Protist Diversity
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												  COMPARISON of HEMOLYTIC ACTIVITY of Amphidinium Carterae and Amphidinium KlebsiiENVIRONMENTAL REGULATION OF TOXIN PRODUCTION: COMPARISON OF HEMOLYTIC ACTIVITY OF Amphidinium carterae AND Amphidinium klebsii Leigh A. Zimmermann A Thesis Submitted to University of North Carolina Wilmington in Partial Fulfillment Of the Requirements for the Degree of Master of Science Center for Marine Science University of North Carolina Wilmington 2006 Approved by Advisory Committee ______________________________ ______________________________ ______________________________ Chair Accepted by _____________________________ Dean, Graduate School This thesis was prepared according to the formatting guidelines of the Journal of Phycology. TABLE OF CONTENTS ABSTRACT................................................................................................................................... iv ACKNOWLEDGEMENTS.............................................................................................................v LIST OF TABLES......................................................................................................................... vi LIST OF FIGURES ..................................................................................................................... viii INTRODUCTION ...........................................................................................................................1 METHODS AND MATERIALS.....................................................................................................6 Algal Culture........................................................................................................................6
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												  Morphology, Phylogeny, and Diversity of Trichonympha (Parabasalia: Hypermastigida) of the Wood-Feeding Cockroach Cryptocercus PunctulatusJ. Eukaryot. Microbiol., 56(4), 2009 pp. 305–313 r 2009 The Author(s) Journal compilation r 2009 by the International Society of Protistologists DOI: 10.1111/j.1550-7408.2009.00406.x Morphology, Phylogeny, and Diversity of Trichonympha (Parabasalia: Hypermastigida) of the Wood-Feeding Cockroach Cryptocercus punctulatus KEVIN J. CARPENTER, LAWRENCE CHOW and PATRICK J. KEELING Canadian Institute for Advanced Research, Botany Department, University of British Columbia, University Boulevard, Vancouver, BC, Canada V6T 1Z4 ABSTRACT. Trichonympha is one of the most complex and visually striking of the hypermastigote parabasalids—a group of anaerobic flagellates found exclusively in hindguts of lower termites and the wood-feeding cockroach Cryptocercus—but it is one of only two genera common to both groups of insects. We investigated Trichonympha of Cryptocercus using light and electron microscopy (scanning and transmission), as well as molecular phylogeny, to gain a better understanding of its morphology, diversity, and evolution. Microscopy reveals numerous new features, such as previously undetected bacterial surface symbionts, adhesion of post-rostral flagella, and a dis- tinctive frilled operculum. We also sequenced small subunit rRNA gene from manually isolated species, and carried out an environmental polymerase chain reaction (PCR) survey of Trichonympha diversity, all of which strongly supports monophyly of Trichonympha from Cryptocercus to the exclusion of those sampled from termites. Bayesian and distance methods support a relationship between Tricho- nympha species from termites and Cryptocercus, although likelihood analysis allies the latter with Eucomonymphidae. A monophyletic Trichonympha is of great interest because recent evidence supports a sister relationship between Cryptocercus and termites, suggesting Trichonympha predates the Cryptocercus-termite divergence.
