Nutritional Mode and Specialization Alter Protist Consumer Diversity Effects on Prey Assemblages
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Molecular Data and the Evolutionary History of Dinoflagellates by Juan Fernando Saldarriaga Echavarria Diplom, Ruprecht-Karls-Un
Molecular data and the evolutionary history of dinoflagellates by Juan Fernando Saldarriaga Echavarria Diplom, Ruprecht-Karls-Universitat Heidelberg, 1993 A THESIS SUBMITTED IN PARTIAL FULFILMENT OF THE REQUIREMENTS FOR THE DEGREE OF DOCTOR OF PHILOSOPHY in THE FACULTY OF GRADUATE STUDIES Department of Botany We accept this thesis as conforming to the required standard THE UNIVERSITY OF BRITISH COLUMBIA November 2003 © Juan Fernando Saldarriaga Echavarria, 2003 ABSTRACT New sequences of ribosomal and protein genes were combined with available morphological and paleontological data to produce a phylogenetic framework for dinoflagellates. The evolutionary history of some of the major morphological features of the group was then investigated in the light of that framework. Phylogenetic trees of dinoflagellates based on the small subunit ribosomal RNA gene (SSU) are generally poorly resolved but include many well- supported clades, and while combined analyses of SSU and LSU (large subunit ribosomal RNA) improve the support for several nodes, they are still generally unsatisfactory. Protein-gene based trees lack the degree of species representation necessary for meaningful in-group phylogenetic analyses, but do provide important insights to the phylogenetic position of dinoflagellates as a whole and on the identity of their close relatives. Molecular data agree with paleontology in suggesting an early evolutionary radiation of the group, but whereas paleontological data include only taxa with fossilizable cysts, the new data examined here establish that this radiation event included all dinokaryotic lineages, including athecate forms. Plastids were lost and replaced many times in dinoflagellates, a situation entirely unique for this group. Histones could well have been lost earlier in the lineage than previously assumed. -
Body Size and Biomass Distributions of Carrion Visiting Beetles: Do Cities Host Smaller Species?
Ecol Res (2008) 23: 241–248 DOI 10.1007/s11284-007-0369-9 ORIGINAL ARTICLE Werner Ulrich Æ Karol Komosin´ski Æ Marcin Zalewski Body size and biomass distributions of carrion visiting beetles: do cities host smaller species? Received: 15 November 2006 / Accepted: 14 February 2007 / Published online: 28 March 2007 Ó The Ecological Society of Japan 2007 Abstract The question how animal body size changes Introduction along urban–rural gradients has received much attention from carabidologists, who noticed that cities harbour Animal and plant body size is correlated with many smaller species than natural sites. For Carabidae this aspects of life history traits and species interactions pattern is frequently connected with increasing distur- (dispersal, reproduction, energy intake, competition; bance regimes towards cities, which favour smaller Brown et al. 2004; Brose et al. 2006). Therefore, species winged species of higher dispersal ability. However, body size distributions (here understood as the fre- whether changes in body size distributions can be gen- quency distribution of log body size classes, SSDs) are eralised and whether common patterns exist are largely often used to infer patterns of species assembly and unknown. Here we report on body size distributions of energy use (Peters 1983; Calder 1984; Holling 1992; carcass-visiting beetles along an urban–rural gradient in Gotelli and Graves 1996; Etienne and Olff 2004; Ulrich northern Poland. Based on samplings of 58 necrophages 2005a, 2006). and 43 predatory beetle species, mainly of the families Many of the studies on local SSDs focused on the Catopidae, Silphidae, and Staphylinidae, we found number of modes and the shape. -
Protists and the Wild, Wild West of Gene Expression
