Soil Protistology Rebooted : 30 Fundamental Questions to Start With
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Functional Traits and Spatio-Temporal Structure of a Major Group of Soil Protists (Rhizaria: Cercozoa) in a Temperate Grassland
fmicb-10-01332 June 8, 2019 Time: 10:19 # 1 ORIGINAL RESEARCH published: 11 June 2019 doi: 10.3389/fmicb.2019.01332 Functional Traits and Spatio-Temporal Structure of a Major Group of Soil Protists (Rhizaria: Cercozoa) in a Temperate Grassland Anna Maria Fiore-Donno1,2*, Tim Richter-Heitmann3, Florine Degrune4,5, Kenneth Dumack1,2, Kathleen M. Regan6, Sven Marhan7, Runa S. Boeddinghaus7, Matthias C. Rillig4,5, Michael W. Friedrich3, Ellen Kandeler7 and Michael Bonkowski1,2 1 Terrestrial Ecology Group, Institute of Zoology, University of Cologne, Cologne, Germany, 2 Cluster of Excellence on Plant Sciences (CEPLAS), Cologne, Germany, 3 Microbial Ecophysiology Group, Faculty of Biology/Chemistry, University of Bremen, Bremen, Germany, 4 Institute of Biology, Plant Ecology, Freie Universität Berlin, Berlin, Germany, 5 Berlin-Brandenburg Institute of Advanced Biodiversity Research, Berlin, Germany, 6 The Ecosystems Center, Marine Biological Laboratory, Woods Hole, MA, United States, 7 Department of Soil Biology, Institute of Soil Science and Land Evaluation, University of Hohenheim, Stuttgart, Germany Edited by: Soil protists are increasingly appreciated as essential components of soil foodwebs; Jaak Truu, University of Tartu, Estonia however, there is a dearth of information on the factors structuring their communities. Reviewed by: Here we investigate the importance of different biotic and abiotic factors as key Anne Winding, drivers of spatial and seasonal distribution of protistan communities. We conducted Aarhus University, Denmark 2 Ida Karlsson, an intensive survey of a 10 m grassland plot in Germany, focusing on a major group Swedish University of Agricultural of protists, the Cercozoa. From 177 soil samples, collected from April to November, Sciences, Sweden we obtained 694 Operational Taxonomy Units representing 6 million Illumina reads. -
Antony Van Leeuwenhoek, the Father of Microscope
Turkish Journal of Biochemistry – Türk Biyokimya Dergisi 2016; 41(1): 58–62 Education Sector Letter to the Editor – 93585 Emine Elif Vatanoğlu-Lutz*, Ahmet Doğan Ataman Medicine in philately: Antony Van Leeuwenhoek, the father of microscope Pullardaki tıp: Antony Van Leeuwenhoek, mikroskobun kaşifi DOI 10.1515/tjb-2016-0010 only one lens to look at blood, insects and many other Received September 16, 2015; accepted December 1, 2015 objects. He was first to describe cells and bacteria, seen through his very small microscopes with, for his time, The origin of the word microscope comes from two Greek extremely good lenses (Figure 1) [3]. words, “uikpos,” small and “okottew,” view. It has been After van Leeuwenhoek’s contribution,there were big known for over 2000 years that glass bends light. In the steps in the world of microscopes. Several technical inno- 2nd century BC, Claudius Ptolemy described a stick appear- vations made microscopes better and easier to handle, ing to bend in a pool of water, and accurately recorded the which led to microscopy becoming more and more popular angles to within half a degree. He then very accurately among scientists. An important discovery was that lenses calculated the refraction constant of water. During the combining two types of glass could reduce the chromatic 1st century,around year 100, glass had been invented and effect, with its disturbing halos resulting from differences the Romans were looking through the glass and testing in refraction of light (Figure 2) [4]. it. They experimented with different shapes of clear glass In 1830, Joseph Jackson Lister reduced the problem and one of their samples was thick in the middle and thin with spherical aberration by showing that several weak on the edges [1]. -