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												  Unfolding the Secrets of Coral–Algal SymbiosisThe ISME Journal (2015) 9, 844–856 & 2015 International Society for Microbial Ecology All rights reserved 1751-7362/15 www.nature.com/ismej ORIGINAL ARTICLE Unfolding the secrets of coral–algal symbiosis Nedeljka Rosic1, Edmund Yew Siang Ling2, Chon-Kit Kenneth Chan3, Hong Ching Lee4, Paulina Kaniewska1,5,DavidEdwards3,6,7,SophieDove1,8 and Ove Hoegh-Guldberg1,8,9 1School of Biological Sciences, The University of Queensland, St Lucia, Queensland, Australia; 2University of Queensland Centre for Clinical Research, The University of Queensland, Herston, Queensland, Australia; 3School of Agriculture and Food Sciences, The University of Queensland, St Lucia, Queensland, Australia; 4The Kinghorn Cancer Centre, Garvan Institute of Medical Research, Sydney, New South Wales, Australia; 5Australian Institute of Marine Science, Townsville, Queensland, Australia; 6School of Plant Biology, University of Western Australia, Perth, Western Australia, Australia; 7Australian Centre for Plant Functional Genomics, The University of Queensland, St Lucia, Queensland, Australia; 8ARC Centre of Excellence for Coral Reef Studies, The University of Queensland, St Lucia, Queensland, Australia and 9Global Change Institute and ARC Centre of Excellence for Coral Reef Studies, The University of Queensland, St Lucia, Queensland, Australia Dinoflagellates from the genus Symbiodinium form a mutualistic symbiotic relationship with reef- building corals. Here we applied massively parallel Illumina sequencing to assess genetic similarity and diversity among four phylogenetically diverse dinoflagellate clades (A, B, C and D) that are commonly associated with corals. We obtained more than 30 000 predicted genes for each Symbiodinium clade, with a majority of the aligned transcripts corresponding to sequence data sets of symbiotic dinoflagellates and o2% of sequences having bacterial or other foreign origin.
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												  The Planktonic Protist Interactome: Where Do We Stand After a Century of Research?bioRxiv preprint doi: https://doi.org/10.1101/587352; this version posted May 2, 2019. 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. Bjorbækmo et al., 23.03.2019 – preprint copy - BioRxiv The planktonic protist interactome: where do we stand after a century of research? Marit F. Markussen Bjorbækmo1*, Andreas Evenstad1* and Line Lieblein Røsæg1*, Anders K. Krabberød1**, and Ramiro Logares2,1** 1 University of Oslo, Department of Biosciences, Section for Genetics and Evolutionary Biology (Evogene), Blindernv. 31, N- 0316 Oslo, Norway 2 Institut de Ciències del Mar (CSIC), Passeig Marítim de la Barceloneta, 37-49, ES-08003, Barcelona, Catalonia, Spain * The three authors contributed equally ** Corresponding authors: Ramiro Logares: Institute of Marine Sciences (ICM-CSIC), Passeig Marítim de la Barceloneta 37-49, 08003, Barcelona, Catalonia, Spain. Phone: 34-93-2309500; Fax: 34-93-2309555. [email protected] Anders K. Krabberød: University of Oslo, Department of Biosciences, Section for Genetics and Evolutionary Biology (Evogene), Blindernv. 31, N-0316 Oslo, Norway. Phone +47 22845986, Fax: +47 22854726. [email protected] Abstract Microbial interactions are crucial for Earth ecosystem function, yet our knowledge about them is limited and has so far mainly existed as scattered records. Here, we have surveyed the literature involving planktonic protist interactions and gathered the information in a manually curated Protist Interaction DAtabase (PIDA). In total, we have registered ~2,500 ecological interactions from ~500 publications, spanning the last 150 years.
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												  Detection of the Benthic Dinoflagellates, Ostreopsis Cf. OvataJournal of Marine Science and Engineering Article Detection of the Benthic Dinoflagellates, Ostreopsis cf. ovata and Amphidinium massartii (Dinophyceae), Using Loop-Mediated Isothermal Amplification Eun Sun Lee, Jinik Hwang, Jun-Ho Hyung and Jaeyeon Park * Environment and Resource Convergence Center, Advanced Institute of Convergence Technology, Suwon 16229, Korea; [email protected] (E.S.L.); [email protected] (J.H.); [email protected] (J.-H.H.) * Correspondence: [email protected]; Tel.: +82-31-888-9042 Abstract: For the in situ and sensitive detection of benthic dinoflagellates, we have established an integrated loop-mediated isothermal amplification (LAMP) assay based on Ostreopsis cf. ovata and Amphidinium massartii. To detect the two species, a set of species-specific primers was constructed between the ITS gene and D1–D6 LSU gene, and the reaction temperature, time, and buffer com- position were optimized to establish this method. In addition, the specificity of the LAMP primers was verified both in strains established in the laboratory and in field samples collected from the Jeju coastal waters, Korea. With the LAMP assay, the analysing time was within 45 to 60 min, which may be shorter than that with the conventional PCR. The detection sensitivity of the LAMP assay for O. cf. ovata or A. massartii was comparable to other molecular assays (PCR and quantitative PCR (qPCR)) and microscopy examination. The detection limit of LAMP was 0.1 cell of O. cf. ovata and 1 cell of A. massartii. The optimized LAMP assay was successfully applied to detect O. cf. ovata and A. massartii Citation: Lee, E.S.; Hwang, J.; in field samples.
