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Synthesis of Phylogeny and Taxonomy Into a Comprehensive Tree of Life
Synthesis of phylogeny and taxonomy into a comprehensive tree of life Cody E. Hinchliffa,1, Stephen A. Smitha,1,2, James F. Allmanb, J. Gordon Burleighc, Ruchi Chaudharyc, Lyndon M. Coghilld, Keith A. Crandalle, Jiabin Dengc, Bryan T. Drewf, Romina Gazisg, Karl Gudeh, David S. Hibbettg, Laura A. Katzi, H. Dail Laughinghouse IVi, Emily Jane McTavishj, Peter E. Midfordd, Christopher L. Owenc, Richard H. Reed, Jonathan A. Reesk, Douglas E. Soltisc,l, Tiffani Williamsm, and Karen A. Cranstonk,2 aEcology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109; bInterrobang Corporation, Wake Forest, NC 27587; cDepartment of Biology, University of Florida, Gainesville, FL 32611; dField Museum of Natural History, Chicago, IL 60605; eComputational Biology Institute, George Washington University, Ashburn, VA 20147; fDepartment of Biology, University of Nebraska-Kearney, Kearney, NE 68849; gDepartment of Biology, Clark University, Worcester, MA 01610; hSchool of Journalism, Michigan State University, East Lansing, MI 48824; iBiological Science, Clark Science Center, Smith College, Northampton, MA 01063; jDepartment of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS 66045; kNational Evolutionary Synthesis Center, Duke University, Durham, NC 27705; lFlorida Museum of Natural History, University of Florida, Gainesville, FL 32611; and mComputer Science and Engineering, Texas A&M University, College Station, TX 77843 Edited by David M. Hillis, The University of Texas at Austin, Austin, TX, and approved July 28, 2015 (received for review December 3, 2014) Reconstructing the phylogenetic relationships that unite all line- published phylogenies are available only as journal figures, rather ages (the tree of life) is a grand challenge. The paucity of homologous than in electronic formats that can be integrated into databases and character data across disparately related lineages currently renders synthesis methods (7–9). -
Diversity of Alien Macroinvertebrate Species in Serbian Waters
water Article Diversity of Alien Macroinvertebrate Species in Serbian Waters Katarina Zori´c* , Ana Atanackovi´c,Jelena Tomovi´c,Božica Vasiljevi´c,Bojana Tubi´c and Momir Paunovi´c Department for Hydroecology and Water Protection, Institute for Biological Research “Siniša Stankovi´c”—NationalInstitute of Republic of Serbia, University of Belgrade, Bulevar despota Stefana 142, 11060 Belgrade, Serbia; [email protected] (A.A.); [email protected] (J.T.); [email protected] (B.V.); [email protected] (B.T.); [email protected] (M.P.) * Correspondence: [email protected] Received: 29 September 2020; Accepted: 7 December 2020; Published: 15 December 2020 Abstract: This article provides the first comprehensive list of alien macroinvertebrate species registered and/or established in aquatic ecosystems in Serbia as a potential threat to native biodiversity. The list comprised field investigations, articles, grey literature, and unpublished data. Twenty-nine species of macroinvertebrates have been recorded since 1942, with a domination of the Ponto-Caspian faunistic elements. The majority of recorded species have broad distribution and are naturalized in the waters of Serbia, while occasional or single findings of seven taxa indicate that these species have failed to form populations. Presented results clearly show that the Danube is the main corridor for the introduction and spread of non-native species into Serbia. Keywords: Serbia; inland waters; allochthonous species; introduction 1. Introduction The Water Framework Directive (WFD) [1] represents key regulation and one of the most important documents in the European Union water legislation since it was adopted in 2000. -
Molecular Confirmation of the North American Leech Placobdella Ornata (Verrill, 1872) (Hirudinida: Glossiphoniidae) in Europe
