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Broadly Sampled Multigene Analyses Yield a Well-Resolved Eukaryotic Tree of Life
Smith ScholarWorks Biological Sciences: Faculty Publications Biological Sciences 10-1-2010 Broadly Sampled Multigene Analyses Yield a Well-Resolved Eukaryotic Tree of Life Laura Wegener Parfrey University of Massachusetts Amherst Jessica Grant Smith College Yonas I. Tekle Smith College Erica Lasek-Nesselquist Marine Biological Laboratory Hilary G. Morrison Marine Biological Laboratory See next page for additional authors Follow this and additional works at: https://scholarworks.smith.edu/bio_facpubs Part of the Biology Commons Recommended Citation Parfrey, Laura Wegener; Grant, Jessica; Tekle, Yonas I.; Lasek-Nesselquist, Erica; Morrison, Hilary G.; Sogin, Mitchell L.; Patterson, David J.; and Katz, Laura A., "Broadly Sampled Multigene Analyses Yield a Well-Resolved Eukaryotic Tree of Life" (2010). Biological Sciences: Faculty Publications, Smith College, Northampton, MA. https://scholarworks.smith.edu/bio_facpubs/126 This Article has been accepted for inclusion in Biological Sciences: Faculty Publications by an authorized administrator of Smith ScholarWorks. For more information, please contact [email protected] Authors Laura Wegener Parfrey, Jessica Grant, Yonas I. Tekle, Erica Lasek-Nesselquist, Hilary G. Morrison, Mitchell L. Sogin, David J. Patterson, and Laura A. Katz This article is available at Smith ScholarWorks: https://scholarworks.smith.edu/bio_facpubs/126 Syst. Biol. 59(5):518–533, 2010 c The Author(s) 2010. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. All rights reserved. For Permissions, please email: [email protected] DOI:10.1093/sysbio/syq037 Advance Access publication on July 23, 2010 Broadly Sampled Multigene Analyses Yield a Well-Resolved Eukaryotic Tree of Life LAURA WEGENER PARFREY1,JESSICA GRANT2,YONAS I. TEKLE2,6,ERICA LASEK-NESSELQUIST3,4, 3 3 5 1,2, HILARY G. -
Testate Amoebae from South Vietnam Waterbodies with the Description of New Species Difflugia Vietnamicasp
Acta Protozool. (2018) 57: 215–229 www.ejournals.eu/Acta-Protozoologica ACTA doi:10.4467/16890027AP.18.016.10092 PROTOZOOLOGICA LSID urn:lsid:zoobank.org:pub:AEE9D12D-06BD-4539-AD97-87343E7FDBA3 Testate Amoebae from South Vietnam Waterbodies with the Description of New Species Difflugia vietnamicasp. nov. Hoan Q. TRANa, Yuri A. MAZEIb, c a Vietnamese-Russian Tropical Center, 63 Nguyen Van Huyen, Nghia Do, Cau Giay, Ha Noi, Vietnam b Department of Hydrobiology, Lomonosov Moscow State University, Moscow, Russia c Department of Zoology and Ecology, Penza State University, Penza, Russia Abstract. Testate amoebae in Vietnam are still poorly investigated. We studied species composition of testate amoebae in 47 waterbodies of South Vietnam provinces including natural lakes, reservoirs, wetlands, rivers, and irrigation channels. A total of 109 species and subspe- cies belonging to 16 genera, 9 families were identified from 191 samples. Thirty-five species and subspecies were observed in Vietnam for the first time. New speciesDifflugia vietnamica sp. nov. is described. The most species-rich genera are Difflugia (46 taxa), Arcella (25) and Centropyxis (14). Centropyxis aculeata was the most common species (observed in 68.1% samples). Centropyxis aerophila sphagniсola, Arcella discoides, Difflugia schurmanni and Lesquereusia modesta were characterised by a frequency of occurrence >20%. Other spe- cies were rarer. The species accumulation curve based on the entire dataset of this work was unsaturated and well fitted by equation S = 19.46N0.33. Species richness per sample in natural lakes and wetlands were significantly higher than that of rivers (p < 0.001). The result of the Spearman rank test shows weak or statistically insignificant relationships between species richness and water temperature, pH, dissolved oxygen, and electrical conductivity. -