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												  (Alveolata) As Inferred from Hsp90 and Actin Phylogenies1J. Phycol. 40, 341–350 (2004) r 2004 Phycological Society of America DOI: 10.1111/j.1529-8817.2004.03129.x EARLY EVOLUTIONARY HISTORY OF DINOFLAGELLATES AND APICOMPLEXANS (ALVEOLATA) AS INFERRED FROM HSP90 AND ACTIN PHYLOGENIES1 Brian S. Leander2 and Patrick J. Keeling Canadian Institute for Advanced Research, Program in Evolutionary Biology, Departments of Botany and Zoology, University of British Columbia, Vancouver, British Columbia, Canada Three extremely diverse groups of unicellular The Alveolata is one of the most biologically diverse eukaryotes comprise the Alveolata: ciliates, dino- supergroups of eukaryotic microorganisms, consisting flagellates, and apicomplexans. The vast phenotypic of ciliates, dinoflagellates, apicomplexans, and several distances between the three groups along with the minor lineages. Although molecular phylogenies un- enigmatic distribution of plastids and the economic equivocally support the monophyly of alveolates, and medical importance of several representative members of the group share only a few derived species (e.g. Plasmodium, Toxoplasma, Perkinsus, and morphological features, such as distinctive patterns of Pfiesteria) have stimulated a great deal of specula- cortical vesicles (syn. alveoli or amphiesmal vesicles) tion on the early evolutionary history of alveolates. subtending the plasma membrane and presumptive A robust phylogenetic framework for alveolate pinocytotic structures, called ‘‘micropores’’ (Cavalier- diversity will provide the context necessary for Smith 1993, Siddall et al. 1997, Patterson
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												  The Florida Red Tide Dinoflagellate Karenia BrevisG Model HARALG-488; No of Pages 11 Harmful Algae xxx (2009) xxx–xxx Contents lists available at ScienceDirect Harmful Algae journal homepage: www.elsevier.com/locate/hal Review The Florida red tide dinoflagellate Karenia brevis: New insights into cellular and molecular processes underlying bloom dynamics Frances M. Van Dolah a,*, Kristy B. Lidie a, Emily A. Monroe a, Debashish Bhattacharya b, Lisa Campbell c, Gregory J. Doucette a, Daniel Kamykowski d a Marine Biotoxins Program, NOAA Center for Coastal Environmental Health and Biomolecular Resarch, Charleston, SC, United States b Department of Biological Sciences and Roy J. Carver Center for Comparative Genomics, University of Iowa, Iowa City, IA, United States c Department of Oceanography, Texas A&M University, College Station, TX, United States d Department of Marine, Earth and Atmospheric Sciences, North Carolina State University, Raleigh, NC, United States ARTICLE INFO ABSTRACT Article history: The dinoflagellate Karenia brevis is responsible for nearly annual red tides in the Gulf of Mexico that Available online xxx cause extensive marine mortalities and human illness due to the production of brevetoxins. Although the mechanisms regulating its bloom dynamics and toxicity have received considerable attention, Keywords: investigation into these processes at the cellular and molecular level has only begun in earnest during Bacterial–algal interactions the past decade. This review provides an overview of the recent advances in our understanding of the Cell cycle cellular and molecular biology on K. brevis. Several molecular resources developed for K. brevis, including Dinoflagellate cDNA and genomic DNA libraries, DNA microarrays, metagenomic libraries, and probes for population Florida red tide genetics, have revolutionized our ability to investigate fundamental questions about K.
