Protists and Bacteria
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Basal Body Structure and Composition in the Apicomplexans Toxoplasma and Plasmodium Maria E
Francia et al. Cilia (2016) 5:3 DOI 10.1186/s13630-016-0025-5 Cilia REVIEW Open Access Basal body structure and composition in the apicomplexans Toxoplasma and Plasmodium Maria E. Francia1* , Jean‑Francois Dubremetz2 and Naomi S. Morrissette3 Abstract The phylum Apicomplexa encompasses numerous important human and animal disease-causing parasites, includ‑ ing the Plasmodium species, and Toxoplasma gondii, causative agents of malaria and toxoplasmosis, respectively. Apicomplexans proliferate by asexual replication and can also undergo sexual recombination. Most life cycle stages of the parasite lack flagella; these structures only appear on male gametes. Although male gametes (microgametes) assemble a typical 9 2 axoneme, the structure of the templating basal body is poorly defined. Moreover, the rela‑ tionship between asexual+ stage centrioles and microgamete basal bodies remains unclear. While asexual stages of Plasmodium lack defined centriole structures, the asexual stages of Toxoplasma and closely related coccidian api‑ complexans contain centrioles that consist of nine singlet microtubules and a central tubule. There are relatively few ultra-structural images of Toxoplasma microgametes, which only develop in cat intestinal epithelium. Only a subset of these include sections through the basal body: to date, none have unambiguously captured organization of the basal body structure. Moreover, it is unclear whether this basal body is derived from pre-existing asexual stage centrioles or is synthesized de novo. Basal bodies in Plasmodium microgametes are thought to be synthesized de novo, and their assembly remains ill-defined. Apicomplexan genomes harbor genes encoding δ- and ε-tubulin homologs, potentially enabling these parasites to assemble a typical triplet basal body structure. -
Chapter 10: Classification of Microorganisms
Chapter 10: Classification of Microorganisms 1. The Taxonomic Hierarchy 2. Methods of Identification 1. The Taxonomic Hierarchy Phylogenetic Tree of the 3 Domains Taxonomic Hierarchy • 8 successive taxa are used to classify each species: Domain Kingdom Phylum Class Order Family Genus **species can also contain different strains** Species Scientific Nomenclature To avoid confusion, every type of organism must be referred to in a consistent way. The current system of nomenclature (naming) has been in use since the 18th century: • every type of organism is referred by its genus name followed by its specific epithet (i.e., species name) Homo sapiens (H. sapiens) Escherichia coli (E. coli) • name should be in italics and only the genus is capitalized which can also be abbreviated • names are Latin (or “Latinized” Greek) with the genus being a noun and the specific epithet an adjective **strain info can be listed after the specific epithet (e.g., E. coli DH5α)** 2. Methods of Identification Biochemical Testing In addition to morphological (i.e., appearance under the microscope) and differential staining characteristics, microorganisms can also be identified by their biochemical “signatures”: • the nutrient requirements and metabolic “by-products” of of a particular microorganism • different growth media can be used to test the physiological characteristics of a microorganism • e.g., medium with lactose only as energy source • e.g., medium that reveals H2S production **appearance on test medium reveals + or – result!** Commercial devices for rapid Identification Perform multiple tests simultaneously Enterotube II Such devices involve the simultaneous inoculation of various test media: • ~24 hrs later the panel of results reveals ID of organism! Use of Dichotomous Keys Series of “yes/no” biochemical tests to ID organism. -
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. -
Anoxygenic Photosynthesis in Photolithotrophic Sulfur Bacteria and Their Role in Detoxication of Hydrogen Sulfide
antioxidants Review Anoxygenic Photosynthesis in Photolithotrophic Sulfur Bacteria and Their Role in Detoxication of Hydrogen Sulfide Ivan Kushkevych 1,* , Veronika Bosáková 1,2 , Monika Vítˇezová 1 and Simon K.-M. R. Rittmann 3,* 1 Department of Experimental Biology, Faculty of Science, Masaryk University, 62500 Brno, Czech Republic; [email protected] (V.B.); [email protected] (M.V.) 2 Department of Biology, Faculty of Medicine, Masaryk University, 62500 Brno, Czech Republic 3 Archaea Physiology & Biotechnology Group, Department of Functional and Evolutionary Ecology, Universität Wien, 1090 Vienna, Austria * Correspondence: [email protected] (I.K.); [email protected] (S.K.-M.R.R.); Tel.: +420-549-495-315 (I.K.); +431-427-776-513 (S.K.-M.R.R.) Abstract: Hydrogen sulfide is a toxic compound that can affect various groups of water microorgan- isms. Photolithotrophic sulfur bacteria including Chromatiaceae and Chlorobiaceae are able to convert inorganic substrate (hydrogen sulfide and carbon dioxide) into organic matter deriving energy from photosynthesis. This process takes place in the absence of molecular oxygen and is referred to as anoxygenic photosynthesis, in which exogenous electron donors are needed. These donors may be reduced sulfur compounds such as hydrogen sulfide. This paper deals with the description of this metabolic process, representatives of the above-mentioned families, and discusses the possibility using anoxygenic phototrophic microorganisms for the detoxification of toxic hydrogen sulfide. Moreover, their general characteristics, morphology, metabolism, and taxonomy are described as Citation: Kushkevych, I.; Bosáková, well as the conditions for isolation and cultivation of these microorganisms will be presented. V.; Vítˇezová,M.; Rittmann, S.K.-M.R. -