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. -
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. -
Data-Mining Approaches Reveal Hidden Families of Proteases in The
Downloaded from genome.cshlp.org on October 5, 2021 - Published by Cold Spring Harbor Laboratory Press Letter Data-Mining Approaches Reveal Hidden Families of Proteases in the Genome of Malaria Parasite Yimin Wu,1,4 Xiangyun Wang,2 Xia Liu,1 and Yufeng Wang3,5 1Department of Protistology, American Type Culture Collection, Manassas, Virginia 20110, USA; 2EST Informatics, Astrazeneca Pharmaceuticals, Wilmington, Delaware 19810, USA; 3Department of Bioinformatics, American Type Culture Collection, Manassas, Virginia 20110, USA The search for novel antimalarial drug targets is urgent due to the growing resistance of Plasmodium falciparum parasites to available drugs. Proteases are attractive antimalarial targets because of their indispensable roles in parasite infection and development,especially in the processes of host e rythrocyte rupture/invasion and hemoglobin degradation. However,to date,only a small number of protease s have been identified and characterized in Plasmodium species. Using an extensive sequence similarity search,we have identifi ed 92 putative proteases in the P. falciparum genome. A set of putative proteases including calpain,metacaspase,and s ignal peptidase I have been implicated to be central mediators for essential parasitic activity and distantly related to the vertebrate host. Moreover,of the 92,at least 88 have been demonstrate d to code for gene products at the transcriptional levels,based upon the microarray and RT-PCR results,an d the publicly available microarray and proteomics data. The present study represents an initial effort to identify a set of expressed,active,and essential proteases as targets for inhibitor-based drug design. [Supplemental material is available online at www.genome.org.] Malaria remains one of the most dangerous infectious diseases metalloprotease (falcilysin; Eggleson et al. -
VII EUROPEAN CONGRESS of PROTISTOLOGY in Partnership with the INTERNATIONAL SOCIETY of PROTISTOLOGISTS (VII ECOP - ISOP Joint Meeting)
See discussions, stats, and author profiles for this publication at: https://www.researchgate.net/publication/283484592 FINAL PROGRAMME AND ABSTRACTS BOOK - VII EUROPEAN CONGRESS OF PROTISTOLOGY in partnership with THE INTERNATIONAL SOCIETY OF PROTISTOLOGISTS (VII ECOP - ISOP Joint Meeting) Conference Paper · September 2015 CITATIONS READS 0 620 1 author: Aurelio Serrano Institute of Plant Biochemistry and Photosynthesis, Joint Center CSIC-Univ. of Seville, Spain 157 PUBLICATIONS 1,824 CITATIONS SEE PROFILE Some of the authors of this publication are also working on these related projects: Use Tetrahymena as a model stress study View project Characterization of true-branching cyanobacteria from geothermal sites and hot springs of Costa Rica View project All content following this page was uploaded by Aurelio Serrano on 04 November 2015. The user has requested enhancement of the downloaded file. VII ECOP - ISOP Joint Meeting / 1 Content VII ECOP - ISOP Joint Meeting ORGANIZING COMMITTEES / 3 WELCOME ADDRESS / 4 CONGRESS USEFUL / 5 INFORMATION SOCIAL PROGRAMME / 12 CITY OF SEVILLE / 14 PROGRAMME OVERVIEW / 18 CONGRESS PROGRAMME / 19 Opening Ceremony / 19 Plenary Lectures / 19 Symposia and Workshops / 20 Special Sessions - Oral Presentations / 35 by PhD Students and Young Postdocts General Oral Sessions / 37 Poster Sessions / 42 ABSTRACTS / 57 Plenary Lectures / 57 Oral Presentations / 66 Posters / 231 AUTHOR INDEX / 423 ACKNOWLEDGMENTS-CREDITS / 429 President of the Organizing Committee Secretary of the Organizing Committee Dr. Aurelio Serrano -