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												  Trichonympha Burlesquei N. Sp. from Reticulitermes Virginicus and Evidence Against a Cosmopolitan Distribution of Trichonympha Agilis in Many Termite HostsInternational Journal of Systematic and Evolutionary Microbiology (2013), 63, 3873–3876 DOI 10.1099/ijs.0.054874-0 Trichonympha burlesquei n. sp. from Reticulitermes virginicus and evidence against a cosmopolitan distribution of Trichonympha agilis in many termite hosts Erick R. James,1 Vera Tai,1 Rudolf H. Scheffrahn2 and Patrick J. Keeling1 Correspondence 1Canadian Institute for Advanced Research, Department of Botany, University of British Columbia, Patrick J. Keeling Vancouver, BC, Canada [email protected] 2University of Florida Research & Education Center, 3205 College Avenue, Davie, FL 33314, USA Historically, symbiotic protists in termite hindguts have been considered to be the same species if they are morphologically similar, even if they are found in different host species. For example, the first-described hindgut and hypermastigote parabasalian, Trichonympha agilis (Leidy, 1877) has since been documented in six species of Reticulitermes, in addition to the original discovery in Reticulitermes flavipes. Here we revisit one of these, Reticulitermes virginicus, using molecular phylogenetic analysis from single-cell isolates and show that the Trichonympha in R. virginicus is distinct from isolates in the type host and describe this novel species as Trichonympha burlesquei n. sp. We also show the molecular diversity of Trichonympha from the type host R. flavipes is greater than supposed, itself probably representing more than one species. All of this is consistent with recent data suggesting a major underestimate of termite symbiont diversity. Members of the genus Trichonympha are large and species of termite: in practice, similar-looking symbionts of structurally complex parabasalians exclusively found in the genus Trichonympha from different termite species are the symbiotic, lignocellulose-digesting hindgut community assumed to be the same species.
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												  Molecular Characterization and Phylogeny of Four New Species of the Genus Trichonympha (Parabasalia, Trichonymphea) from Lower Termite HindgutsTAXONOMIC DESCRIPTION Boscaro et al., Int J Syst Evol Microbiol 2017;67:3570–3575 DOI 10.1099/ijsem.0.002169 Molecular characterization and phylogeny of four new species of the genus Trichonympha (Parabasalia, Trichonymphea) from lower termite hindguts Vittorio Boscaro,1,* Erick R. James,1 Rebecca Fiorito,1 Elisabeth Hehenberger,1 Anna Karnkowska,1,2 Javier del Campo,1 Martin Kolisko,1,3 Nicholas A. T. Irwin,1 Varsha Mathur,1 Rudolf H. Scheffrahn4 and Patrick J. Keeling1 Abstract Members of the genus Trichonympha are among the most well-known, recognizable and widely distributed parabasalian symbionts of lower termites and the wood-eating cockroach species of the genus Cryptocercus. Nevertheless, the species diversity of this genus is largely unknown. Molecular data have shown that the superficial morphological similarities traditionally used to identify species are inadequate, and have challenged the view that the same species of the genus Trichonympha can occur in many different host species. Ambiguities in the literature, uncertainty in identification of both symbiont and host, and incomplete samplings are limiting our understanding of the systematics, ecology and evolution of this taxon. Here we describe four closely related novel species of the genus Trichonympha collected from South American and Australian lower termites: Trichonympha hueyi sp. nov. from Rugitermes laticollis, Trichonympha deweyi sp. nov. from Glyptotermes brevicornis, Trichonympha louiei sp. nov. from Calcaritermes temnocephalus and Trichonympha webbyae sp. nov. from Rugitermes bicolor. We provide molecular barcodes to identify both the symbionts and their hosts, and infer the phylogeny of the genus Trichonympha based on small subunit rRNA gene sequences. The analysis confirms the considerable divergence of symbionts of members of the genus Cryptocercus, and shows that the two clades of the genus Trichonympha harboured by termites reflect only in part the phylogeny of their hosts.