MI70CH09-Keeling ARI 3 August 2016 18:22 ANNUAL REVIEWS Further Click here to view this article's online features: • Download figures as PPT slides • Navigate linked references • Download citations Protists and the Wild, Wild • Explore related articles • Search keywords West of Gene Expression: New Frontiers, Lawlessness, and Misfits David Roy Smith1 and Patrick J. Keeling2 1Department of Biology, University of Western Ontario, London, Ontario, Canada N6A 5B7; email: [email protected] 2Canadian Institute for Advanced Research, Department of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4; email: [email protected] Annu. Rev. Microbiol. 2016. 70:161–78 Keywords First published online as a Review in Advance on constructive neutral evolution, mitochondrial transcription, plastid June 17, 2016 transcription, posttranscriptional processing, RNA editing, trans-splicing The Annual Review of Microbiology is online at micro.annualreviews.org Abstract This article’s doi: The DNA double helix has been called one of life’s most elegant structures, 10.1146/annurev-micro-102215-095448 largely because of its universality, simplicity, and symmetry. The expression Annu. Rev. Microbiol. 2016.70:161-178. Downloaded from www.annualreviews.org Copyright c 2016 by Annual Reviews. Access provided by University of British Columbia on 09/24/17. For personal use only. of information encoded within DNA, however, can be far from simple or All rights reserved symmetric and is sometimes surprisingly variable, convoluted, and wantonly inefficient. Although exceptions to the rules exist in certain model systems, the true extent to which life has stretched the limits of gene expression is made clear by nonmodel systems, particularly protists (microbial eukary- otes). -
Cell Size and Proportional Distance Assessment During Determination of Organelle Position in the Cortex of the Ciliate Tetrahymena
J. Cell Set. ai, 35-46 (1976) 35 Printed in Great Britain CELL SIZE AND PROPORTIONAL DISTANCE ASSESSMENT DURING DETERMINATION OF ORGANELLE POSITION IN THE CORTEX OF THE CILIATE TETRAHYMENA D. H. LYNN AND J. B. TUCKER Department of Zoology, The University, St Andrews, Fife KY16 <)TS, Scotland SUMMARY Developing oral organelles of dividing Tetrahymena corlissi appear to be positioned by mechanisms which assess distances as a proportion of the organism's overall dimensions. In some respects, the cortex of this protozoan obeys the 'French flag' rule formulated by Wolpert for describing regulation of spatial proportions during differentiation of metazoan embryos. Dividing Tetrahymena of markedly different sizes occur when division is synchronized by starvation and refeeding. At the start of cell division, the distance between old and new mouth- parts varies proportionately with respect to cell length. In addition, determination of the site where new oral organelles will develop is apparently not directly related to the number of ciliated basal bodies which separate the 2 sets of mouthparts; the greater the distance between the old and developing sets of mouthparts, the greater the number of ciliated basal bodies in the rows between them. It is suggested that 2 distinct mechanisms are largely responsible for defining organelle position in ciliates. The new terms structural positioning and chemical signalling are denned to describe these mechanisms. INTRODUCTION Organelles are positioned in a very precise and specific fashion in many unicellular organisms. Precisely positioned organelles form particularly well ordered and charac- teristic patterns in the cortices of ciliates. The spatial complexity of these organelle arrays is comparable with the arrangement of different cell types, tissues, and organs in multicellular animals. -
University of Oklahoma
UNIVERSITY OF OKLAHOMA GRADUATE COLLEGE MACRONUTRIENTS SHAPE MICROBIAL COMMUNITIES, GENE EXPRESSION AND PROTEIN EVOLUTION A DISSERTATION SUBMITTED TO THE GRADUATE FACULTY in partial fulfillment of the requirements for the Degree of DOCTOR OF PHILOSOPHY By JOSHUA THOMAS COOPER Norman, Oklahoma 2017 MACRONUTRIENTS SHAPE MICROBIAL COMMUNITIES, GENE EXPRESSION AND PROTEIN EVOLUTION A DISSERTATION APPROVED FOR THE DEPARTMENT OF MICROBIOLOGY AND PLANT BIOLOGY BY ______________________________ Dr. Boris Wawrik, Chair ______________________________ Dr. J. Phil Gibson ______________________________ Dr. Anne K. Dunn ______________________________ Dr. John Paul Masly ______________________________ Dr. K. David Hambright ii © Copyright by JOSHUA THOMAS COOPER 2017 All Rights Reserved. iii Acknowledgments I would like to thank my two advisors Dr. Boris Wawrik and Dr. J. Phil Gibson for helping me become a better scientist and better educator. I would also like to thank my committee members Dr. Anne K. Dunn, Dr. K. David Hambright, and Dr. J.P. Masly for providing valuable inputs that lead me to carefully consider my research questions. I would also like to thank Dr. J.P. Masly for the opportunity to coauthor a book chapter on the speciation of diatoms. It is still such a privilege that you believed in me and my crazy diatom ideas to form a concise chapter in addition to learn your style of writing has been a benefit to my professional development. I’m also thankful for my first undergraduate research mentor, Dr. Miriam Steinitz-Kannan, now retired from Northern Kentucky University, who was the first to show the amazing wonders of pond scum. Who knew that studying diatoms and algae as an undergraduate would lead me all the way to a Ph.D. -