Diversity and Distribution of Heterotrophic Flagellates in the Arctic Ocean
Diversity and distribution of heterotrophic flagellates in the Arctic Ocean Thèse Mary Thaler Doctorat en Océanographie Philosophiae Doctor (PhD.) Québec, Canada © Mary Thaler, 2014 2 Résumé Dans les environnements marins arctiques, les protistes unicellulaires constituent les premiers maillons du réseau trophique. Les flagellés hétérotrophes (HF) jouent un rôle clé au sein de ce réseau trophique comme brouteurs de bactéries et de phytoplanctons, étant broutés à leur tour par les microzooplanctons comme les dinoflagellés ou les ciliés. Les scientifiques prévoient que les changements environnementaux extrêmes qui ont présentement lieu dans l‟Océan Arctique transformeront ces communautés de protistes. Le sujet de cette thèse porte sur la composition taxonomique des communautés marines HF dans l‟Océan Arctique, et leur réponse aux facteurs environnementaux. L‟approche a été d‟utiliser le comptage sur microscope à l‟aide de l‟hybridation fluorescente in situ pour évaluer l‟abondance de deux taxons HF importants, le genre Cryothecomonas et le clade MAST-1 parmi les straménopiles marins. Une approche complémentaire a été de décrire la répartition de tous les taxons HF, y compris l‟ordre Cryomonadida, les straménopiles marins, Picozoa, Telonemia, et les choanoflagellés, par l‟utilisation du séquençage à haut débit. Les résultats des deux approches nous ont permis de capturer les tendances environnementales sur une large échelle géographique dans l‟Arctique. Il a été mis en évidence une composition taxonomique structurée, principalement dû à l‟influence de la glace de mer et d‟autres facteurs environnementaux. Les cellules de Cryothecomonas semblaient provenir de la glace de mer, et au sein de la colonne d‟eau ils se trouvaient les plus nombreuses près du bord de glace. -
Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes
University of Rhode Island DigitalCommons@URI Biological Sciences Faculty Publications Biological Sciences 9-26-2018 Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes Christopher E. Lane Et Al Follow this and additional works at: https://digitalcommons.uri.edu/bio_facpubs Journal of Eukaryotic Microbiology ISSN 1066-5234 ORIGINAL ARTICLE Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes Sina M. Adla,* , David Bassb,c , Christopher E. Laned, Julius Lukese,f , Conrad L. Schochg, Alexey Smirnovh, Sabine Agathai, Cedric Berneyj , Matthew W. Brownk,l, Fabien Burkim,PacoCardenas n , Ivan Cepi cka o, Lyudmila Chistyakovap, Javier del Campoq, Micah Dunthornr,s , Bente Edvardsent , Yana Eglitu, Laure Guillouv, Vladimır Hamplw, Aaron A. Heissx, Mona Hoppenrathy, Timothy Y. Jamesz, Anna Karn- kowskaaa, Sergey Karpovh,ab, Eunsoo Kimx, Martin Koliskoe, Alexander Kudryavtsevh,ab, Daniel J.G. Lahrac, Enrique Laraad,ae , Line Le Gallaf , Denis H. Lynnag,ah , David G. Mannai,aj, Ramon Massanaq, Edward A.D. Mitchellad,ak , Christine Morrowal, Jong Soo Parkam , Jan W. Pawlowskian, Martha J. Powellao, Daniel J. Richterap, Sonja Rueckertaq, Lora Shadwickar, Satoshi Shimanoas, Frederick W. Spiegelar, Guifre Torruellaat , Noha Youssefau, Vasily Zlatogurskyh,av & Qianqian Zhangaw a Department of Soil Sciences, College of Agriculture and Bioresources, University of Saskatchewan, Saskatoon, S7N 5A8, SK, Canada b Department of Life Sciences, The Natural History Museum, Cromwell Road, London, SW7 5BD, United Kingdom -
Uncovering the Variable Life History Traits and Strategies of the Gregarine Parasite, Monocystis Perplexa, in Its Invasive Earthworm Host, Amynthas Agrestis