BioInvasions Records (2015) Volume 4, Issue 3: 185–188 Open Access doi: http://dx.doi.org/10.3391/bir.2015.4.3.05 © 2015 The Author(s). Journal compilation © 2015 REABIC Rapid Communication Molecular confirmation of the North American leech Placobdella ornata (Verrill, 1872) (Hirudinida: Glossiphoniidae) in Europe Jan Soors1*, Joost Mertens2, William E. Moser3, Dennis J. Richardson4, Charlotte I. Hammond4 and Eric A. Lazo-Wasem5 1Research Institute for Nature and Forest, Kliniekstraat 25, 1070 Brussels, Belgium 2Vlaamse Milieumaatschappij (VMM), Raymonde de Larochelaan 1, 9051 Sint-Denijs-Westrem, Belgium 3Smithsonian Institution, National Museum of Natural History, Department of Invertebrate Zoology, Museum Support Center MRC 534, 4210 Silver Hill Road, Suitland, MD 20746 USA 4School of Biological Sciences, Quinnipiac University, 275 Mt. Carmel Avenue, Hamden, Connecticut 06518 USA 5Division of Invertebrate Zoology, Peabody Museum of Natural History, Yale University, P.O. Box 208118, New Haven, Connecticut 06520 USA E-mail: [email protected] (JS), [email protected] (JM), [email protected] (WEM), [email protected] (DJR), [email protected] (CIH), [email protected] (EALW) *Corresponding author Received: 28 January 2015 / Accepted: 15 May 2015 / Published online: 12 June 2015 Handling editor: Vadim Panov Abstract Specimens of the North American leech, Placobdella ornata (Verrill, 1872) were confirmed from the Donkmeer, a freshwater lake in the province of East Flanders, Belgium, by morphological and molecular analysis. Leech specimens from Belgium were morphologically consistent with the syntype series and description of P. ornata by Verrill (1872). Molecular comparison of the Belgian specimens to specimens of P. ornata from the type locality (New Haven, Connecticut, USA) using the cytochrome c oxidase subunit I (COI) gene revealed a similarity of 99.5%. -
The Effect of Caffeine and Ethanol on Flatworm Regeneration
East Tennessee State University Digital Commons @ East Tennessee State University Electronic Theses and Dissertations Student Works 8-2007 The ffecE t of Caffeine nda Ethanol on Flatworm Regeneration. Erica Leighanne Collins East Tennessee State University Follow this and additional works at: https://dc.etsu.edu/etd Part of the Chemical and Pharmacologic Phenomena Commons Recommended Citation Collins, Erica Leighanne, "The Effect of Caffeine nda Ethanol on Flatworm Regeneration." (2007). Electronic Theses and Dissertations. Paper 2028. https://dc.etsu.edu/etd/2028 This Thesis - Open Access is brought to you for free and open access by the Student Works at Digital Commons @ East Tennessee State University. It has been accepted for inclusion in Electronic Theses and Dissertations by an authorized administrator of Digital Commons @ East Tennessee State University. For more information, please contact [email protected]. The Effect of Caffeine and Ethanol on Flatworm Regeneration ____________________ A thesis presented to the faculty of the Department of Biological Sciences East Tennessee State University In partial fulfillment of the requirements for the degree Master of Science in Biology ____________________ by Erica Leighanne Collins August 2007 ____________________ Dr. J. Leonard Robertson, Chair Dr. Thomas F. Laughlin Dr. Kevin Breuel Keywords: Regeneration, Planarian, Dugesia tigrina, Flatworms, Caffeine, Ethanol ABSTRACT The Effect of Caffeine and Ethanol on Flatworm Regeneration by Erica Leighanne Collins Flatworms, or planarian, have a high potential for regeneration and have been used as a model to investigate regeneration and stem cell biology for over a century. Chemicals, temperature, and seasonal factors can influence planarian regeneration. Caffeine and ethanol are two widely used drugs and their effect on flatworm regeneration was evaluated in this experiment. -
The Genome of Schmidtea Mediterranea and the Evolution Of