Wrc Research Report No. 131 Effects of Feedlot Runoff
WRC RESEARCH REPORT NO. 131 EFFECTS OF FEEDLOT RUNOFF ON FREE-LIVING AQUATIC CILIATED PROTOZOA BY Kenneth S. Todd, Jr. College of Veterinary Medicine Department of Veterinary Pathology and Hygiene University of Illinois Urbana, Illinois 61801 FINAL REPORT PROJECT NO. A-074-ILL This project was partially supported by the U. S. ~epartmentof the Interior in accordance with the Water Resources Research Act of 1964, P .L. 88-379, Agreement No. 14-31-0001-7030. UNIVERSITY OF ILLINOIS WATER RESOURCES CENTER 2535 Hydrosystems Laboratory Urbana, Illinois 61801 AUGUST 1977 ABSTRACT Water samples and free-living and sessite ciliated protozoa were col- lected at various distances above and below a stream that received runoff from a feedlot. No correlation was found between the species of protozoa recovered, water chemistry, location in the stream, or time of collection. Kenneth S. Todd, Jr'. EFFECTS OF FEEDLOT RUNOFF ON FREE-LIVING AQUATIC CILIATED PROTOZOA Final Report Project A-074-ILL, Office of Water Resources Research, Department of the Interior, August 1977, Washington, D.C., 13 p. KEYWORDS--*ciliated protozoa/feed lots runoff/*water pollution/water chemistry/Illinois/surface water INTRODUCTION The current trend for feeding livestock in the United States is toward large confinement types of operation. Most of these large commercial feedlots have some means of manure disposal and programs to prevent runoff from feed- lots from reaching streams. However, there are still large numbers of smaller feedlots, many of which do not have adequate facilities for disposal of manure or preventing runoff from reaching waterways. The production of wastes by domestic animals was often not considered in the past, but management of wastes is currently one of the largest problems facing the livestock industry. -
A Parasite of Marine Rotifers: a New Lineage of Dinokaryotic Dinoflagellates (Dinophyceae)
Hindawi Publishing Corporation Journal of Marine Biology Volume 2015, Article ID 614609, 5 pages http://dx.doi.org/10.1155/2015/614609 Research Article A Parasite of Marine Rotifers: A New Lineage of Dinokaryotic Dinoflagellates (Dinophyceae) Fernando Gómez1 and Alf Skovgaard2 1 Laboratory of Plankton Systems, Oceanographic Institute, University of Sao˜ Paulo, Prac¸a do Oceanografico´ 191, Cidade Universitaria,´ 05508-900 Butanta,˜ SP, Brazil 2Department of Veterinary Disease Biology, University of Copenhagen, Stigbøjlen 7, 1870 Frederiksberg C, Denmark Correspondence should be addressed to Fernando Gomez;´ [email protected] Received 11 July 2015; Accepted 27 August 2015 Academic Editor: Gerardo R. Vasta Copyright © 2015 F. Gomez´ and A. Skovgaard. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Dinoflagellate infections have been reported for different protistan and animal hosts. We report, for the first time, the association between a dinoflagellate parasite and a rotifer host, tentatively Synchaeta sp. (Rotifera), collected from the port of Valencia, NW Mediterranean Sea. The rotifer contained a sporangium with 100–200 thecate dinospores that develop synchronically through palintomic sporogenesis. This undescribed dinoflagellate forms a new and divergent fast-evolved lineage that branches amongthe dinokaryotic dinoflagellates. 1. Introduction form independent lineages with no evident relation to other dinoflagellates [12]. In this study, we describe a new lineage of The alveolates (or Alveolata) are a major lineage of protists an undescribed parasitic dinoflagellate that largely diverged divided into three main phyla: ciliates, apicomplexans, and from other known dinoflagellates. -
Fisheries in Large Marine Ecosystems: Descriptions and Diagnoses