University of Vermont ScholarWorks @ UVM Graduate College Dissertations and Theses Dissertations and Theses 2018 Uncovering The aV riable Life History Traits And Strategies Of The Gregarine Parasite, Monocystis Perplexa, In Its Invasive Earthworm Host, Amynthas Agrestis Erin L. Keller University of Vermont Follow this and additional works at: https://scholarworks.uvm.edu/graddis Part of the Biology Commons, Ecology and Evolutionary Biology Commons, and the Parasitology Commons Recommended Citation Keller, Erin L., "Uncovering The aV riable Life History Traits And Strategies Of The Gregarine Parasite, Monocystis Perplexa, In Its Invasive Earthworm Host, Amynthas Agrestis" (2018). Graduate College Dissertations and Theses. 929. https://scholarworks.uvm.edu/graddis/929 This Thesis is brought to you for free and open access by the Dissertations and Theses at ScholarWorks @ UVM. It has been accepted for inclusion in Graduate College Dissertations and Theses by an authorized administrator of ScholarWorks @ UVM. For more information, please contact [email protected]. UNCOVERING THE VARIABLE LIFE HISTORY TRAITS AND STRATEGIES OF THE GREGARINE PARASITE, MONOCYSTIS PERPLEXA, IN ITS INVASIVE EARTHWORM HOST, AMYNTHAS AGRESTIS A Thesis Presented by Erin L. Keller to The Faculty of the Graduate College of The University of Vermont In Partial Fulfillment of the Requirements for the Degree of Master of Science Specializing in Biology October, 2018 Defense Date: May 15, 2018 Thesis Examination Committee: Joseph J. Schall, Ph.D., Advisor Josef H. Görres, Ph.D., Chairperson Lori Stevens, Ph.D. Cynthia J. Forehand, Ph.D., Dean of the Graduate College ABSTRACT Parasite life histories influence many aspects of infection dynamics, from the parasite infrapopulation diversity to the fitness of the parasite (the number of successfully transmitted parasites). -
Using Protistan Diversity to Promote Evolution Literacy Guillermo Paz-Y-Miño-C University of Massachusetts Ad Rtmouth
Roger Williams University DOCS@RWU Feinstein College of Arts & Sciences Faculty Feinstein College of Arts and Sciences Publications 2012 Introduction: Why People Do Not Accept Evolution: Using Protistan Diversity to Promote Evolution Literacy Guillermo Paz-y-Miño-C University of Massachusetts aD rtmouth Avelina Espinosa Roger Williams University, [email protected] Follow this and additional works at: http://docs.rwu.edu/fcas_fp Part of the Biology Commons Recommended Citation Paz-y-Miño-C, Guillermo and Avelina Espinosa. 2012. "Introduction: Why People Do Not Accept Evolution: Using Protistan Diversity to Promote Evolution Literacy." Journal of Eukaryotic Microbiology 59 (2): 101-104. This Article is brought to you for free and open access by the Feinstein College of Arts and Sciences at DOCS@RWU. It has been accepted for inclusion in Feinstein College of Arts & Sciences Faculty Publications by an authorized administrator of DOCS@RWU. For more information, please contact [email protected]. The Journal of Published by the International Society of Eukaryotic Microbiology Protistologists J. Eukaryot. Microbiol., 59(2), 2012 pp. 101–104 © 2012 The Author(s) Journal of Eukaryotic Microbiology © 2012 International Society of Protistologists DOI: 10.1111/j.1550-7408.2011.00604.x Introduction: Why People Do Not Accept Evolution: Using Protistan Diversity to Promote Evolution Literacy1 GUILLERMO PAZ-Y-MIN˜O-C.a and AVELINA ESPINOSAb aDepartment of Biology, University of Massachusetts Dartmouth, North Dartmouth, Massachusetts 02747, USA, and bDepartment of Biology, Roger Williams University, Bristol, Rhode Island 02809, USA ABSTRACT. The controversy evolution vs. creationism is inherent to the incompatibility between scientific rationalism/empiri- cism and the belief in supernatural causation. -
Aggregative Multicellularity Evolved Independently in the Eukaryotic Supergroup Rhizaria