OPEN ArtICLE doi:10.1038/nature25473 The genome of Schmidtea mediterranea and the evolution of core cellular mechanisms Markus Alexander Grohme1*, Siegfried Schloissnig2*, Andrei Rozanski1, Martin Pippel2, George Robert Young3, Sylke Winkler1, Holger Brandl1, Ian Henry1, Andreas Dahl4, Sean Powell2, Michael Hiller1,5, Eugene Myers1 & Jochen Christian Rink1 The planarian Schmidtea mediterranea is an important model for stem cell research and regeneration, but adequate genome resources for this species have been lacking. Here we report a highly contiguous genome assembly of S. mediterranea, using long-read sequencing and a de novo assembler (MARVEL) enhanced for low-complexity reads. The S. mediterranea genome is highly polymorphic and repetitive, and harbours a novel class of giant retroelements. Furthermore, the genome assembly lacks a number of highly conserved genes, including critical components of the mitotic spindle assembly checkpoint, but planarians maintain checkpoint function. Our genome assembly provides a key model system resource that will be useful for studying regeneration and the evolutionary plasticity of core cell biological mechanisms. Rapid regeneration from tiny pieces of tissue makes planarians a prime De novo long read assembly of the planarian genome model system for regeneration. Abundant adult pluripotent stem cells, In preparation for genome sequencing, we inbred the sexual strain termed neoblasts, power regeneration and the continuous turnover of S. mediterranea (Fig. 1a) for more than 17 successive sib- mating of all cell types1–3, and transplantation of a single neoblast can rescue generations in the hope of decreasing heterozygosity. We also developed a lethally irradiated animal4. Planarians therefore also constitute a a new DNA isolation protocol that meets the purity and high molecular prime model system for stem cell pluripotency and its evolutionary weight requirements of PacBio long-read sequencing12 (Extended Data underpinnings5. -
Chromosome Numbers in Three Species Groups of Freshwater flatworms Increase with Increasing Latitude Sven Lorch, Dirk Zeuss, Roland Brandl & Martin Brandle€
Chromosome numbers in three species groups of freshwater flatworms increase with increasing latitude Sven Lorch, Dirk Zeuss, Roland Brandl & Martin Brandle€ Department of Ecology, Animal Ecology, Faculty of Biology, Philipps-Universitat€ Marburg, Karl-von-Frisch-Straße 8, 35043 Marburg, Germany Keywords Abstract Geographical range, parthenogenesis, Platyhelminthes, polyploidy, reproduction. Polyploidy in combination with parthenogenesis offers advantages for plasticity and the evolution of a broad ecological tolerance of species. Therefore, a posi- Correspondence tive correlation between the level of ploidy and increasing latitude as a surro- Martin Brandle,€ Department of Ecology, gate for environmental harshness has been suggested. Such a positive Animal Ecology, Faculty of Biology, Philipps- correlation is well documented for plants, but examples for animals are still € Universitat Marburg, Karl-von-Frisch-Straße 8, rare. Species of flatworms (Platyhelminthes) are widely distributed, show a 35043 Marburg, Germany. remarkably wide range of chromosome numbers, and offer therefore good Tel: +49 6421 28 26607; Fax: +49 6421 28 23387; model systems to study the geographical distribution of chromosome numbers. E-mail: [email protected] We analyzed published data on counts of chromosome numbers and geographi- cal information of three flatworm “species” (Phagocata vitta, Polycelis felina and Funding Information Crenobia alpina) sampled across Europe (220 populations). We used the mean DZ is supported by a PhD scholarship from chromosome number across individuals of a population as a proxy for the level Evangelisches Studienwerk Villigst, funded by of ploidy within populations, and we tested for relationships of this variable the German Federal Ministry of Education with latitude, mode of reproduction (sexual, asexual or both) and environmen- and Research tal variables (annual mean temperature, mean diurnal temperature range, mean Received: 2 March 2015; Revised: 16 precipitation and net primary production). -
