Table 1: Numbers of Threatened Species by Major Groups of Organisms
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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. -
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). -
Algae & Marine Plants of Point Reyes
Algae & Marine Plants of Point Reyes Green Algae or Chlorophyta Genus/Species Common Name Acrosiphonia coalita Green rope, Tangled weed Blidingia minima Blidingia minima var. vexata Dwarf sea hair Bryopsis corticulans Cladophora columbiana Green tuft alga Codium fragile subsp. californicum Sea staghorn Codium setchellii Smooth spongy cushion, Green spongy cushion Trentepohlia aurea Ulva californica Ulva fenestrata Sea lettuce Ulva intestinalis Sea hair, Sea lettuce, Gutweed, Grass kelp Ulva linza Ulva taeniata Urospora sp. Brown Algae or Ochrophyta Genus/Species Common Name Alaria marginata Ribbon kelp, Winged kelp Analipus japonicus Fir branch seaweed, Sea fir Coilodesme californica Dactylosiphon bullosus Desmarestia herbacea Desmarestia latifrons Egregia menziesii Feather boa Fucus distichus Bladderwrack, Rockweed Haplogloia andersonii Anderson's gooey brown Laminaria setchellii Southern stiff-stiped kelp Laminaria sinclairii Leathesia marina Sea cauliflower Melanosiphon intestinalis Twisted sea tubes Nereocystis luetkeana Bull kelp, Bullwhip kelp, Bladder wrack, Edible kelp, Ribbon kelp Pelvetiopsis limitata Petalonia fascia False kelp Petrospongium rugosum Phaeostrophion irregulare Sand-scoured false kelp Pterygophora californica Woody-stemmed kelp, Stalked kelp, Walking kelp Ralfsia sp. Silvetia compressa Rockweed Stephanocystis osmundacea Page 1 of 4 Red Algae or Rhodophyta Genus/Species Common Name Ahnfeltia fastigiata Bushy Ahnfelt's seaweed Ahnfeltiopsis linearis Anisocladella pacifica Bangia sp. Bossiella dichotoma Bossiella -
Plant Evolution an Introduction to the History of Life
Plant Evolution An Introduction to the History of Life KARL J. NIKLAS The University of Chicago Press Chicago and London CONTENTS Preface vii Introduction 1 1 Origins and Early Events 29 2 The Invasion of Land and Air 93 3 Population Genetics, Adaptation, and Evolution 153 4 Development and Evolution 217 5 Speciation and Microevolution 271 6 Macroevolution 325 7 The Evolution of Multicellularity 377 8 Biophysics and Evolution 431 9 Ecology and Evolution 483 Glossary 537 Index 547 v Introduction The unpredictable and the predetermined unfold together to make everything the way it is. It’s how nature creates itself, on every scale, the snowflake and the snowstorm. — TOM STOPPARD, Arcadia, Act 1, Scene 4 (1993) Much has been written about evolution from the perspective of the history and biology of animals, but significantly less has been writ- ten about the evolutionary biology of plants. Zoocentricism in the biological literature is understandable to some extent because we are after all animals and not plants and because our self- interest is not entirely egotistical, since no biologist can deny the fact that animals have played significant and important roles as the actors on the stage of evolution come and go. The nearly romantic fascination with di- nosaurs and what caused their extinction is understandable, even though we should be equally fascinated with the monarchs of the Carboniferous, the tree lycopods and calamites, and with what caused their extinction (fig. 0.1). Yet, it must be understood that plants are as fascinating as animals, and that they are just as important to the study of biology in general and to understanding evolutionary theory in particular. -
Number of Living Species in Australia and the World
Numbers of Living Species in Australia and the World 2nd edition Arthur D. Chapman Australian Biodiversity Information Services australia’s nature Toowoomba, Australia there is more still to be discovered… Report for the Australian Biological Resources Study Canberra, Australia September 2009 CONTENTS Foreword 1 Insecta (insects) 23 Plants 43 Viruses 59 Arachnida Magnoliophyta (flowering plants) 43 Protoctista (mainly Introduction 2 (spiders, scorpions, etc) 26 Gymnosperms (Coniferophyta, Protozoa—others included Executive Summary 6 Pycnogonida (sea spiders) 28 Cycadophyta, Gnetophyta under fungi, algae, Myriapoda and Ginkgophyta) 45 Chromista, etc) 60 Detailed discussion by Group 12 (millipedes, centipedes) 29 Ferns and Allies 46 Chordates 13 Acknowledgements 63 Crustacea (crabs, lobsters, etc) 31 Bryophyta Mammalia (mammals) 13 Onychophora (velvet worms) 32 (mosses, liverworts, hornworts) 47 