Plant-Parasitic Algae (Chlorophyta: Trentepohliales) in American Samoa1
Plant-Parasitic Algae (Chlorophyta: Trentepohliales) in American Samoa1 Fnd E. Erooks 2 Abstract: A survey conducted betweenJune 2000 and May 2002 on the island of Tutuila, American Samoa, recorded filamentous green algae of the order Tren tepohliales (CWorophyta) and their plant hosts. Putative pathogenicity of the parasitic genus Cephaleuros and its lichenized state, Strig;ula, was also inves tigated. Three genera and nine species were identified: Cephaleuros (five spp.), Phycopeltis (two spp.), and Stomatochroon (two spp.). A widely distributed species of Trentepohlia was not classified. These algae occurred on 146 plant species and cultivars in 101 genera and 48 families; 90% of the hosts were dicotyledonous plants. Cephaleuros spp. have aroused worldwide curiosity, confusion, and con cern for over a century. Their hyphaelike filaments, sporangiophores, and as sociated plant damage have led unsuspecting plant pathologists to misidentify them as fungi, and some phycologists question their parasitic ability. Of the five species of Cephaleuros identified, C. virescens was the most prevalent, followed by C. parasiticus. Leaf tissue beneath thalli of Cephaleuros spp. on 124 different hosts was dissected with a scalpel and depth of necrosis evaluated using a four point scale. No injury was observed beneath thalli on 6% of the hosts, but full thickness necrosis occurred on leaves of 43% of hosts. Tissue damage beneath nonlichenized Cephaleuros thalli was equal to or greater than damage beneath lichenized thalli (Strig;ula elegans). In spite of moderate to severe leaf necrosis caused by Cephaleuros spp., damage was usually confined to older leaves near the base of plants. Unhealthy, crowded, poorly maintained plants tended to have the highest percentage of leaf surface area affected by TrentepoWiales. -
A Revised Classification of Naked Lobose Amoebae (Amoebozoa
Protist, Vol. 162, 545–570, October 2011 http://www.elsevier.de/protis Published online date 28 July 2011 PROTIST NEWS A Revised Classification of Naked Lobose Amoebae (Amoebozoa: Lobosa) Introduction together constitute the amoebozoan subphy- lum Lobosa, which never have cilia or flagella, Molecular evidence and an associated reevaluation whereas Variosea (as here revised) together with of morphology have recently considerably revised Mycetozoa and Archamoebea are now grouped our views on relationships among the higher-level as the subphylum Conosa, whose constituent groups of amoebae. First of all, establishing the lineages either have cilia or flagella or have lost phylum Amoebozoa grouped all lobose amoe- them secondarily (Cavalier-Smith 1998, 2009). boid protists, whether naked or testate, aerobic Figure 1 is a schematic tree showing amoebozoan or anaerobic, with the Mycetozoa and Archamoe- relationships deduced from both morphology and bea (Cavalier-Smith 1998), and separated them DNA sequences. from both the heterolobosean amoebae (Page and The first attempt to construct a congruent molec- Blanton 1985), now belonging in the phylum Per- ular and morphological system of Amoebozoa by colozoa - Cavalier-Smith and Nikolaev (2008), and Cavalier-Smith et al. (2004) was limited by the the filose amoebae that belong in other phyla lack of molecular data for many amoeboid taxa, (notably Cercozoa: Bass et al. 2009a; Howe et al. which were therefore classified solely on morpho- 2011). logical evidence. Smirnov et al. (2005) suggested The phylum Amoebozoa consists of naked and another system for naked lobose amoebae only; testate lobose amoebae (e.g. Amoeba, Vannella, this left taxa with no molecular data incertae sedis, Hartmannella, Acanthamoeba, Arcella, Difflugia), which limited its utility. -