Spermatogenesis and Spermatozoon Ultrastructure in Dugesia Sicula Lepori, 1948 (Platyhelminthes, Tricladida, Paludicola)
Belg. J. Zool., 140 (Suppl.): 118-125 July 2010 Spermatogenesis and spermatozoon ultrastructure in Dugesia sicula Lepori, 1948 (Platyhelminthes, Tricladida, Paludicola) Mohamed Charni1, Aouatef Ben Ammar2, Mohamed Habib Jaafoura2, Fathia Zghal1 and Saïda Tekaya1 1Université de Tunis El-Manar, Faculté des Sciences, Campus Universitaire, 2092 El-Manar Tunis, Tunisie. 2 Service commun pour la recherche en microscopie électronique à transmission, Faculté de Médecine de Tunis, 15, Rue Djebel Lakhdar La Rabta, 1007, Tunis. Corresponding author: Mohammed Charni; e-mail: [email protected] ABSTRACT. We examine for the first time spermatogenesis, spermiogenesis and spermatozoon ultrastructure in Dugesia sicula Lepori, 1948 a sexual and diploid planarian living in Tunisian springs. This TEM-study shows that early spermatids joined by cytophores have rounded nuclei. During spermiogenesis, a row of microtubules appears in the differentiation zone beneath the plasma membrane and close to the intercentriolar body, which consists of several dense bands connected by filaments. Two free flagella (9+1 configuration) grow out- side the spermatid. An apical layer of dense nucleoplasm develops and the flagellum appear, facing in opposite directions before rotating to lie parallel to each other after the intercentriolar body splits into two halves. Mitochondria are closely packed around the spermatocyte nucleus before fusing during spermiogenesis, to form a long mitochondrion, which lies parallel to the elongated nucleus along the ripe spermatozoon. The latter is thread-shaped and consists of two regions: the proximal process and a distal part. The former contains the nucleus and a part of the mitochondrion. The latter contains the rest of the mitochondrion and a tapering tail of the nucleus. -
R E S E a R C H / M a N a G E M E N T Aquatic and Terrestrial Flatworm (Platyhelminthes, Turbellaria) and Ribbon Worm (Nemertea)
RESEARCH/MANAGEMENT FINDINGSFINDINGS “Put a piece of raw meat into a small stream or spring and after a few hours you may find it covered with hundreds of black worms... When not attracted into the open by food, they live inconspicuously under stones and on vegetation.” – BUCHSBAUM, et al. 1987 Aquatic and Terrestrial Flatworm (Platyhelminthes, Turbellaria) and Ribbon Worm (Nemertea) Records from Wisconsin Dreux J. Watermolen D WATERMOLEN Bureau of Integrated Science Services INTRODUCTION The phylum Platyhelminthes encompasses three distinct Nemerteans resemble turbellarians and possess many groups of flatworms: the entirely parasitic tapeworms flatworm features1. About 900 (mostly marine) species (Cestoidea) and flukes (Trematoda) and the free-living and comprise this phylum, which is represented in North commensal turbellarians (Turbellaria). Aquatic turbellari- American freshwaters by three species of benthic, preda- ans occur commonly in freshwater habitats, often in tory worms measuring 10-40 mm in length (Kolasa 2001). exceedingly large numbers and rather high densities. Their These ribbon worms occur in both lakes and streams. ecology and systematics, however, have been less studied Although flatworms show up commonly in invertebrate than those of many other common aquatic invertebrates samples, few biologists have studied the Wisconsin fauna. (Kolasa 2001). Terrestrial turbellarians inhabit soil and Published records for turbellarians and ribbon worms in leaf litter and can be found resting under stones, logs, and the state remain limited, with most being recorded under refuse. Like their freshwater relatives, terrestrial species generic rubric such as “flatworms,” “planarians,” or “other suffer from a lack of scientific attention. worms.” Surprisingly few Wisconsin specimens can be Most texts divide turbellarians into microturbellarians found in museum collections and a specialist has yet to (those generally < 1 mm in length) and macroturbellari- examine those that are available. -