Current Biology 22, 1123–1127, June 19, 2012 ª2012 Elsevier Ltd All rights reserved DOI 10.1016/j.cub.2012.04.021 Report Aggregative Multicellularity Evolved Independently in the Eukaryotic Supergroup Rhizaria Matthew W. Brown,1,* Martin Kolisko,1,2 called a sorocarp (Figure 1A). Their life cycles are socially Jeffrey D. Silberman,3 and Andrew J. Roger1,* intricate because each cell retains its individuality yet works 1Centre for Comparative Genomics and Evolutionary with other like-cells to form a variably complex multicellular Bioinformatics, Department of Biochemistry sorocarp. The ‘‘patchy’’ phylogenetic distribution of soro- and Molecular Biology carpic protists across the tree of eukaryotes suggests that 2Centre for Comparative Genomics and Evolutionary they have independently converged upon this analogous Bioinformatics, Department of Biology mode of propagule dispersal, which is also similar to that of Dalhousie University, Halifax, Nova Scotia, B3H 4R2, Canada the analogous life cycle in myxobacteria [9]. Here we conclu- 3Department of Biological Sciences, University of Arkansas, sively determine the evolutionary position of Guttulinopsis Fayetteville, AR, 72701, USA vulgaris, a ubiquitous but under-studied sorocarpic amoeba, using a phylogenomic approach with one of the largest protein supermatrices assembled to date that encompasses all major Summary groups of eukaryotes. The genus Guttulinopsis, composed of four species, was Multicellular forms of life have evolved many times, indepen- described over a century ago [10] and has been variously dently giving rise to a diversity of organisms such as classified [11, 12]. Guttulinopsis vulgaris is the most common animals, plants, and fungi that together comprise the visible species and can be found globally on the dung of various biosphere. -
Diversity, Phylogeny and Phylogeography of Free-Living Amoebae
School of Doctoral Studies in Biological Sciences University of South Bohemia in České Budějovice Faculty of Science Diversity, phylogeny and phylogeography of free-living amoebae Ph.D. Thesis RNDr. Tomáš Tyml Supervisor: Mgr. Martin Kostka, Ph.D. Department of Parasitology, Faculty of Science, University of South Bohemia in České Budějovice Specialist adviser: Prof. MVDr. Iva Dyková, Dr.Sc. Department of Botany and Zoology, Faculty of Science, Masaryk University České Budějovice 2016 This thesis should be cited as: Tyml, T. 2016. Diversity, phylogeny and phylogeography of free living amoebae. Ph.D. Thesis Series, No. 13. University of South Bohemia, Faculty of Science, School of Doctoral Studies in Biological Sciences, České Budějovice, Czech Republic, 135 pp. Annotation This thesis consists of seven published papers on free-living amoebae (FLA), members of Amoebozoa, Excavata: Heterolobosea, and Cercozoa, and covers three main topics: (i) FLA as potential fish pathogens, (ii) diversity and phylogeography of FLA, and (iii) FLA as hosts of prokaryotic organisms. Diverse methodological approaches were used including culture-dependent techniques for isolation and identification of free-living amoebae, molecular phylogenetics, fluorescent in situ hybridization, and transmission electron microscopy. Declaration [in Czech] Prohlašuji, že svoji disertační práci jsem vypracoval samostatně pouze s použitím pramenů a literatury uvedených v seznamu citované literatury. Prohlašuji, že v souladu s § 47b zákona č. 111/1998 Sb. v platném znění souhlasím se zveřejněním své disertační práce, a to v úpravě vzniklé vypuštěním vyznačených částí archivovaných Přírodovědeckou fakultou elektronickou cestou ve veřejně přístupné části databáze STAG provozované Jihočeskou univerzitou v Českých Budějovicích na jejích internetových stránkách, a to se zachováním mého autorského práva k odevzdanému textu této kvalifikační práce.