feeds on bacteria; however, we have found that interactions between S. rosetta and bacteria extend beyond those of predator and prey. In fact, two key transitions in the life history of S. rosetta, multicellular “rosette” development and sexual reproduction, are regulated by environmental bacteria. -
Multigene Eukaryote Phylogeny Reveals the Likely Protozoan Ancestors of Opis- Thokonts (Animals, Fungi, Choanozoans) and Amoebozoa
Accepted Manuscript Multigene eukaryote phylogeny reveals the likely protozoan ancestors of opis- thokonts (animals, fungi, choanozoans) and Amoebozoa Thomas Cavalier-Smith, Ema E. Chao, Elizabeth A. Snell, Cédric Berney, Anna Maria Fiore-Donno, Rhodri Lewis PII: S1055-7903(14)00279-6 DOI: http://dx.doi.org/10.1016/j.ympev.2014.08.012 Reference: YMPEV 4996 To appear in: Molecular Phylogenetics and Evolution Received Date: 24 January 2014 Revised Date: 2 August 2014 Accepted Date: 11 August 2014 Please cite this article as: Cavalier-Smith, T., Chao, E.E., Snell, E.A., Berney, C., Fiore-Donno, A.M., Lewis, R., Multigene eukaryote phylogeny reveals the likely protozoan ancestors of opisthokonts (animals, fungi, choanozoans) and Amoebozoa, Molecular Phylogenetics and Evolution (2014), doi: http://dx.doi.org/10.1016/ j.ympev.2014.08.012 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. 1 1 Multigene eukaryote phylogeny reveals the likely protozoan ancestors of opisthokonts 2 (animals, fungi, choanozoans) and Amoebozoa 3 4 Thomas Cavalier-Smith1, Ema E. Chao1, Elizabeth A. Snell1, Cédric Berney1,2, Anna Maria 5 Fiore-Donno1,3, and Rhodri Lewis1 6 7 1Department of Zoology, University of Oxford, South Parks Road, Oxford OX1 3PS, UK. -
Towards a Management Hierarchy (Classification) for the Catalogue of Life
TOWARDS A MANAGEMENT HIERARCHY (CLASSIFICATION) FOR THE CATALOGUE OF LIFE Draft Discussion Document Rationale The Catalogue of Life partnership, comprising Species 2000 and ITIS (Integrated Taxonomic Information System), has the goal of achieving a comprehensive catalogue of all known species on Earth by the year 2011. The actual number of described species (after correction for synonyms) is not presently known but estimates suggest about 1.8 million species. The collaborative teams behind the Catalogue of Life need an agreed standard classification for these 1.8 million species, i.e. a working hierarchy for management purposes. This discussion document is intended to highlight some of the issues that need clarifying in order to achieve this goal beyond what we presently have. Concerning Classification Life’s diversity is classified into a hierarchy of categories. The best-known of these is the Kingdom. When Carl Linnaeus introduced his new “system of nature” in the 1750s ― Systema Naturae per Regna tria naturae, secundum Classes, Ordines, Genera, Species …) ― he recognised three kingdoms, viz Plantae, Animalia, and a third kingdom for minerals that has long since been abandoned. As is evident from the title of his work, he introduced lower-level taxonomic categories, each successively nested in the other, named Class, Order, Genus, and Species. The most useful and innovative aspect of his system (which gave rise to the scientific discipline of Systematics) was the use of the binominal, comprising genus and species, that uniquely identified each species of organism. Linnaeus’s system has proven to be robust for some 250 years. The starting point for botanical names is his Species Plantarum, published in 1753, and that for zoological names is the tenth edition of the Systema Naturae published in 1758. -
Protist Phylogeny and the High-Level Classification of Protozoa
Europ. J. Protistol. 39, 338–348 (2003) © Urban & Fischer Verlag http://www.urbanfischer.de/journals/ejp Protist phylogeny and the high-level classification of Protozoa Thomas Cavalier-Smith Department of Zoology, University of Oxford, South Parks Road, Oxford, OX1 3PS, UK; E-mail: [email protected] Received 1 September 2003; 29 September 2003. Accepted: 29 September 2003 Protist large-scale phylogeny is briefly reviewed and a revised higher classification of the kingdom Pro- tozoa into 11 phyla presented. Complementary gene fusions reveal a fundamental bifurcation among eu- karyotes between two major clades: the ancestrally uniciliate (often unicentriolar) unikonts and the an- cestrally biciliate bikonts, which undergo ciliary transformation by converting a younger anterior cilium into a dissimilar older posterior cilium. Unikonts comprise the ancestrally unikont protozoan phylum Amoebozoa and the opisthokonts (kingdom Animalia, phylum Choanozoa, their sisters or ancestors; and kingdom Fungi). They share a derived triple-gene fusion, absent from bikonts. Bikonts contrastingly share a derived gene fusion between dihydrofolate reductase and thymidylate synthase and include plants and all other protists, comprising the protozoan infrakingdoms Rhizaria [phyla Cercozoa and Re- taria (Radiozoa, Foraminifera)] and Excavata (phyla Loukozoa, Metamonada, Euglenozoa, Percolozoa), plus the kingdom Plantae [Viridaeplantae, Rhodophyta (sisters); Glaucophyta], the chromalveolate clade, and the protozoan phylum Apusozoa (Thecomonadea, Diphylleida). Chromalveolates comprise kingdom Chromista (Cryptista, Heterokonta, Haptophyta) and the protozoan infrakingdom Alveolata [phyla Cilio- phora and Miozoa (= Protalveolata, Dinozoa, Apicomplexa)], which diverged from a common ancestor that enslaved a red alga and evolved novel plastid protein-targeting machinery via the host rough ER and the enslaved algal plasma membrane (periplastid membrane). -