Method of Isolation and Characterization of Girardia Tigrina Stem Cells
BIOMEDICAL REPORTS 3: 163-166, 2015 Method of isolation and characterization of Girardia tigrina stem cells K.A.R. LOPES1,2, N.M.R. de CAMPOS VELHO2 and C. PACHECO-SOARES2 1Laboratory Planarians, Nature Study Center, University of Vale do Paraíba; 2Laboratory of Dynamics of Cellular Compartments, Institute of Research and Development, University of Vale do Paraíba, São José dos Campos, SP 12244-000, Brazil Received December 4, 2014; Accepted December 10, 2014 DOI: 10.3892/br.2014.408 Abstract. Tissue regeneration is widely studied due to its incubation and centrifugation. Antibody anti-OCT4 was used importance for understanding the biology of stem cells, aiming for the characterization of stem cells and was successfully at their application in medicine for therapeutic and various other labeled with concentrated neoblasts on interphase 1. purposes. The establishment of experimental models is neces- sary, as certain invertebrates and vertebrates have different Introduction regeneration abilities depending on their taxon position on the evolutionary scale. Planarians are an efficacious in vivo model Regeneration is a complex event that occurs in several verte- for stem cell biology, but the correlation between planarian brates and invertebrates (1). For regeneration to occur, one of cellular and molecular neoblast pluripotency mechanisms and the earliest signaling events following a lesion is the produc- those of mammalian stem cells is unknown. The present study tion of cells that are capable of rebuilding lost structures. The had the following objectives: i) Establish Girardia tigrina way that these events occur and the types of cells involved cell culture, ii) determine the time required for complete cell differ between animal groups (2). -
Neuropeptide Systems As Targets for Parasite and Pest Control ADVANCES in EXPERIMENTAL MEDICINE and BIOLOGY
Neuropeptide Systems as Targets for Parasite and Pest Control ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY Editorial Board: NATHAN BACK, State University of New York at Buffalo IRUN R. COHEN, The Weizmann Institute of Science ABEL LAJTHA, N.S. Kline Institute for Psychiatric Research JOHN D. LAMBRIS, University of Pennsylvania RODOLFO PAOLETTI, University of Milan Recent Volumes in this Series Volume 684 MEMORY T CELLS Edited by Maurizio Zanetti and Stephen P. Schoenberger Volume 685 DISEASES OF DNA REPAIR Edited by Shamim I. Ahmad Volume 686 RARE DISEASES EPIDEMIOLOGY Edited by Manuel Posada de la Paz and Stephen C. Groft Volume 687 BCL-2 PROTEIN FAMILY: ESSENTIAL REGULATORS OF CELL DEATH Edited by Claudio Hetz Volume 688 SPHINGOLIPIDS AS SIGNALING AND REGULATORY MOLECULES Edited by Charles Chalfant and Maurizio Del Poeta Volume 689 HOX GENES: STUDIES FROM THE 20TH TO THE 21ST CENTURY Edited by Jean S. Deutsch Volume 690 THE RENIN-ANGIOTENSIN SYSTEM: CURRENT RESEARCH PROGRESS IN THE PANCREAS Edited by Po Sing Leung Volume 691 ADVANCES IN TNF FAMILY RESEARCH Edited by David Wallach Volume 692 NEUROPEPTIDE SYSTEMS AS TARGETS FOR PARASITE AND PEST CONTROL Edited by Timothy G. Geary and Aaron G. Maule A Continuation Order Plan is available for this series. A continuation order will bring delivery of each new volume immediately upon publication. Volumes are billed only upon actual shipment. For further information please contact the publisher. Neuropeptide Systems as Targets for Parasite and Pest Control Edited by Timothy G. Geary, PhD Institute of Parasitology, McGill University, Montréal, Québec, Canada Aaron G. Maule, PhD Parasitology, School of Biological Sciences, Medical Biology Centre, Queen’s University Belfast, Belfast, UK Springer Science+Business Media, LLC Landes Bioscience Springer Science+Business Media, LLC Landes Bioscience Copyright ©2010 Landes Bioscience and Springer Science+Business Media, LLC All rights reserved. -