Neoproterozoic Origin and Multiple Transitions to Macroscopic Growth in Green Seaweeds
Neoproterozoic origin and multiple transitions to macroscopic growth in green seaweeds Andrea Del Cortonaa,b,c,d,1, Christopher J. Jacksone, François Bucchinib,c, Michiel Van Belb,c, Sofie D’hondta, f g h i,j,k e Pavel Skaloud , Charles F. Delwiche , Andrew H. Knoll , John A. Raven , Heroen Verbruggen , Klaas Vandepoeleb,c,d,1,2, Olivier De Clercka,1,2, and Frederik Leliaerta,l,1,2 aDepartment of Biology, Phycology Research Group, Ghent University, 9000 Ghent, Belgium; bDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Zwijnaarde, Belgium; cVlaams Instituut voor Biotechnologie Center for Plant Systems Biology, 9052 Zwijnaarde, Belgium; dBioinformatics Institute Ghent, Ghent University, 9052 Zwijnaarde, Belgium; eSchool of Biosciences, University of Melbourne, Melbourne, VIC 3010, Australia; fDepartment of Botany, Faculty of Science, Charles University, CZ-12800 Prague 2, Czech Republic; gDepartment of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD 20742; hDepartment of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138; iDivision of Plant Sciences, University of Dundee at the James Hutton Institute, Dundee DD2 5DA, United Kingdom; jSchool of Biological Sciences, University of Western Australia, WA 6009, Australia; kClimate Change Cluster, University of Technology, Ultimo, NSW 2006, Australia; and lMeise Botanic Garden, 1860 Meise, Belgium Edited by Pamela S. Soltis, University of Florida, Gainesville, FL, and approved December 13, 2019 (received for review June 11, 2019) The Neoproterozoic Era records the transition from a largely clear interpretation of how many times and when green seaweeds bacterial to a predominantly eukaryotic phototrophic world, creat- emerged from unicellular ancestors (8). ing the foundation for the complex benthic ecosystems that have There is general consensus that an early split in the evolution sustained Metazoa from the Ediacaran Period onward. -
Lecture21 Stramenopiles-Phaeophyceae.Pptx
Stramenopiles IV (Ch. 14):! Phaeophyceae or Brown Algae" PHAEOPHYCEAE" •250 genera and +1500 spp" •Seaweeds: large, complex thalli (kelp); some filaments (no unicells or colonies)" •Almost all are marine (@ 5 FW genera)" •Chlorophylls a & c, #-carotene, fucoxanthin & violaxanthin " •PER " •Physodes (tannins = phenols)" •Walls: cellulose fibers with alginic acid (alginate)" •Storage products are:" • laminarin (#-1,3 glucan), " • mannitol (sap & “antifreeze”)" • lipids" •Flagella: Heterokont, of course!" •Fucans or fucoidins are sulfated sugars" How these algae grow?" GROWTH MODES AND MERISTEMS" DIFFUSE GROWTH: cell division is not localized: Ectocarpales" GROWTH MODES AND MERISTEMS" DIFFUSE GROWTH: cell division is not localized: Ectocarpales" MERISTEMATIC GROWTH: localized regions of cell division" 1. Apical cell" • Single: Sphacelariales, Dictyotales, Fucales" • Marginal: Dictyotales" Dictyota! Padina! Sphacelaria! Fucus! GROWTH MODES AND MERISTEMS" DIFFUSE GROWTH: cell division is not localized: Ectocarpales" MERISTEMATIC GROWTH: localized regions of cell division" 1. Apical cell" 2. Trichothalic: Desmarestiales, ! Cutleriales" Desmarestia! GROWTH MODES AND MERISTEMS" DIFFUSE GROWTH: cell division is not localized: Ectocarpales" MERISTEMATIC GROWTH: localized regions of cell division" 1. Apical cell" 2. Trichothalic: Desmarestiales, ! Cutleriales" 3. Intercalary: Laminariales" Laminaria! GROWTH MODES AND MERISTEMS" DIFFUSE GROWTH: cell division is not localized: Ectocarpales" MERISTEMATIC GROWTH: localized regions of cell division" 1. -