Group of Microorganisms at the Animal-Fungal Boundary
16 Aug 2002 13:56 AR AR168-MI56-14.tex AR168-MI56-14.SGM LaTeX2e(2002/01/18) P1: GJC 10.1146/annurev.micro.56.012302.160950 Annu. Rev. Microbiol. 2002. 56:315–44 doi: 10.1146/annurev.micro.56.012302.160950 First published online as a Review in Advance on May 7, 2002 THE CLASS MESOMYCETOZOEA: A Heterogeneous Group of Microorganisms at the Animal-Fungal Boundary Leonel Mendoza,1 John W. Taylor,2 and Libero Ajello3 1Medical Technology Program, Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing Michigan, 48824-1030; e-mail: [email protected] 2Department of Plant and Microbial Biology, University of California, Berkeley, California 94720-3102; e-mail: [email protected] 3Centers for Disease Control and Prevention, Mycotic Diseases Branch, Atlanta Georgia 30333; e-mail: [email protected] Key Words Protista, Protozoa, Neomonada, DRIP, Ichthyosporea ■ Abstract When the enigmatic fish pathogen, the rosette agent, was first found to be closely related to the choanoflagellates, no one anticipated finding a new group of organisms. Subsequently, a new group of microorganisms at the boundary between an- imals and fungi was reported. Several microbes with similar phylogenetic backgrounds were soon added to the group. Interestingly, these microbes had been considered to be fungi or protists. This novel phylogenetic group has been referred to as the DRIP clade (an acronym of the original members: Dermocystidium, rosette agent, Ichthyophonus, and Psorospermium), as the class Ichthyosporea, and more recently as the class Mesomycetozoea. Two orders have been described in the mesomycetozoeans: the Der- mocystida and the Ichthyophonida. So far, all members in the order Dermocystida have been pathogens either of fish (Dermocystidium spp. -
23.3 Groups of Protists
Chapter 23 | Protists 639 cysts that are a protective, resting stage. Depending on habitat of the species, the cysts may be particularly resistant to temperature extremes, desiccation, or low pH. This strategy allows certain protists to “wait out” stressors until their environment becomes more favorable for survival or until they are carried (such as by wind, water, or transport on a larger organism) to a different environment, because cysts exhibit virtually no cellular metabolism. Protist life cycles range from simple to extremely elaborate. Certain parasitic protists have complicated life cycles and must infect different host species at different developmental stages to complete their life cycle. Some protists are unicellular in the haploid form and multicellular in the diploid form, a strategy employed by animals. Other protists have multicellular stages in both haploid and diploid forms, a strategy called alternation of generations, analogous to that used by plants. Habitats Nearly all protists exist in some type of aquatic environment, including freshwater and marine environments, damp soil, and even snow. Several protist species are parasites that infect animals or plants. A few protist species live on dead organisms or their wastes, and contribute to their decay. 23.3 | Groups of Protists By the end of this section, you will be able to do the following: • Describe representative protist organisms from each of the six presently recognized supergroups of eukaryotes • Identify the evolutionary relationships of plants, animals, and fungi within the six presently recognized supergroups of eukaryotes • Identify defining features of protists in each of the six supergroups of eukaryotes. In the span of several decades, the Kingdom Protista has been disassembled because sequence analyses have revealed new genetic (and therefore evolutionary) relationships among these eukaryotes. -
A Flagellate-To-Amoeboid Switch in the Closest Living Relatives of Animals
