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Life: the Science of Biology
Lecture Notebook to accompany SINAUER ASSOCIATES, INC. MACMILLAN Copyright © 2014 Sinauer Associates, Inc. Cover photograph © Alex Mustard/naturepl.com. This document may not be modified or distributed (either electronically or on paper) without the permission of the publisher, with the following exception: Individual users may enter their own notes into this document and may print it for their own personal use. The Origin and Diversification of 0027 Eukaryotes 27.1 A Hypothetical Sequence for the Evolution of the Eukaryotic Cell (Page 550) 1 The protective Cell wall cell wall was lost. DNA 2 Infolding of the plasma membrane added surface area without increasing the cell’s volume. 3 Cytoskeleton (microfilament and microtubules) formed. 4 Internal membranes studded with ribosomes formed. 5 As regions of the infolded plasma membrane enclosed the cell’s DNA, a precursor of a nucleus formed. 6 Microtubules from the cytoskeleton formed the eukaryotic flagellum, 7 Early digestive vacuoles enabling propulsion. evolved into lysosomes using enzymes from the early endoplasmic reticulum. 8 Mitochondria formed through endosymbiosis with a proteobacterium. 9 Endosymbiosis with cyanobacteria led to the development of chloroplasts. Flagellum To add your own notes to any page, use Adobe Reader’s Chloroplast Typewriter feature, accessible via the Typewriter bar at Mitochondrion the top of the window. (Requires Adobe Reader 8 or later. Adobe Reader can be downloaded free of charge from the Nucleus Adobe website: http://get.adobe.com/reader.) LIFE2 The Science of Biology 10E Sadava © 2014 Sinauer Associates, Inc. Sinauer Associates Morales Studio Figure 27.01 05-24-12 Chapter 27 | The Origin and Diversification of Eukaryotes 3 (A) Primary endosymbiosis Eukaryote Cyanobacterium Cyanobacterium outer membrane Peptidoglycan Cyanobacterium inner membrane Host cell nucleus Chloroplast Peptidoglycan has been lost except in glaucophytes. -
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. -
28-Protistsf20r.Ppt [Compatibility Mode]
9/3/20 Ch 28: The Protists (a.k.a. Protoctists) (meet these in more detail in your book and lab) 1 Protists invent: eukaryotic cells size complexity Remember: 1°(primary) endosymbiosis? -> mitochondrion -> chloroplast genome unicellular -> multicellular 2 1 9/3/20 For chloroplasts 2° (secondary) happened (more complicated) {3°(tertiary) happened too} 3 4 Eukaryotic “supergroups” (SG; between K and P) 4 2 9/3/20 Protists invent sex: meiosis and fertilization -> 3 Life Cycles/Histories (Fig 13.6) Spores and some protists (Humans do this one) 5 “Algae” Group PS Pigments Euglenoids chl a & b (& carotenoids) Dinoflagellates chl a & c (usually) (& carotenoids) Diatoms chl a & c (& carotenoids) Xanthophytes chl a & c (& carotenoids) Chrysophytes chl a & c (& carotenoids) Coccolithophorids chl a & c (& carotenoids) Browns chl a & c (& carotenoids) Reds chl a, phycobilins (& carotenoids) Greens chl a & b (& carotenoids) (more groups exist) 6 3 9/3/20 Name word roots (indicate nutrition) “algae” (-phyt-) protozoa (no consistent word ending) “fungal-like” (-myc-) Ecological terms plankton phytoplankton zooplankton 7 SG: Excavata/Excavates “excavated” feeding groove some have reduced mitochondria (e.g.: mitosomes, hydrogenosomes) 8 4 9/3/20 SG: Excavata O: Diplomonads: †Giardia Cl: Parabasalids: Trichonympha (bk only) †Trichomonas P: Euglenophyta/zoa C: Kinetoplastids = trypanosomes/hemoflagellates: †Trypanosoma C: Euglenids: Euglena 9 SG: “SAR” clade: Clade Alveolates cell membrane 10 5 9/3/20 SG: “SAR” clade: Clade Alveolates P: Dinoflagellata/Pyrrophyta: -
The Macronuclear Genome of Stentor Coeruleus Reveals Tiny Introns in a Giant Cell
University of Pennsylvania ScholarlyCommons Departmental Papers (Biology) Department of Biology 2-20-2017 The Macronuclear Genome of Stentor coeruleus Reveals Tiny Introns in a Giant Cell Mark M. Slabodnick University of California, San Francisco J. G. Ruby University of California, San Francisco Sarah B. Reiff University of California, San Francisco Estienne C. Swart University of Bern Sager J. Gosai University of Pennsylvania See next page for additional authors Follow this and additional works at: https://repository.upenn.edu/biology_papers Recommended Citation Slabodnick, M. M., Ruby, J. G., Reiff, S. B., Swart, E. C., Gosai, S. J., Prabakaran, S., Witkowska, E., Larue, G. E., Gregory, B. D., Nowacki, M., Derisi, J., Roy, S. W., Marshall, W. F., & Sood, P. (2017). The Macronuclear Genome of Stentor coeruleus Reveals Tiny