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												  Waterborne Pathogens in Agricultural WatershedsUnited States Department of Waterborne Pathogens in Agriculture Natural Resources Agricultural Watersheds Conservation Service Watershed Science by Barry H. Rosen Institute NRCS, Watershed Science Institute School of Natural Resources University of Vermont, Burlington Contents Introduction ..................................................... 1 Pathogens of concern ..................................... 3 Pathogens in the environment .....................22 Control methods............................................ 33 Monitoring and evaluation ........................... 43 Anticipated developments ........................... 47 Summary ........................................................ 48 Glossary .......................................................... 49 References...................................................... 52 With contributions by Richard Croft, Natural Resources Conservation Service (retired) Edward R. Atwill, D.V.M., Ph.D., School of Veterinary Medicine, University of California-Davis, 18830 Road 112, Tulare, California Susan Stehman, V.M.D., Senior Extension Veterinarian, New York State Diagnostic Laboratory, College of Veterinary Medicine, Cornell University, Ithaca, New York Susan Wade, Ph.D., Director Parasitology Laboratory, New York State Diagnostic Laboratory, College of Veterinary Medicine, Cornell University, Ithaca, New York Issued June 2000 The United States Department of Agriculture (USDA) prohibits discrimi- nation in all its programs and activities on the basis of race, color, na- tional origin, gender,
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												  Trichonympha CfMOLECULAR PHYLOGENETICS OF TRICHONYMPHA CF. COLLARIS AND A PUTATIVE PYRSONYMPHID: THE RELEVANCE TO THE ORIGIN OF SEX by JOEL BRYAN DACKS B.Sc. The University of Alberta, 1995 A THESIS SUBMITTED IN PARTIAL FULFILMENT OF THE REQUIREMENTS FOR THE DEGREE OF MASTER'S OF SCIENCE in THE FACULTY OF GRADUATE STUDIES (Department of Zoology) We accept this thesis as conforming to the required standard THE UNIVERSITY OF BRITISH COLUMBIA April 1998 © Joel Bryan Dacks, 1998 In presenting this thesis in partial fulfilment of the requirements for an advanced degree at the University of British Columbia, I agree that the Library shall make it freely available for reference and study. I further agree that permission for extensive copying of this thesis for scholarly purposes may be granted by the head of my department or by his or her representatives. It is understood that copying or publication of this thesis for financial gain shall not be allowed without my written permission. Department of ~2—oc)^Oa^ The University of British Columbia Vancouver, Canada Date {X^ZY Z- V. /^P DE-6 (2/88) Abstract Why sex evolved is one of the central questions in evolutionary genetics. To address this question I have undertaken a molecular phylogenetic study of two candidate lineages to determine the first sexual line. In my thesis the hypermastigotes are confirmed as closely related to the trichomonads in the phylum Parabasalia and found to be more deeply divergent than a putative pyrsonymphid. This means that the Parabasalia are the first sexual lineage. From this I go on to infer that the ancestral sexual cycle included facultative sex.
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												  That of a Typical Flagellate. the Flagella May Equally Well Be Called CiliaZOOLOGY; KOFOID AND SWEZY 9 FLAGELLATE AFFINITIES OF TRICHONYMPHA BY CHARLES ATWOOD KOFOID AND OLIVE SWEZY ZOOLOGICAL LABORATORY, UNIVERSITY OF CALIFORNIA Communicated by W. M. Wheeler, November 13, 1918 The methods of division among the Protozoa are of fundamental signifi- cance from an evolutionary standpoint. Unlike the Metazoa which present, as a whole, only minor variations in this process in the different taxonomic groups and in the many different types of cells in the body, the Protozoa have evolved many and widely diverse types of mitotic phenomena, which are Fharacteristic of the groups into which the phylum is divided. Some strik- ing confirmation of the value of this as a clue to relationships has been found in recent work along these lines. The genus Trichonympha has, since its discovery in 1877 by Leidy,1 been placed, on the one hand, in the ciliates and, on the other, in the flagellates, and of late in an intermediate position between these two classes, by different investigators. Certain points in its structure would seem to justify each of these assignments. A more critical study of its morphology and especially of its methods of division, however, definitely place it in the flagellates near the Polymastigina. At first glance Trichonympha would undoubtedly be called a ciliate. The body is covered for about two-thirds of its surface with a thick coating of cilia or flagella of varying lengths, which stream out behind the body. It also has a thick, highly differentiated ectoplasm which contains an alveolar layer as well as a complex system of myonemes.