Terpenes and Sterols Composition of Marine Brown Algae Padina Pavonica (Dictyotales) and Hormophysa Triquetra (Fucales)
Available online on www.ijppr.com International Journal of Pharmacognosy and Phytochemical Research 2014-15; 6(4); 894-900 ISSN: 0975-4873 Research Article Terpenes and Sterols Composition of Marine Brown Algae Padina pavonica (Dictyotales) and Hormophysa triquetra (Fucales) *Gihan A. El Shoubaky, Essam A. Salem Botany Department, Faculty of Science, Suez Canal University, Ismailia, Egypt Available Online: 22nd November, 2014 ABSTRACT In this study the terpenes and sterols composition were identified and estimated qualitatively and quantitatively from the brown algae Padina pavonica (Dictyotales) and Hormophysa triquetra (Fucales) by using GC/MS (Gas Chromatography- Mass Spectrum). Significant differences were found in the terpenes and sterols composition of the selected algae. The analysis revealed the presence of 19 terpenes in Padina pavonica and 20 terpenes in Hormophysa triquetra, in addition to 5 sterols recoded in both of them.The total concentration of terpenes in Hormophysa triquetra recorded the highest percentage than Padina pavonica. In contrast, Padina pavonica registered high content of sterols than those in Hormophysa triquetra. The main terpene component was the hemiterpene 3-Furoic acid recording in Hormophysa triquetra more than in Padina pavonica. The diterpene phytol compound occupied the second rank according to their concentration percentage in both of the studied species. Hormophysa triquetra characterized by alkylbenzene derivatives more than Padina pavonica.Fucosterolwas the major sterol component in both of the selected algae recording a convergent concentration in Padina pavonica and Hormophysa triquetra. β- Sitosterol was detected only in Padina pavonica whereas β–Sitostanol and Stigmasterol were characterized in Hormophysa triquetra. Campesterol was found in the two studied species. -
Arcellinida: Rhizopoda) from India
Journal on New Biological Reports ISSN 2319 – 1104 (Online) JNBR 4(1) 41 – 45 (2015) Published by www.researchtrend.net First record of Centropyxis delicatula Penard, 1902 (Arcellinida: Rhizopoda) from India Jasmine Purushothaman1* and Bindu.L2 1* Protozoology Section, Zoological Survey of India, Kolkata-700053, India 2Marine Biology Regional Centre, Zoological Survey of India, Chennai. *Corresponding author:[email protected] | Received: 03February 2015 | Accepted: 07 March 2015 | ABSTRACT This is the first record of Centropyxis delicatula Penard, 1902 in India. Specimens were collected from the soil moss habitats of the state of Assam (Mangaldoi) and Tamilnadu (Villupuram, Kaliveli Lake). Distribution details and the key to the Centropyxis species reported from India are also presented. Key Words: Centropyxis delicatula, Assam, Soilmoss, Tamilnadu observed from two different habitats of two states INTRODUCTION of India, viz., Assam and Tamil Nadu. Centropyxis is a genus of testate amoeba of MATERIAL AND METHODS the class lobosea with a discoid or flattened test. The Genus Centropyxis belonging to the order The samples examined for the above cited species Arcellinida. It was erected by Stein 1857 with a were collected from the soil moss habitats of the type species Centropyxis aculeata and later it was Mangaldai town of Darrang district during the recorded by many workers worldwide. To date faunal survey of Assam in December, 2012. The more than 135 species and many varieties were district Darrang is situated in the central part of reported from world-wide and according to the Assam and on the northern side of the river natural habitat variability a variety of forms were Brahmaputra. -