Introns in a Giant Cell. Current Biology, 27 (4), 569-575. http://dx.doi.org/10.1016/j.cub.2016.12.057 This paper is posted at ScholarlyCommons. https://repository.upenn.edu/biology_papers/49 For more information, please contact [email protected]. The Macronuclear Genome of Stentor coeruleus Reveals Tiny Introns in a Giant Cell Abstract The giant, single-celled organism Stentor coeruleus has a long history as a model system for studying pattern formation and regeneration in single cells. Stentor [1, 2] is a heterotrichous ciliate distantly related to familiar ciliate models, such as Tetrahymena or Paramecium. The primary distinguishing feature of Stentor is its incredible size: a single cell is 1 mm long. Early developmental biologists, including T.H. Morgan [3], were attracted to the system because of its regenerative abilities—if large portions of a cell are surgically removed, the remnant reorganizes into a normal-looking but smaller cell with correct proportionality [2, 3]. -
There Is Not a Latin Root Word Clear Your Desk Protist Quiz Grade Quiz
There is not a Latin Root Word Clear your desk Protist Quiz Grade Quiz Malaria Fever Wars Classification Kingdom Protista contains THREE main groups of organisms: 1. Protozoa: “animal-like protists” 2. Algae: “plant-like protists” 3. Slime & Water Molds: “fungus-like protists” Basics of Protozoa Unicellular Eukaryotic unlike bacteria 65, 000 different species Heterotrophic Free-living (move in aquatic environments) or Parasitic Habitats include oceans, rivers, ponds, soil, and other organisms. Protozoa Reproduction ALL protozoa can use asexual reproduction through binary fission or multiple fission FEW protozoa reproduce sexually through conjugation. Adaptation Special Protozoa Adaptations Eyespot: detects changes in the quantity/ quality of light, and physical/chemical changes in their environment Cyst: hardened external covering that protects protozoa in extreme environments. Basics of Algae: “Plant-like” protists. MOST unicellular; SOME multicellular. Make food by photosynthesis (“autotrophic prostists”). Were classified as plants, BUT… – Lack tissue differentiation- NO roots, stems, leaves, etc. – Reproduce differently Most algal cells have pyrenoids (organelles that make and store starch) Can use asexual or sexual reproduction. Algae Structure: Thallus: body portion; usually haploid Body Structure: 1) unicellular: single-celled; aquatic (Ex.phytoplankton, Chlamydomonas) 2) colonial: groups of coordinated cells; “division of labor” (Ex. Volvox) 3) filamentous: rod-shaped thallus; some anchor to ocean bottom (Ex. Spyrogyra) 4) multicellular: large, complex, leaflike thallus (Ex. Macrocystis- giant kelp) Basics of Fungus-like Protists: Slime Molds: Water Molds: Once classified as fungi Fungus-like; composed of Found in damp soil, branching filaments rotting logs, and other Commonly freshwater; decaying matter. some in soil; some Some white, most yellow parasites. -
Gaits in Paramecium Escape
Transitions between three swimming gaits in Paramecium escape Amandine Hamela, Cathy Fischb, Laurent Combettesc,d, Pascale Dupuis-Williamsb,e, and Charles N. Barouda,1 aLadHyX and Department of Mechanics, Ecole Polytechnique, Centre National de la Recherche Scientifique, 91128 Palaiseau cedex, France; bActions Thématiques Incitatives de Genopole® Centriole and Associated Pathologies, Institut National de la Santé et de la Recherche Médicale Unité-Université d’Evry-Val-d’Essonne Unité U829, Université Evry-Val d'Essonne, Bâtiment Maupertuis, Rue du Père André Jarlan, 91025 Evry, France; cInstitut National de la Santé et de la Recherche Médicale Unité UMRS-757, Bâtiment 443, 91405 Orsay, France; dSignalisation Calcique et Interactions Cellulaires dans le Foie, Université de Paris-Sud, Bâtiment 443, 91405 Orsay, France; and eEcole Supérieure de Physique et de Chimie Industrielles ParisTech, 10 rue Vauquelin, 75005 Paris, France Edited* by Harry L. Swinney, University of Texas at Austin, Austin, TX, and approved March 8, 2011 (received for review November 10, 2010) Paramecium and other protists are able to swim at velocities reach- or in the switching between the different swimming behaviors ing several times their body size per second by beating their cilia (11, 13–17). in an organized fashion. The cilia beat in an asymmetric stroke, Below we show that Paramecium may also use an alternative to which breaks the time reversal symmetry of small scale flows. Here cilia to propel itself away from danger, which is based on tricho- we show that Paramecium uses three different swimming gaits to cyst extrusion. Trichocysts are exocytotic organelles, which are escape from an aggression, applied in the form of a focused laser regularly distributed along the plasma membrane in Paramecium heating. -