Freshwater Planarians (Platyhelminthes, Tricladida) from the Iberian Peninsula and Greece: Diversity and Notes on Ecology
Zootaxa 2779: 1–38 (2011) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2011 · Magnolia Press ISSN 1175-5334 (online edition) Freshwater planarians (Platyhelminthes, Tricladida) from the Iberian Peninsula and Greece: diversity and notes on ecology MIQUEL VILA-FARRÉ1,5, RONALD SLUYS2, ÍO ALMAGRO3, METTE HANDBERG-THORSAGER4 & RAFAEL ROMERO1 1Departament de Genètica, Facultat de Biologia, Universitat de Barcelona, Spain 2Institute for Biodiversity and Ecosystem Dynamics & Zoological Museum, University of Amsterdam, Ph. O. Box 94766, 1090 GT Amsterdam, The Netherlands 3Departamento de Biología Evolutiva y Biodiversidad. Museo Nacional de Ciencias Naturales, Madrid, Spain 4European Molecular Biology Laboratory, Developmental Biology Programme, Meyerhofstrasse 1, 69012 Heidelberg, Germany 5Corresponding author. E-mail: [email protected] Table of contents Abstract . 2 Introduction . 2 Material and methods . 4 Order Tricladida Lang, 1884 . 5 Suborder Continenticola Carranza, Littlewood, Clough, Ruiz-Trillo, Baguñà & Riutort, 1998 . 5 Family Dendrocoelidae Hallez, 1892 . 5 Genus Dendrocoelum Örsted, 1844 . 5 Dendrocoelum spatiosum Vila-Farré & Sluys, sp. nov. 5 Dendrocoelum inexspectatum Vila-Farré & Sluys, sp. nov. 10 Family Planariidae Stimpson, 1857 . 12 Genus Phagocata Leidy, 1847 . 12 Phagocata flamenca Vila-Farré & Sluys, sp. nov. 12 Phagocata asymmetrica Vila-Farré & Sluys, sp. nov. 15 Phagocata gallaeciae Vila-Farré & Sluys, sp. nov. 18 Phagocata pyrenaica Vila-Farré & Sluys, sp. nov. 20 Phagocata sp. 24 Phagocata hellenica Vila-Farré & Sluys, sp. nov. 24 Phagocata graeca Vila-Farré & Sluys, sp. nov. 27 Genus Polycelis Ehrenberg, 1831 . 30 Polycelis nigra (Müller, 1774) . 30 Family Dugesiidae Ball, 1974 . 30 Genus Girardia Ball, 1974 . 30 Girardia tigrina (Girard, 1850). 30 Genus Schmitdtea Ball, 1974. 31 Schmidtea polychroa (Schmidt, 1861) . -
Planarians, a Neglected Component of Biodiversity in Groundwaters
diversity Article Planarians, a Neglected Component of Biodiversity in Groundwaters Benedetta Barzaghi 1,2,* , Davide De Giorgi 1, Roberta Pennati 1 and Raoul Manenti 1,2 1 Department of Environmental Science and Policy, Università degli Studi di Milano, via Celoria 26, 20133 Milano, Italy; [email protected] (D.D.G.); [email protected] (R.P.); [email protected] (R.M.) 2 Laboratorio di Biologia Sotterranea “Enrico Pezzoli”, Parco Regionale del Monte Barro, Località Eremo, 23851 Galbiate, Italy * Correspondence: [email protected] Abstract: Underground waters are still one of the most important sources of drinking water for the planet. Moreover, the fauna that inhabits these waters is still little known, even if it could be used as an effective bioindicator. Among cave invertebrates, planarians are strongly suited to be used as a study model to understand adaptations and trophic web features. Here, we show a systematic literature review that aims to investigate the studies done so far on groundwater-dwelling planarians. The research was done using Google Scholar and Web of Science databases. Using the key words “Planarian cave” and “Flatworm Cave” we found 2273 papers that our selection reduced to only 48, providing 113 usable observations on 107 different species of planarians from both groundwaters and springs. Among the most interesting results, it emerged that planarians are at the top of the food chain in two thirds of the reported caves, and in both groundwaters and springs they show a high variability of morphological adaptations to subterranean environments. This is a first attempt to review the phylogeny of the groundwater-dwelling planarias, focusing on the online literature.