Interspecific Relationships Between Body Size and Response to Predation Risk 1, 2 EVAN L
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A Solution for Universal Classification of Species Based on Genomic
Hindawi Publishing Corporation International Journal of Plant Genomics Volume 2007, Article ID 27894, 8 pages doi:10.1155/2007/27894 Research Article A Solution for Universal Classification of Species Based on Genomic DNA Mariko Kouduka,1 Daisuke Sato,1 Manabu Komori,1 Motohiro Kikuchi,2 Kiyoshi Miyamoto,3 Akinori Kosaku,3 Mohammed Naimuddin,1, 4 Atsushi Matsuoka,5 and Koichi Nishigaki1, 6 1 Department of Functional Materials Science, Saitama University, Saitama, Japan 2 Chitose Salmon Aquarium Chitose, Youth Educational Foundation, Chitose, Hokkaido, Japan 3 Institute of Medical Science, Dokkyo Medical University, Tochigi, Japan 4 Biol. Res. and Functions, National Inst. AIST, Tsukuba, Ibaraki, Japan 5 Department of Geology, Niigata University, Niigata, Japan 6 Rational Evolutionary Design of Advanced Biomolecules, Saitama Small Enterprise Promotion Corporation, SKIP City, Saitama, Japan Received 22 July 2006; Revised 8 October 2006; Accepted 8 October 2006 Recommended by Cheng-Cang Wu Traditionally, organisms have been classified on the basis of their phenotype. Recently, genotype-based classification has become possible through the development of sequencing technology. However, it is still difficult to apply sequencing approaches to the analysis of a large number of species due to the cost and labor. In most biological fields, the analysis of complex systems compris- ing various species has become an important theme, demanding an effective method for handling a vast number of species. In this paper, we have demonstrated, using plants, fish, and insects, that genome profiling, a compact technology for genome analysis, can classify organisms universally. Surprisingly, in all three of the domains of organisms tested, the phylogenetic trees generated from the phenotype topologically matched completely those generated from the genotype. -
Cottus Poecilopus Heckel, 1836, in the River Javorin- Ka, the Tatra
Oecologia Montana 2018, Cottus poecilopus Heckel, 1836, in the river Javorin- 27, 21-26 ka, the Tatra mountains, Slovakia M. JANIGA, Jr. In Tatranská Javorina under Muráň mountain, a small fish nursery was built by Christian Kraft von Institute of High Mountain Biology University of Hohenlohe around 1930. The most comprehensive Žilina, Tatranská Javorina 7, SK-059 56, Slovakia; studies on fish from the Tatra mountains were writ- e-mail:: [email protected] ten by professor Václav Dyk (1957; 1961), Dyk and Dyková (1964a,b; 1965), who studied altitudinal distribution of fish, describing the highest points where fish were found. His studies on fish were likely the most complex studies of their kind during that period. Along with his wife Sylvia, who illus- Abstract. This study focuses on the Cottus poe- trated his studies, they published the first realistic cilopus from the river Javorinka in the north-east studies on fish from the Tatra mountains including High Tatra mountains, Slovakia. The movement the river Javorinka (Dyk and Dyková 1964a). Feri- and residence of 75 Alpine bullhead in the river anc (1948) published the first Slovakian nomenclature were monitored and carefully recorded using GPS of fish in 1948. Eugen K. Balon (1964; 1966) was the coordinates. A map representing their location in next famous ichthyologist who became a recognised the river was generated. This data was collected in expert in the fish fauna of the streams of the Tatra the spring and summer of 2016 and in the autumn mountains, the river Poprad, and various high moun- of 2017. Body length and body weight of 67 Alpine tain lakes. -
Error-Robust Nature of Genome Profiling Applied for Clustering of Species Demonstrated by Computer Simulation
World Academy of Science, Engineering and Technology International Journal of Bioengineering and Life Sciences Vol:1, No:5, 2007 Error-Robust Nature of Genome Profiling Applied for Clustering of Species Demonstrated by Computer Simulation Shamim Ahmed and Koichi Nishigaki factors [4], and the insufficiency in the number of experts [5]. Abstract—Genome profiling (GP), a genotype based technology, Recently, genotype-based approach has become possible which exploits random PCR and temperature gradient gel owing to the development of sequencing technology. electrophoresis, has been successful in identification/classification of organisms. In this technology, spiddos (Species identification dots) However, it is still difficult to apply sequencing approaches to and PaSS (Pattern similarity score) were employed for measuring the the analysis of a large number of species due to logistic closeness (or distance) between genomes. Based on the closeness reason. In most biological fields, the analysis of complex (PaSS), we can buildup phylogenetic trees of the organisms. We systems comprising various species has been an important noticed that the topology of the tree is rather robust against the experimental fluctuation conveyed by spiddos. This fact was theme, demanding an effective method for handling a vast confirmed quantitatively in this study by computer-simulation, number of species. A realistic solution to these problems has providing the limit of the reliability of this highly powerful been to characterize organisms according to the sequence of methodology. As a result, we could demonstrate the effectiveness of their small subunit ribosomal RNA (16S/18S rRNA), an the GP approach for identification/classification of organisms. approach that has been applied to various organisms, initiated Keywords—Fluctuation, Genome profiling (GP), Pattern by Woese and his collaborators [6]~[8]. -