RED ALGAE · RHODOPHYTA Rhodophyta Are Cosmopolitan, Found from the Artic to the Tropics
RED ALGAE · RHODOPHYTA Rhodophyta are cosmopolitan, found from the artic to the tropics. Although they grow in both marine and fresh water, 98% of the 6,500 species of red algae are marine. Most of these species occur in the tropics and sub-tropics, though the greatest number of species is temperate. Along the California coast, the species of red algae far outnumber the species of green and brown algae. In temperate regions such as California, red algae are common in the intertidal zone. In the tropics, however, they are mostly subtidal, growing as epiphytes on seagrasses, within the crevices of rock and coral reefs, or occasionally on dead coral or sand. In some tropical waters, red algae can be found as deep as 200 meters. Because of their unique accessory pigments (phycobiliproteins), the red algae are able to harvest the blue light that reaches deeper waters. Red algae are important economically in many parts of the world. For example, in Japan, the cultivation of Pyropia is a multibillion-dollar industry, used for nori and other algal products. Rhodophyta also provide valuable “gums” or colloidal agents for industrial and food applications. Two extremely important phycocolloids are agar (and the derivative agarose) and carrageenan. The Rhodophyta are the only algae which have “pit plugs” between cells in multicellular thalli. Though their true function is debated, pit plugs are thought to provide stability to the thallus. Also, the red algae are unique in that they have no flagellated stages, which enhance reproduction in other algae. Instead, red algae has a complex life cycle, with three distinct stages. -
Revised Glossary for AQA GCSE Biology Student Book
Biology Glossary amino acids small molecules from which proteins are A built abiotic factor physical or non-living conditions amylase a digestive enzyme (carbohydrase) that that affect the distribution of a population in an breaks down starch ecosystem, such as light, temperature, soil pH anaerobic respiration respiration without using absorption the process by which soluble products oxygen of digestion move into the blood from the small intestine antibacterial chemicals chemicals produced by plants as a defence mechanism; the amount abstinence method of contraception whereby the produced will increase if the plant is under attack couple refrains from intercourse, particularly when an egg might be in the oviduct antibiotic e.g. penicillin; medicines that work inside the body to kill bacterial pathogens accommodation ability of the eyes to change focus antibody protein normally present in the body acid rain rain water which is made more acidic by or produced in response to an antigen, which it pollutant gases neutralises, thus producing an immune response active site the place on an enzyme where the antimicrobial resistance (AMR) an increasing substrate molecule binds problem in the twenty-first century whereby active transport in active transport, cells use energy bacteria have evolved to develop resistance against to transport substances through cell membranes antibiotics due to their overuse against a concentration gradient antiretroviral drugs drugs used to treat HIV adaptation features that organisms have to help infections; they -
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]. -
Red Algae (Bangia Atropurpurea) Ecological Risk Screening Summary
Red Algae (Bangia atropurpurea) Ecological Risk Screening Summary U.S. Fish & Wildlife Service, February 2014 Revised, March 2016, September 2017, October 2017 Web Version, 6/25/2018 1 Native Range and Status in the United States Native Range From NOAA and USGS (2016): “Bangia atropurpurea has a widespread amphi-Atlantic range, which includes the Atlantic coast of North America […]” Status in the United States From Mills et al. (1991): “This filamentous red alga native to the Atlantic Coast was observed in Lake Erie in 1964 (Lin and Blum 1977). After this sighting, records for Lake Ontario (Damann 1979), Lake Michigan (Weik 1977), Lake Simcoe (Jackson 1985) and Lake Huron (Sheath 1987) were reported. It has become a major species of the littoral flora of these lakes, generally occupying the littoral zone with Cladophora and Ulothrix (Blum 1982). Earliest records of this algae in the basin, however, go back to the 1940s when Smith and Moyle (1944) found the alga in Lake Superior tributaries. Matthews (1932) found the alga in Quaker Run in the Allegheny drainage basin. Smith and 1 Moyle’s records must have not resulted in spreading populations since the alga was not known in Lake Superior as of 1987. Kishler and Taft (1970) were the most recent workers to refer to the records of Smith and Moyle (1944) and Matthews (1932).” From NOAA and USGS (2016): “Established where recorded except in Lake Superior. The distribution in Lake Simcoe is limited (Jackson 1985).” From Kipp et al. (2017): “Bangia atropurpurea was first recorded from Lake Erie in 1964. During the 1960s–1980s, it was recorded from Lake Huron, Lake Michigan, Lake Ontario, and Lake Simcoe (part of the Lake Ontario drainage). -
Marine Microorganisms: Evolution and Solution to Pollution Fu L Li1, Wang B1,2