Protistology an International Journal Vol
Protistology An International Journal Vol. 10, Number 2, 2016 ___________________________________________________________________________________ CONTENTS INTERNATIONAL SCIENTIFIC FORUM «PROTIST–2016» Yuri Mazei (Vice-Chairman) Welcome Address 2 Organizing Committee 3 Organizers and Sponsors 4 Abstracts 5 Author Index 94 Forum “PROTIST-2016” June 6–10, 2016 Moscow, Russia Website: http://onlinereg.ru/protist-2016 WELCOME ADDRESS Dear colleagues! Republic) entitled “Diplonemids – new kids on the block”. The third lecture will be given by Alexey The Forum “PROTIST–2016” aims at gathering Smirnov (Saint Petersburg State University, Russia): the researchers in all protistological fields, from “Phylogeny, diversity, and evolution of Amoebozoa: molecular biology to ecology, to stimulate cross- new findings and new problems”. Then Sandra disciplinary interactions and establish long-term Baldauf (Uppsala University, Sweden) will make a international scientific cooperation. The conference plenary presentation “The search for the eukaryote will cover a wide range of fundamental and applied root, now you see it now you don’t”, and the fifth topics in Protistology, with the major focus on plenary lecture “Protist-based methods for assessing evolution and phylogeny, taxonomy, systematics and marine water quality” will be made by Alan Warren DNA barcoding, genomics and molecular biology, (Natural History Museum, United Kingdom). cell biology, organismal biology, parasitology, diversity and biogeography, ecology of soil and There will be two symposia sponsored by ISoP: aquatic protists, bioindicators and palaeoecology. “Integrative co-evolution between mitochondria and their hosts” organized by Sergio A. Muñoz- The Forum is organized jointly by the International Gómez, Claudio H. Slamovits, and Andrew J. Society of Protistologists (ISoP), International Roger, and “Protists of Marine Sediments” orga- Society for Evolutionary Protistology (ISEP), nized by Jun Gong and Virginia Edgcomb. -
The Revised Classification of Eukaryotes
See discussions, stats, and author profiles for this publication at: https://www.researchgate.net/publication/231610049 The Revised Classification of Eukaryotes Article in Journal of Eukaryotic Microbiology · September 2012 DOI: 10.1111/j.1550-7408.2012.00644.x · Source: PubMed CITATIONS READS 961 2,825 25 authors, including: Sina M Adl Alastair Simpson University of Saskatchewan Dalhousie University 118 PUBLICATIONS 8,522 CITATIONS 264 PUBLICATIONS 10,739 CITATIONS SEE PROFILE SEE PROFILE Christopher E Lane David Bass University of Rhode Island Natural History Museum, London 82 PUBLICATIONS 6,233 CITATIONS 464 PUBLICATIONS 7,765 CITATIONS SEE PROFILE SEE PROFILE Some of the authors of this publication are also working on these related projects: Biodiversity and ecology of soil taste amoeba View project Predator control of diversity View project All content following this page was uploaded by Smirnov Alexey on 25 October 2017. The user has requested enhancement of the downloaded file. The Journal of Published by the International Society of Eukaryotic Microbiology Protistologists J. Eukaryot. Microbiol., 59(5), 2012 pp. 429–493 © 2012 The Author(s) Journal of Eukaryotic Microbiology © 2012 International Society of Protistologists DOI: 10.1111/j.1550-7408.2012.00644.x The Revised Classification of Eukaryotes SINA M. ADL,a,b ALASTAIR G. B. SIMPSON,b CHRISTOPHER E. LANE,c JULIUS LUKESˇ,d DAVID BASS,e SAMUEL S. BOWSER,f MATTHEW W. BROWN,g FABIEN BURKI,h MICAH DUNTHORN,i VLADIMIR HAMPL,j AARON HEISS,b MONA HOPPENRATH,k ENRIQUE LARA,l LINE LE GALL,m DENIS H. LYNN,n,1 HILARY MCMANUS,o EDWARD A. D. -