Dean Oz/Μ: ;Z: Date
The evolutionary history of reproductive strategies in sculpins of the subfamily oligocottinae Item Type Thesis Authors Buser, Thaddaeus J. Download date 26/09/2021 18:39:58 Link to Item http://hdl.handle.net/11122/4549 THE EVOLUTIONARY HISTORY OF REPRODUCTIVE STRATEGIES IN SCULPINS OF THE SUBFAMILY OLIGOCOTTINAE By Thaddaeus J. Buser RECOMMENDED: Dr. Anne Beaudreau Dr. J. Andres Lopez Advisory Committee Chair Dr. Shannon Atkinson Fisheries Division Graduate Program Chair APPROVED: Dr. Michael Castellini ·. John Eichel erger Dean oZ/µ:_;z: Date THE EVOLUTIONARY HISTORY OF REPRODUCTIVE STRATEGIES IN SCULPINS OF THE SUBFAMILY OLIGOCOTTINAE A THESIS Presented to the Faculty of the University of Alaska Fairbanks in Partial Fulfillment of the Requirements for the Degree of Title Page MASTER OF SCIENCE By Thaddaeus J. Buser, B.Sc. Fairbanks, Alaska May 2014 v Abstract The sculpin subfamily Oligocottinae is a group of 17 nearshore species and is noteworthy for the fact that it contains both intertidal and subtidal species, copulating and non- copulating species, and many species with very broad geographic ranges. These factors, as well as the consistency with which the constituent genera have been grouped together historically, make the Oligocottinae an ideal group for the study of the evolution of a reproductive mode known as internal gamete association (IGA), which is unique to sculpins. I conducted a phylogenetic study of the oligocottine sculpins based on an extensive molecular dataset consisting of DNA sequences from eight genomic regions. From the variability present in those sequences, I inferred phylogenetic relationships using parsimony, maximum likelihood, and Bayesian inference. Results of these phylogenetic analyses show that some historical taxonomy and classifications require revision to align taxonomy with evolutionary relatedness. -
Ichthyofauna of the Kubo, Tochikura, and Ichinono
Biodiversity Data Journal 2: e1093 doi: 10.3897/BDJ.2.e1093 Taxonomic paper Ichthyofauna of the Kubo, Tochikura, and Ichinono river systems (Kitakami River drainage, northern Japan), with a comparison of predicted and surveyed species richness Yusuke Miyazaki†,‡, Masanori Nakae§†, Hiroshi Senou † Kanagawa Prefectural Museum of Natural History, Kanagawa, Japan ‡ The University of Tokyo, Tokyo, Japan § National Museum of Nature and Science, Ibaraki, Japan Corresponding author: Yusuke Miyazaki ([email protected]) Academic editor: Rupert Collins Received: 28 Mar 2014 | Accepted: 23 Oct 2014 | Published: 07 Nov 2014 Citation: Miyazaki Y, Nakae M, Senou H (2014) Ichthyofauna of the Kubo, Tochikura, and Ichinono river systems (Kitakami River drainage, northern Japan), with a comparison of predicted and surveyed species richness. Biodiversity Data Journal 2: e1093. doi: 10.3897/BDJ.2.e1093 Abstract The potential fish species pool of the Kubo, Tochikura, and Ichinono river systems (tributaries of the Iwai River, Kitakami River drainage), Iwate Prefecture, northern Japan, was compared with the observed ichthyofauna by using historical records and new field surveys. Based on the literature survey, the potential species pool comprised 24 species/ subspecies but only 20, including 7 non-native taxa, were recorded during the fieldwork. The absence during the survey of 11 species/subspecies from the potential species pool suggested either that sampling effort was insufficient, or that accurate determination of the potential species pool was hindered by lack of biogeographic data and ecological data related to the habitat use of the species. With respect to freshwater fish conservation in the area, Lethenteron reissneri, Carassius auratus buergeri, Pseudorasbora pumila, Tachysurus tokiensis, Oryzias latipes, and Cottus nozawae are regarded as priority species, and Cyprinus rubrofuscus, Pseudorasbora parva, and Micropterus salmoides as targets for removal. -
Species Assessment for Atlantic Coast Leopard Frog
Species Status Assessment Class: Amphibia Family: Ranidae Scientific Name: Lithobates [Rana] kauffeldi Common Name: Atlantic Coast leopard frog Species synopsis: More than a century of taxonomic confusion regarding the leopard frogs of the East Coast was resolved in 2012 with the publication of a genetic analysis (Newman et al. 2012) confirming that a third, cryptic species of leopard frog (Rana [= Lithobates] sp. nov.) occurs in southern New York, northern New Jersey, and western Connecticut. The molecular evidence strongly supported the distinction of this new species from the previously known northern (R. pipiens [= L. pipiens]) and southern (R. sphenocephala [=L. sphenocephalus]) leopard frogs. Rana kauffeldi is morphologically similar to R. sphenocephala and R. pipiens, but distinguishable by advertisement call, genetics, habitat, geographic distribution, and a combination of morphological characters (Feinberg et al. 2014). Bioacoustic evidence of the frog’s occurrence in southern New Jersey, Maryland, Delaware, and as far south as the Virginia/North Carolina border is available, thereby raising uncertainty about which species of leopard frog occur(s) presently and historically throughout the region. Some evidence suggests that Long Island might at one time have had two species: the southern leopard frog in the pine barrens and the Atlantic Coast leopard frog in coastal wetlands and the Hudson Valley. For simplicity’s sake, in this assessment we retain the name “Atlantic Coast leopard frog” even though much of the information available may also refer to the southern leopard frog or a combination of species (Feinberg et al. 2014). 