Eukaryotes Microbes
rator abo y M L ic ve ro IV Eukaryote Microbes 1–7 ti b c i a o r l o e t g y n I 1 Algae, 2 Lichens, 3 Fungi, I I I I I I I I I I I B 4 Fleshy Fungi, 5 Protozoa, s a e s c ic n , A ie 6 Slime Molds, 7 Water Molds p Sc pl h ied & Healt Eukaryotes 1 Algae top of page ● Objectives/Key Words ✟ 9 motility & structure videos ● Algal Thallus ✟ Carpenter’s diatom motility ● Algal Wet Mount (Biosafety Level 1)✲✱✓ ✟ Chlamydomonas motility ● Algal Wet Mount (Biosafety Level 2)✲✱✓ ✟ Diatom gliding movement ● Algal Wet Mount (disposable loop) ✲✱✱✓ ✟ Euglena motility ● Microscopic Algae✓ ✟ Gyrosigma motility ✟ ❍ Green Algae (Chlorophyta) ✟ Noctiluca scintillans motility ✟ ❍ Chlamydomonas ✟ Peridinium dinoflagellate motility ✟ ❍ Euglenoids (Euglenophyta) ✟ Synura cells & colony ❍ Diatoms (Chrysophyta) ✟ Volvox flagellate cells ✟✟ ❍ 1 frustules & motility ◆ ❍ 2 cell division ❖14 scenic microbiology, 60 images, 9 videos ❍ 3 sexual reproduction ❖ Biofouling 1, 2 ❍ 4 striae ❖ Coral Bleaching: Hawaii ✟◆ ◆ Volvox ❍ Dinoflagellates (Pyrrophyta) ❖ Coral Reefs: Pacific Ocean ❍ Red Tide 1–2 ❖ Coral Reefs 2: Andaman Sea, Indian Ocean◆ ❖ “Doing the Laundry”, India◆◆ ● Eukaryotes Quick Quiz 1A: Algae ❖ Green Lake, Lanzarote◆ ● Eukaryotes Quick Quiz 1B: Best Practice ❖ Garden Pond, British Columbia Canada, 1◆, 2 ● Eukaryotes Question Bank1.1✓–1.16◆◆◆◆◆◆◆◆✟✟✟ ❖ Marine Luminescence, Sucia Island, WA, US◆ ❖ Red Tide, Vancouver & Comox, Canada ● 35 interactive pdf pages ❖ Sea Turtle Tracks, Galápagos Islands◆ ● 112 illustrations, 80 images of algae ❖ Sea Turtles & Sea -
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. -
An Integrative Approach Sheds New Light Onto the Systematics
www.nature.com/scientificreports OPEN An integrative approach sheds new light onto the systematics and ecology of the widespread ciliate genus Coleps (Ciliophora, Prostomatea) Thomas Pröschold1*, Daniel Rieser1, Tatyana Darienko2, Laura Nachbaur1, Barbara Kammerlander1, Kuimei Qian1,3, Gianna Pitsch4, Estelle Patricia Bruni4,5, Zhishuai Qu6, Dominik Forster6, Cecilia Rad‑Menendez7, Thomas Posch4, Thorsten Stoeck6 & Bettina Sonntag1 Species of the genus Coleps are one of the most common planktonic ciliates in lake ecosystems. The study aimed to identify the phenotypic plasticity and genetic variability of diferent Coleps isolates from various water bodies and from culture collections. We used an integrative approach to study the strains by (i) cultivation in a suitable culture medium, (ii) screening of the morphological variability including the presence/absence of algal endosymbionts of living cells by light microscopy, (iii) sequencing of the SSU and ITS rDNA including secondary structures, (iv) assessment of their seasonal and spatial occurrence in two lakes over a one‑year cycle both from morphospecies counts and high‑ throughput sequencing (HTS), and, (v) proof of the co‑occurrence of Coleps and their endosymbiotic algae from HTS‑based network analyses in the two lakes. The Coleps strains showed a high phenotypic plasticity and low genetic variability. The algal endosymbiont in all studied strains was Micractinium conductrix and the mutualistic relationship turned out as facultative. Coleps is common in both lakes over the whole year in diferent depths and HTS has revealed that only one genotype respectively one species, C. viridis, was present in both lakes despite the diferent lifestyles (mixotrophic with green algal endosymbionts or heterotrophic without algae). -
Parasitic and Fungal Identification in Bamboo Lobster Panulirus Versicolour and Ornate Lobster P
Parasitic and Fungal Identification in Bamboo Lobster Panulirus versicolour and Ornate Lobster P. ornatus Cultures Indriyani Nur1)* and Yusnaini2) 1) Department of Aquaculture, Faculty of Fisheries and Marine Science, University of Halu Oleo, Kendari 93232, Indonesia Corresponding author: [email protected] (Indriyani Nur) Abstract—Lobster cultures have failed because of mortalities transmissible [5] including Vibrio, Aeromonas, Pseudomonas, associated with parasitic and fungal infections. Monitoring of spawned Cytophaga and Pseudoalteromonas [6,7]. Futher examination eggs and larva of bamboo lobsters, Panulirus versicolour, and ornate of these lobsters revealed four parasite species: Porospora lobsters, P. ornatus, in a hatchery was conducted in order to gigantea (Apicomplexa: Sporozoea), Polymorphus botulus characterize fungal