Fisheries in Large Marine Ecosystems: Descriptions and Diagnoses D. Pauly, J. Alder, S. Booth, W.W.L. Cheung, V. Christensen, C. Close, U.R. Sumaila, W. Swartz, A. Tavakolie, R. Watson, L. Wood and D. Zeller Abstract We present a rationale for the description and diagnosis of fisheries at the level of Large Marine Ecosystems (LMEs), which is relatively new, and encompasses a series of concepts and indicators different from those typically used to describe fisheries at the stock level. We then document how catch data, which are usually available on a smaller scale, are mapped by the Sea Around Us Project (see www.seaaroundus.org) on a worldwide grid of half-degree lat.-long. cells. The time series of catches thus obtained for over 180,000 half-degree cells can be regrouped on any larger scale, here that of LMEs. This yields catch time series by species (groups) and LME, which began in 1950 when the FAO started collecting global fisheries statistics, and ends in 2004 with the last update of these datasets. The catch data by species, multiplied by ex-vessel price data and then summed, yield the value of the fishery for each LME, here presented as time series by higher (i.e., commercial) groups. Also, these catch data can be used to evaluate the primary production required (PPR) to sustain fisheries catches. PPR, when related to observed primary production, provides another index for assessing the impact of the countries fishing in LMEs. The mean trophic level of species caught by fisheries (or ‘Marine Trophic Index’) is also used, in conjunction with a related indicator, the Fishing-in-Balance Index (FiB), to assess changes in the species composition of the fisheries in LMEs. -
Review and Meta-Analysis of the Environmental Biology and Potential Invasiveness of a Poorly-Studied Cyprinid, the Ide Leuciscus Idus
REVIEWS IN FISHERIES SCIENCE & AQUACULTURE https://doi.org/10.1080/23308249.2020.1822280 REVIEW Review and Meta-Analysis of the Environmental Biology and Potential Invasiveness of a Poorly-Studied Cyprinid, the Ide Leuciscus idus Mehis Rohtlaa,b, Lorenzo Vilizzic, Vladimır Kovacd, David Almeidae, Bernice Brewsterf, J. Robert Brittong, Łukasz Głowackic, Michael J. Godardh,i, Ruth Kirkf, Sarah Nienhuisj, Karin H. Olssonh,k, Jan Simonsenl, Michał E. Skora m, Saulius Stakenas_ n, Ali Serhan Tarkanc,o, Nildeniz Topo, Hugo Verreyckenp, Grzegorz ZieRbac, and Gordon H. Coppc,h,q aEstonian Marine Institute, University of Tartu, Tartu, Estonia; bInstitute of Marine Research, Austevoll Research Station, Storebø, Norway; cDepartment of Ecology and Vertebrate Zoology, Faculty of Biology and Environmental Protection, University of Lodz, Łod z, Poland; dDepartment of Ecology, Faculty of Natural Sciences, Comenius University, Bratislava, Slovakia; eDepartment of Basic Medical Sciences, USP-CEU University, Madrid, Spain; fMolecular Parasitology Laboratory, School of Life Sciences, Pharmacy and Chemistry, Kingston University, Kingston-upon-Thames, Surrey, UK; gDepartment of Life and Environmental Sciences, Bournemouth University, Dorset, UK; hCentre for Environment, Fisheries & Aquaculture Science, Lowestoft, Suffolk, UK; iAECOM, Kitchener, Ontario, Canada; jOntario Ministry of Natural Resources and Forestry, Peterborough, Ontario, Canada; kDepartment of Zoology, Tel Aviv University and Inter-University Institute for Marine Sciences in Eilat, Tel Aviv, -
Phylogenomic Analysis of Balantidium Ctenopharyngodoni (Ciliophora, Litostomatea) Based on Single-Cell Transcriptome Sequencing
Parasite 24, 43 (2017) © Z. Sun et al., published by EDP Sciences, 2017 https://doi.org/10.1051/parasite/2017043 Available online at: www.parasite-journal.org RESEARCH ARTICLE Phylogenomic analysis of Balantidium ctenopharyngodoni (Ciliophora, Litostomatea) based on single-cell transcriptome sequencing Zongyi Sun1, Chuanqi Jiang2, Jinmei Feng3, Wentao Yang2, Ming Li1,2,*, and Wei Miao2,* 1 Hubei Key Laboratory of Animal Nutrition and Feed Science, Wuhan Polytechnic University, Wuhan 430023, PR China 2 Institute of Hydrobiology, Chinese Academy of Sciences, No. 7 Donghu South Road, Wuchang District, Wuhan 430072, Hubei Province, PR China 3 Department of Pathogenic Biology, School of Medicine, Jianghan University, Wuhan 430056, PR China Received 22 April 2017, Accepted 12 October 2017, Published online 14 November 2017 Abstract- - In this paper, we present transcriptome data for Balantidium ctenopharyngodoni Chen, 1955 collected from the hindgut of grass carp (Ctenopharyngodon idella). We