Lateral Gene Transfer of Anion-Conducting Channelrhodopsins Between Green Algae and Giant Viruses
bioRxiv preprint doi: https://doi.org/10.1101/2020.04.15.042127; this version posted April 23, 2020. 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 5 Lateral gene transfer of anion-conducting channelrhodopsins between green algae and giant viruses Andrey Rozenberg 1,5, Johannes Oppermann 2,5, Jonas Wietek 2,3, Rodrigo Gaston Fernandez Lahore 2, Ruth-Anne Sandaa 4, Gunnar Bratbak 4, Peter Hegemann 2,6, and Oded 10 Béjà 1,6 1Faculty of Biology, Technion - Israel Institute of Technology, Haifa 32000, Israel. 2Institute for Biology, Experimental Biophysics, Humboldt-Universität zu Berlin, Invalidenstraße 42, Berlin 10115, Germany. 3Present address: Department of Neurobiology, Weizmann 15 Institute of Science, Rehovot 7610001, Israel. 4Department of Biological Sciences, University of Bergen, N-5020 Bergen, Norway. 5These authors contributed equally: Andrey Rozenberg, Johannes Oppermann. 6These authors jointly supervised this work: Peter Hegemann, Oded Béjà. e-mail: [email protected] ; [email protected] 20 ABSTRACT Channelrhodopsins (ChRs) are algal light-gated ion channels widely used as optogenetic tools for manipulating neuronal activity 1,2. Four ChR families are currently known. Green algal 3–5 and cryptophyte 6 cation-conducting ChRs (CCRs), cryptophyte anion-conducting ChRs (ACRs) 7, and the MerMAID ChRs 8. Here we 25 report the discovery of a new family of phylogenetically distinct ChRs encoded by marine giant viruses and acquired from their unicellular green algal prasinophyte hosts. -
WA488 3831 P1825-T43-Nr4 AP.Pdf
Acta Protozool. (2004) 43: 291 - 301 Syndrome of the Failure to Turn off Mitotic Activity in Tetrahymena thermophila: in cdaA1 Phenotypes Ewa JOACHIMIAK, Janina KACZANOWSKA, Mauryla KIERSNOWSKA and Andrzej KACZANOWSKI Department of Cytophysiology, Institute of Zoology, Warsaw University, Warsaw, Poland Summary. During early micronuclear mitosis of a wild type Tetrahymena thermophila, basal body proliferation and cortical growth are localized in the equatorial region of the pre-dividing cell. These processes are arrested prior to cytokinesis when the fission line gaps appear in ciliary rows. Then a putative marker of cellular polarity, the fenestrin antigen, appears in the apical zone of the dividing cell and around the old oral apparatus (OA1) and in the cortex localized posterior to the fission line gaps and around the new oral apparatus (OA2) i.e. in the apical cortex of the prospective posterior daughter cell. Prior to cytokinesis, the membranelles within OA1 and OA2 oral apparatuses are strongly labeled with the MPM2 antibody against mitotic phosphoproteins. The transition to cytokinesis is correlated with disappearance of both the polar fenestrin staining and of the phosphoprotein antigens in OA1 and OA2. cdaA1 (cell division arrest) mutant cells grown at the restrictive temperature do not produce a fission line and they do not undergo cytokinesis thereby generating irregular chains. The cdaA1 phenotypes continue elongation of their ciliary rows in equatorial regions, mostly without formation of the fission line gaps, accompanied with repetitive micronuclear mitoses and repetitive formation of the defective oral structures. In cdaA1 cells at restrictive temperature, the fenestrin antigen was recruited and then permanently found in the apical regions and around all oral apparatuses, and was always absent in equatorial regions, in spite of variability of immunostaining patterns, sizes and advancement of organization of OAs in different specimens of the same sample.