References 66 Aves (birds) 14 Hexapoda (proturans, springtails) 33 Plant Algae (including green Reptilia (reptiles) 15 Mollusca (molluscs, shellfish) 34 algae, red algae, glaucophytes) 49 Amphibia (frogs, etc) 16 Annelida (segmented worms) 35 Fungi 51 Pisces (fishes including Nematoda Fungi (excluding taxa Chondrichthyes and (nematodes, roundworms) 36 treated under Chromista Osteichthyes) 17 and Protoctista) 51 Acanthocephala Agnatha (hagfish, (thorny-headed worms) 37 Lichen-forming fungi 53 lampreys, slime eels) 18 Platyhelminthes (flat worms) 38 Others 54 Cephalochordata (lancelets) 19 Cnidaria (jellyfish, Prokaryota (Bacteria Tunicata or Urochordata sea anenomes, corals) 39 [Monera] of previous report) 54 (sea squirts, doliolids, salps) 20 Porifera (sponges) 40 Cyanophyta (Cyanobacteria) 55 Invertebrates 21 Other Invertebrates 41 Chromista (including some Hemichordata (hemichordates) 21 species previously included Echinodermata (starfish, under either algae or fungi) 56 sea cucumbers, etc) 22 FOREWORD In Australia and around the world, biodiversity is under huge Harnessing core science and knowledge bases, like and growing pressure. -
Lessons from 20 Years of Plant Genome Sequencing: an Unprecedented Resource in Need of More Diverse Representation
bioRxiv preprint doi: https://doi.org/10.1101/2021.05.31.446451; this version posted May 31, 2021. 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. Lessons from 20 years of plant genome sequencing: an unprecedented resource in need of more diverse representation Authors: Rose A. Marks1,2,3, Scott Hotaling4, Paul B. Frandsen5,6, and Robert VanBuren1,2 1. Department of Horticulture, Michigan State University, East Lansing, MI 48824, USA 2. Plant Resilience Institute, Michigan State University, East Lansing, MI 48824, USA 3. Department of Molecular and Cell Biology, University of Cape Town, Rondebosch 7701, South Africa 4. School of Biological Sciences, Washington State University, Pullman, WA, USA 5. Department of Plant and Wildlife Sciences, Brigham Young University, Provo, UT, USA 6. Data Science Lab, Smithsonian Institution, Washington, DC, USA Keywords: plants, embryophytes, genomics, colonialism, broadening participation Correspondence: Rose A. Marks, Department of Horticulture, Michigan State University, East Lansing, MI 48824, USA; Email: [email protected]; Phone: (603) 852-3190; ORCID iD: https://orcid.org/0000-0001-7102-5959 Abstract The field of plant genomics has grown rapidly in the past 20 years, leading to dramatic increases in both the quantity and quality of publicly available genomic resources. With an ever- expanding wealth of genomic data from an increasingly diverse set of taxa, unprecedented potential exists to better understand the evolution and genome biology of plants. -
Seasonal and Interannual Changes in Ciliate and Dinoflagellate
ORIGINAL RESEARCH published: 07 February 2017 doi: 10.3389/fmars.2017.00016 Seasonal and Interannual Changes in Ciliate and Dinoflagellate Species Assemblages in the Arctic Ocean (Amundsen Gulf, Beaufort Sea, Canada) Edited by: Deo F. L. Onda 1, 2, 3, Emmanuelle Medrinal 1, 3, André M. Comeau 1, 3 †, Mary Thaler 1, 2, 3, George S. Bullerjahn, Marcel Babin 1, 2 and Connie Lovejoy 1, 2, 3* Bowling Green State University, USA Reviewed by: 1 Département de Biologie and Québec-Océan, Université Laval, Quebec, QC, Canada, 2 Takuvik, Joint International Rebecca Gast, Laboratory, UMI 3376, Centre National de la Recherche Scientifique (CNRS, France) and Université Laval, Québec, QC, Woods Hole Oceanographic Canada, 3 Institut de Biologie Intégrative et des Systèmes, Université Laval, Quebec, QC, Canada Institution, USA Alison Clare Cleary, Independent Researcher, San Recent studies have focused on how climate change could drive changes in Francisco, United States phytoplankton communities in the Arctic. In contrast, ciliates and dinoflagellates that can *Correspondence: contribute substantially to the mortality of phytoplankton have received less attention. Connie Lovejoy Some dinoflagellate and ciliate species can also contribute to net photosynthesis, [email protected] which suggests that species composition could reflect food web complexity. To identify †Present Address: André M. Comeau, potential seasonal and annual species occurrence patterns and to link species with Centre for Comparative Genomics and environmental conditions, we first examined the seasonal pattern of microzooplankton Evolutionary Bioinformatics-Integrated Microbiome Resource, Department of and then performed an in-depth analysis of interannual species variability. We used Pharmacology, Dalhousie University, high-throughput amplicon sequencing to identify ciliates and dinoflagellates to the lowest Canada taxonomic level using a curated Arctic 18S rRNA gene database. -