and parasitic diseases of eggs and larva. One (Acanthocephala: Palaeacanthocephala), Hysterothylacium sp. species of protozoan parasite (Vorticella sp.) was identified from eggs while two species of fungi (Lagenidium sp. and Haliphthoros sp.) were (Nematoda: Secernentea), and Stichocotyle nephropis found on the lobster larvae. Furthermore, adult lobsters cultured in (Platyhelminthes: Trematoda) [8]. Therefore, the aim of this floating net cages had burning-like diseases on their pleopod, uropod, study was to examine and to characterize the infestation of and telson. Histopathological samples were collected for parasite parasites and fungus of potentially cultured lobsters (larval identification and tissue changes. There were two parasites found to stages and adult stages of the spiny lobsters), and also to look infect spiny lobsters on their external body and gill, they are Octolasmis sp. and Oodinium sp..Histopathology showed tissue at the histopathological changes of their tissues. This is changes, necrosis on the kidneys/liver/pancreas, necrosis in the gills regarded as a major cause of low production in aquaculture and around the uropods and telson. -
Tuberlatum Coatsi Gen. N., Sp. N. (Alveolata, Perkinsozoa), a New
Protist, Vol. 170, 82–103, February 2019 http://www.elsevier.de/protis Published online date 21 December 2018 ORIGINAL PAPER Tuberlatum coatsi gen. n., sp. n. (Alveolata, Perkinsozoa), a New Parasitoid with Short Germ Tubes Infecting Marine Dinoflagellates 1 Boo Seong Jeon, and Myung Gil Park LOHABE, Department of Oceanography, Chonnam National University, Gwangju 61186, Republic of Korea Submitted October 16, 2018; Accepted December 15, 2018 Monitoring Editor: Laure Guillou Perkinsozoa is an exclusively parasitic group within the alveolates and infections have been reported from various organisms, including marine shellfish, marine dinoflagellates, freshwater cryptophytes, and tadpoles. Despite its high abundance and great genetic diversity revealed by recent environmental rDNA sequencing studies, Perkinsozoa biodiversity remains poorly understood. During the intensive samplings in Korean coastal waters during June 2017, a new parasitoid of dinoflagellates was detected and was successfully established in culture. The new parasitoid was most characterized by the pres- ence of two to four dome-shaped, short germ tubes in the sporangium. The opened germ tubes were biconvex lens-shaped in the top view and were characterized by numerous wrinkles around their open- ings. Phylogenetic analyses based on the concatenated SSU and LSU rDNA sequences revealed that the new parasitoid was included in the family Parviluciferaceae, in which all members were comprised of two separate clades, one containing Parvilucifera species (P. infectans, P. corolla, and P. rostrata), and the other containing Dinovorax pyriformis, Snorkelia spp., and the new parasitoid from this study. Based on morphological, ultrastructural, and molecular data, we propose to erect a new genus and species, Tuberlatum coatsi gen. -
Observations on the Ecology of Protozoa Associated
OBSERVATIONS ON THE ECOLOGY OF PROTOZOA ASSOCIATED WITH SPHAGNUM DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University By Peter Chacharonis, B. A., M. A The Ohio State University 1954 Approved by Advise TABLE OK CONTENTS INTRODUCTION...................................................... 1 HISTORICAL REVIEW................................................. 2 NATURE OK THE ENVIRONMENT......................................... iO Location and History of the Bog.............................. 10 Description of the Hog....................................... 11 Ecological Characteristics of the Bog....................... 12 Structure and Growth of Sphagnum............................. IB MATERIALS AND METHODS............................................. 21 General...................................................... ill Collections.................................................. 21 pH Determinations............................................ 23 Temperature Determinations................................... 24 Methods of Examination....................................... 25 Staining Methods............................................. 2b Quantitative Determinations.................................. iO OBSERVATIONS.................................................. 32 General..................... 32 Distribution and Relative Frequency of Protozoa............. 32 The Position of the Organisms on and in the Sphagnum plant... 4J Seasonal Observations.......................................