evaluated sequence quality and de novo assembled a preliminary transcriptome, including 43.3 megabits and 119,141 transcripts. Then we obtained a final transcriptome, including 17.7 megabits and 35,560 transcripts, by removing contaminative and redundant sequences. Phylogenomic analysis based on a supermatrix with 132 genes comprising 53,873 amino acid residues and phylogenetic analysis based on SSU rDNA of 27 species were carried out herein to reveal the evolutionary relationships among six ciliate groups: Colpodea, Oligohymenophorea, Litostomatea, Spirotrichea, Hetero- trichea and Protocruziida. The topologies of both phylogenomic and phylogenetic trees are discussed in this paper. In addition, our results suggest that single-cell sequencing is a sound method of obtaining sufficient omics data for phylogenomic analysis, which is a good choice for uncultivable ciliates. -
Plants Are Producers! Draw the Different Producers Below
Name: ______________________________ The Unique Producer Every food chain begins with a producer. Plants are producers. They make their own food, which creates energy for them to grow, reproduce and survive. Being able to make their own food makes them unique; they are the only living things on Earth that can make their own source of food energy. Of course, they require sun, water and air to thrive. Given these three essential ingredients, you will have a healthy plant to begin the food chain. All plants are producers! Draw the different producers below. Apple Tree Rose Bushes Watermelon Grasses Plant Blueberry Flower Fern Daisy Bush List the three essential needs that every producer must have in order to live. © 2009 by Heather Motley Name: ______________________________ Producers can make their own food and energy, but consumers are different. Living things that have to hunt, gather and eat their food are called consumers. Consumers have to eat to gain energy or they will die. There are four types of consumers: omnivores, carnivores, herbivores and decomposers. Herbivores are living things that only eat plants to get the food and energy they need. Animals like whales, elephants, cows, pigs, rabbits, and horses are herbivores. Carnivores are living things that only eat meat. Animals like owls, tigers, sharks and cougars are carnivores. You would not catch a plant in these animals’ mouths. Then, we have the omnivores. Omnivores will eat both plants and animals to get energy. Whichever food source is abundant or available is what they will eat. Animals like the brown bear, dogs, turtles, raccoons and even some people are omnivores. -
Arthropods of the Convoy Range They Will Provide Information on the Succession, Nutrition, and Other Features of These Organisms
Beginning on December 10, 1967, and ending on February 5, 1968, visits were made about every five days to Coast Lake at Cape Royds to obtain en- vironmental and biological data, the former including maximum and minimum air and water temperatures, temperatures at the times of visits, cloud cover, and wind conditions. The types of lake-water data ob- tained are lisited below. pH Fe/Fe Cl- Dissolved oxygen Mg, Mn NO2—N Turbidity and color K NH3—N Conductivity Na, Li Ca Total hardness SO4--NO3—N Alkalinity PO41 ortho and meta Spathidium spathula, from a meltwater pond near Palmer The quantitative biological data consisted of sur- Station. face and bottom samples from nine stations arranged in transects across the lake. The samples were col- of Palmer Station, the British stations on Adelaide lected on millipore filters, then fixed and mounted on Island and the Argentine Islands, and near Argen- slides. Total species counts are being made of the tinas Almirante Brown base and the Chilean refuge Protozoa, primarily of ciliates. In addition, rotifers, near Adelaide Island. Near Palmer Station, collec- tardigrades, nematodes, and algae are being counted tions were made on Norsel and Bonaparte Points and because of their importance in understanding the on Cormorant, Humble, and Litchfield Islands. nutritional and competitive roles of Protozoa. Smears were made of blood collected from 17 fish, Generally, the lake water is characterized by low and special slides were made of free-living and cul- temperatures (0°C.-5°C.), dissolved oxygen satura- tured Protozoa. Data on communities of Protozoa tion, very high pH (9.2-9.9), and variable ionic con- and freshwater crustaceans were obtained from fresh- tent.