A Visual Guide to Collecting Plant Tissues for DNA
A visual guide to collecting plant tissues for DNA Collecting kit checklist Silica gel1 Permanent marker and pencil Resealable bags, airtight plastic container Razor blade / Surgical scissors Empty tea bags or coffee filters Ethanol and paper tissue or ethanol wipes Tags or jewellers tags Plant press and collecting book 1. Selection and preparation of fresh plant tissue: Sampling avoided. Breaking up leaf material will bruise the plant tissue, which will result in enzymes being released From a single plant, harvest 3 – 5 mature leaves, or that cause DNA degradation. Ideally, leaf material sample a piece of a leaf, if large (Picture A). Ideally should be cut into smaller fragments with thick a leaf area of 5 – 10 cm2 should be enough, but this midribs being removed (Picture C). If sampling robust amount should be adjusted if the plant material is leaf tissue (e.g. cycads, palms), use a razor blade or rich in water (e.g. a succulent plant). If leaves are surgical scissors (Picture D). small (e.g. ericoid leaves), sample enough material to equate a leaf area of 5 – 10 cm2. If no leaves are Succulent plants available, other parts can be sampled such as leaf buds, flowers, bracts, seeds or even fresh bark. If the If the leaves are succulent, use a razor blade to plant is small, select the biggest specimen, but never remove epidermal slices or scoop out parenchyma combine tissues from different individuals. tissue (Picture E). Cleaning Ideally, collect clean fresh tissues, however if the leaf or plant material is dirty or shows potential contamination (e.g. -
Coral Reef Algae
Coral Reef Algae Peggy Fong and Valerie J. Paul Abstract Benthic macroalgae, or “seaweeds,” are key mem- 1 Importance of Coral Reef Algae bers of coral reef communities that provide vital ecological functions such as stabilization of reef structure, production Coral reefs are one of the most diverse and productive eco- of tropical sands, nutrient retention and recycling, primary systems on the planet, forming heterogeneous habitats that production, and trophic support. Macroalgae of an astonish- serve as important sources of primary production within ing range of diversity, abundance, and morphological form provide these equally diverse ecological functions. Marine tropical marine environments (Odum and Odum 1955; macroalgae are a functional rather than phylogenetic group Connell 1978). Coral reefs are located along the coastlines of comprised of members from two Kingdoms and at least over 100 countries and provide a variety of ecosystem goods four major Phyla. Structurally, coral reef macroalgae range and services. Reefs serve as a major food source for many from simple chains of prokaryotic cells to upright vine-like developing nations, provide barriers to high wave action that rockweeds with complex internal structures analogous to buffer coastlines and beaches from erosion, and supply an vascular plants. There is abundant evidence that the his- important revenue base for local economies through fishing torical state of coral reef algal communities was dominance and recreational activities (Odgen 1997). by encrusting and turf-forming macroalgae, yet over the Benthic algae are key members of coral reef communities last few decades upright and more fleshy macroalgae have (Fig. 1) that provide vital ecological functions such as stabili- proliferated across all areas and zones of reefs with increas- zation of reef structure, production of tropical sands, nutrient ing frequency and abundance. -
Aquatic and Wet Marchantiophyta, Order Metzgeriales: Aneuraceae