RESEARCH ARTICLE A flagellate-to-amoeboid switch in the closest living relatives of animals Thibaut Brunet1,2*, Marvin Albert3, William Roman4, Maxwell C Coyle1,2, Danielle C Spitzer2, Nicole King1,2* 1Howard Hughes Medical Institute, Chevy Chase, United States; 2Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, United States; 3Department of Molecular Life Sciences, University of Zu¨ rich, Zurich, Switzerland; 4Department of Experimental and Health Sciences, Pompeu Fabra University (UPF), CIBERNED, Barcelona, Spain Abstract Amoeboid cell types are fundamental to animal biology and broadly distributed across animal diversity, but their evolutionary origin is unclear. The closest living relatives of animals, the choanoflagellates, display a polarized cell architecture (with an apical flagellum encircled by microvilli) that resembles that of epithelial cells and suggests homology, but this architecture differs strikingly from the deformable phenotype of animal amoeboid cells, which instead evoke more distantly related eukaryotes, such as diverse amoebae. Here, we show that choanoflagellates subjected to confinement become amoeboid by retracting their flagella and activating myosin- based motility. This switch allows escape from confinement and is conserved across choanoflagellate diversity. The conservation of the amoeboid cell phenotype across animals and choanoflagellates, together with the conserved role of myosin, is consistent with homology of amoeboid motility in both lineages. We hypothesize that -
The Choanoflagellate S. Rosetta Integrates Cues from Diverse Bacteria to Enhance Multicellular Development
The choanoflagellate S. rosetta integrates cues from diverse bacteria to enhance multicellular development By Ella Victoria Ireland A dissertation submitted in partial satisfaction of the requirements for the degree of Doctor of Philosophy in Molecular and Cell Biology in the Graduate Division of the University of California, Berkeley Committee in charge: Professor Nicole King, Chair Professor Russell Vance Professor Iswar Hariharan Professor Brian Staskawicz Fall 2019 Abstract The choanoflagellate S. rosetta integrates cues from diverse bacteria to enhance multicellular development By Ella Victoria Ireland Doctor of Philosophy in Molecular and Cell Biology University of California, Berkeley Professor Nicole King, Chair Bacteria play critical roles in regulating animal development, homeostasis and disease. Animals are often hosts to hundreds of different species of bacteria, which produce thousands of different molecules with the potential to influence animal biology. Direct interactions between different species of bacteria, as well as the environmental context of the animal-bacteria interaction, can have a significant impact on the outcome for the animal (Chapter 1). While we are beginning to understand the role of context in bacteria-animal interactions, surprisingly little is known about how animals integrate multiple distinct bacterial inputs. In my doctoral research I studied the choanoflagellate Salpingoeca rosetta, one of the closest living relatives of animals, to learn more about how eukaryotes integrate diverse bacterial cues. As with animals, bacteria regulate critical aspects of S. rosetta biology. The bacterium Algoriphagus machipongonensis produces sulfonolipid Rosette Inducing Factors (RIFs), which induce multicellular “rosette” development in S. rosetta. In contrast, the bacterium Vibrio fischeri produces a chondroitinase, EroS, which acts as an aphrodisiac and induces S. -
Oxygen Requirements of the Earliest Animals
Oxygen requirements of the earliest animals Daniel B. Millsa,1,2, Lewis M. Warda,b,1, CarriAyne Jonesa,c, Brittany Sweetena, Michael Fortha, Alexander H. Treuscha, and Donald E. Canfielda,2 aDepartment of Biology and Nordic Center for Earth Evolution, University of Southern Denmark, 5230 Odense M, Denmark; bDepartment of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA 91125; and cDepartment of Microbiology and Immunology, University of British Columbia, Vancouver, BC, Canada V6T 1Z3 Contributed by Donald E. Canfield, January 14, 2014 (sent for review August 26, 2013) A rise in the oxygen content of the atmosphere and oceans is one 0.36% PAL, depending primarily on the organism’s length, of the most popular explanations for the relatively late and abrupt width, and possession of a vascular system (19). For example, appearance of animal life on Earth. In this scenario, Earth’s surface although an animal limited by pure diffusion for its internal environment failed to meet the high oxygen requirements of ani- oxygen supply is estimated to require 10% PAL to reach milli- mals up until the middle to late Neoproterozoic Era (850–542 mil- meter width (15), a diffusion-limited, 600-μm-long by 25-μm- lion years ago), when oxygen concentrations sufficiently rose to wide worm is estimated to require ∼0.36% PAL, with a 3-mm- permit the existence of animal life for the first time. Although long by 67-μm-wide worm with a circulatory system requiring multiple lines of geochemical evidence support an oxygenation only ∼0.14% PAL (19). Therefore, these estimates suggest that of the Ediacaran oceans (635–542 million years ago), roughly cor- early animals, in general, may have had relatively low oxygen responding with the first appearance of metazoans in the fossil requirements.