COMMENTARY Marine microorganisms: Evolution and solution to pollution Fu L Li1, Wang B1,2 Li FL, Wang B. Marine microorganisms: Evolution and solution to pollution. J Mar Microbiol. 2018;2(1):4-5. nce ocean nurtured life, now she needs our care. Marine microorganism will be an opportunity to further understand ourselves and to seek for new Ois the host of ocean in all ages. We should learn from them humbly. methods of fighting old infections. Marine microorganism is tightly bond with human during the history of evolution and nowadays’ environment pollution. Along with industrial revolution, our marine ecosystem suffered serious pollutions. Microplastics are tiny plastic particles (<5 mm) (Figure 1B), Although the topic is still in debate, life is probably originated from which poison marine lives. Because these microplastics are very hard to be submarine in hydrothermal vent systems (1). In the journey of evolution, our degraded, it is predicted that there will be more microplastics than fish in biosphere was completely dominated by microbes for a very long time (Figure ocean by the year 2050 (7). Since marine sediments are considered as the sink 1A). Human being evolves with those microorganisms. Consequently, of microplastics and marine microbes are key dwellers of marine sediments, the influences of microorganisms can be found in all aspects of human more attention should be paid on the interactions between microplastics biology. More than 65% of our genes originated with bacteria, archaea, and and marine microbes. Actually, a call for this has been published in 2011 unicellular eukaryotes, including those genes responsible for host-microbe (8). -
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: -
Ptolemeba N. Gen., a Novel Genus of Hartmannellid Amoebae (Tubulinea, Amoebozoa); with an Emphasis on the Taxonomy of Saccamoeba
The Journal of Published by the International Society of Eukaryotic Microbiology Protistologists Journal of Eukaryotic Microbiology ISSN 1066-5234 ORIGINAL ARTICLE Ptolemeba n. gen., a Novel Genus of Hartmannellid Amoebae (Tubulinea, Amoebozoa); with an Emphasis on the Taxonomy of Saccamoeba Pamela M. Watsona, Stephanie C. Sorrella & Matthew W. Browna,b a Department of Biological Sciences, Mississippi State University, Mississippi State, Mississippi, 39762 b Institute for Genomics, Biocomputing & Biotechnology, Mississippi State University, Mississippi State, Mississippi, 39762 Keywords ABSTRACT 18S rRNA; amoeba; amoeboid; Cashia; cristae; freshwater amoebae; Hartmannella; Hartmannellid amoebae are an unnatural assemblage of amoeboid organisms mitochondrial morphology; SSU rDNA; SSU that are morphologically difficult to discern from one another. In molecular phy- rRNA; terrestrial amoebae; tubulinid. logenetic trees of the nuclear-encoded small subunit rDNA, they occupy at least five lineages within Tubulinea, a well-supported clade in Amoebozoa. The Correspondence polyphyletic nature of the hartmannellids has led to many taxonomic problems, M.W. Brown, Department of Biological in particular paraphyletic genera. Recent taxonomic revisions have alleviated Sciences, Mississippi State University, some of the problems. However, the genus Saccamoeba is paraphyletic and is Mississippi State, MS 39762, USA still in need of revision as it currently occupies two distinct lineages. Here, we Telephone number: +1 662-325-2406; report a new clade on the tree of Tubulinea, which we infer represents a novel FAX number: +1 662-325-7939; genus that we name Ptolemeba n. gen. This genus subsumes a clade of hart- e-mail: [email protected] mannellid amoebae that were previously considered in the genus Saccamoeba, but whose mitochondrial morphology is distinct from Saccamoeba. -
Volvox Barberi Flocks, Forming Near-Optimal, Two
bioRxiv preprint doi: https://doi.org/10.1101/279059; this version posted March 8, 2018. 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. Volvox barberi flocks, forming near-optimal, two-dimensional, polydisperse lattice packings Ravi Nicholas Balasubramanian1 1Harriton High School, 600 North Ithan Avenue, Bryn Mawr, PA 19010, USA Volvox barberi is a multicellular green alga forming spherical colonies of 10000-50000 differentiated somatic and germ cells. Here, I show that these colonies actively self-organize over minutes into “flocks" that can contain more than 100 colonies moving and rotating collectively for hours. The colonies in flocks form two-dimensional, irregular, \active crystals", with lattice angles and colony diameters both following log-normal distributions. Comparison with a dynamical simulation of soft spheres with diameters matched to the Volvox samples, and a weak long-range attractive force, show that the Volvox flocks achieve optimal random close-packing. A dye tracer in the Volvox medium revealed large hydrodynamic vortices generated by colony and flock rotations, providing a likely source of the forces leading to flocking and optimal packing. INTRODUCTION behavior (see, e.g., [8, 9] and references therein) but their interactions are often dominated by viscous forces (e.g. fluid drag) unlike larger organisms which are The remarkable multicellular green alga Volvox barberi dominated by inertial forces. Here, I show that V. [1] forms spherical colonies of 10,000 to 50,000 cells barberi colonies, which are themselves composed of many embedded in a glycol-protein based extra cellular matrix individual cells acting together, show collective behavior (ECM) and connected by cytoplasmic bridges that may at a higher level of organization.