Glime, J. M. 2021. Aquatic and Wet Marchantiophyta, Order Metzgeriales: Aneuraceae. Chapt. 1-11. In: Glime, J. M. Bryophyte 1-11-1 Ecology. Volume 4. Habitat and Role. Ebook sponsored by Michigan Technological University and the International Association of Bryologists. Last updated 11 April 2021 and available at <http://digitalcommons.mtu.edu/bryophyte-ecology/>. CHAPTER 1-11: AQUATIC AND WET MARCHANTIOPHYTA, ORDER METZGERIALES: ANEURACEAE TABLE OF CONTENTS SUBCLASS METZGERIIDAE ........................................................................................................................................... 1-11-2 Order Metzgeriales............................................................................................................................................................... 1-11-2 Aneuraceae ................................................................................................................................................................... 1-11-2 Aneura .......................................................................................................................................................................... 1-11-2 Aneura maxima ............................................................................................................................................................ 1-11-2 Aneura mirabilis .......................................................................................................................................................... 1-11-7 Aneura pinguis .......................................................................................................................................................... -
Lateral Gene Transfer of Anion-Conducting Channelrhodopsins Between Green Algae and Giant Viruses
bioRxiv preprint doi: https://doi.org/10.1101/2020.04.15.042127; this version posted April 23, 2020. 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. 1 5 Lateral gene transfer of anion-conducting channelrhodopsins between green algae and giant viruses Andrey Rozenberg 1,5, Johannes Oppermann 2,5, Jonas Wietek 2,3, Rodrigo Gaston Fernandez Lahore 2, Ruth-Anne Sandaa 4, Gunnar Bratbak 4, Peter Hegemann 2,6, and Oded 10 Béjà 1,6 1Faculty of Biology, Technion - Israel Institute of Technology, Haifa 32000, Israel. 2Institute for Biology, Experimental Biophysics, Humboldt-Universität zu Berlin, Invalidenstraße 42, Berlin 10115, Germany. 3Present address: Department of Neurobiology, Weizmann 15 Institute of Science, Rehovot 7610001, Israel. 4Department of Biological Sciences, University of Bergen, N-5020 Bergen, Norway. 5These authors contributed equally: Andrey Rozenberg, Johannes Oppermann. 6These authors jointly supervised this work: Peter Hegemann, Oded Béjà. e-mail: [email protected] ; [email protected] 20 ABSTRACT Channelrhodopsins (ChRs) are algal light-gated ion channels widely used as optogenetic tools for manipulating neuronal activity 1,2. Four ChR families are currently known. Green algal 3–5 and cryptophyte 6 cation-conducting ChRs (CCRs), cryptophyte anion-conducting ChRs (ACRs) 7, and the MerMAID ChRs 8. Here we 25 report the discovery of a new family of phylogenetically distinct ChRs encoded by marine giant viruses and acquired from their unicellular green algal prasinophyte hosts. -
Mitochondrial Genomes of the Early Land Plant Lineage
Dong et al. BMC Genomics (2019) 20:953 https://doi.org/10.1186/s12864-019-6365-y RESEARCH ARTICLE Open Access Mitochondrial genomes of the early land plant lineage liverworts (Marchantiophyta): conserved genome structure, and ongoing low frequency recombination Shanshan Dong1,2, Chaoxian Zhao1,3, Shouzhou Zhang1, Li Zhang1, Hong Wu2, Huan Liu4, Ruiliang Zhu3, Yu Jia5, Bernard Goffinet6 and Yang Liu1,4* Abstract Background: In contrast to the highly labile mitochondrial (mt) genomes of vascular plants, the architecture and composition of mt genomes within the main lineages of bryophytes appear stable and invariant. The available mt genomes of 18 liverwort accessions representing nine genera and five orders are syntenous except for Gymnomitrion concinnatum whose genome is characterized by two rearrangements. Here, we expanded the number of assembled liverwort mt genomes to 47, broadening the sampling to 31 genera and 10 orders spanning much of the phylogenetic breadth of liverworts to further test whether the evolution of the liverwort mitogenome is overall static. Results: Liverwort mt genomes range in size from 147 Kb in Jungermanniales (clade B) to 185 Kb in Marchantiopsida, mainly due to the size variation of intergenic spacers and number of introns. All newly assembled liverwort mt genomes hold a conserved set of genes, but vary considerably in their intron content. The loss of introns in liverwort mt genomes might be explained by localized retroprocessing events. Liverwort mt genomes are strictly syntenous in genome structure with no structural variant detected in our newly assembled mt genomes. However, by screening the paired-end reads, we do find rare cases of recombination, which means multiple concurrent genome structures may exist in the vegetative tissues of liverworts.