1 I. Status a. Current and Legal Protected Status i. Federal ____ Not Listed______________________ Candidate? ___No____ ii. -
Summary Report of Freshwater Nonindigenous Aquatic Species in U.S
Summary Report of Freshwater Nonindigenous Aquatic Species in U.S. Fish and Wildlife Service Region 4—An Update April 2013 Prepared by: Pam L. Fuller, Amy J. Benson, and Matthew J. Cannister U.S. Geological Survey Southeast Ecological Science Center Gainesville, Florida Prepared for: U.S. Fish and Wildlife Service Southeast Region Atlanta, Georgia Cover Photos: Silver Carp, Hypophthalmichthys molitrix – Auburn University Giant Applesnail, Pomacea maculata – David Knott Straightedge Crayfish, Procambarus hayi – U.S. Forest Service i Table of Contents Table of Contents ...................................................................................................................................... ii List of Figures ............................................................................................................................................ v List of Tables ............................................................................................................................................ vi INTRODUCTION ............................................................................................................................................. 1 Overview of Region 4 Introductions Since 2000 ....................................................................................... 1 Format of Species Accounts ...................................................................................................................... 2 Explanation of Maps ................................................................................................................................ -
Clicking Caterpillars: Acoustic Aposematism in Antheraea Polyphemus and Other Bombycoidea Sarah G
993 The Journal of Experimental Biology 210, 993-1005 Published by The Company of Biologists 2007 doi:10.1242/jeb.001990 Clicking caterpillars: acoustic aposematism in Antheraea polyphemus and other Bombycoidea Sarah G. Brown1, George H. Boettner2 and Jayne E. Yack1,* 1Department of Biology, Carleton University, Ottawa, Ontario, K1S 5B6, Canada and 2Plant Soil and Insect Sciences, University of Massachusetts, Amherst, MA 01003, USA *Author for correspondence (e-mail: [email protected]) Accepted 21 November 2006 Summary Acoustic signals produced by caterpillars have been correlated sound production with attack, and an increase documented for over 100 years, but in the majority of in attack rate was positively correlated with the number of cases their significance is unknown. This study is the first signals produced. In addition, sound production typically to experimentally examine the phenomenon of audible preceded or accompanied defensive regurgitation. sound production in larval Lepidoptera, focusing on a Bioassays with invertebrates (ants) and vertebrates (mice) common silkmoth caterpillar, Antheraea polyphemus revealed that the regurgitant is deterrent to would-be (Saturniidae). Larvae produce airborne sounds, predators. Comparative evidence revealed that other resembling ‘clicks’, with their mandibles. Larvae typically Bombycoidea species, including Actias luna (Saturniidae) signal multiple times in quick succession, producing trains and Manduca sexta (Sphingidae), also produce airborne that last over 1·min and include 50–55 clicks. Individual sounds upon attack, and that these sounds precede clicks within a train are on average 24.7·ms in duration, regurgitation. The prevalence and adaptive significance of often consisting of multiple components. Clicks are audible warning sounds in caterpillars is discussed. -
The Black~-Banded Sunfish ~ Enneacanthu~ Chaetodon
THE BLACK~-BANDED SUNFISH ~ ENNEACANTHU~ CHAETODON The Blac~-banded Sunfish was one of the first native fishes to be kept by American aquartsts, Shimmering silver and black, gliding majestically through the aquascape, they present an exciting cha llenge to the keeper of indigenous fishes. To encourage fellow aquar.~3tS to acquire and breed this miniature beauty We will att empt to review past literature and relate it to our own·observa tions. The Black-banded Sunfish belongs to the order of "perch-shaped :f5_sh~':s" or Perciformes, sub-order Percoidei, and the family Cen tx·archidae,Named Pomotis chaetodon by Baird in .L854, it was later renamed Mesogonist~us chaetodor and is currently known as Ennea canthus chaetodon. We affectionately call them "chaets" ("keets") to s~mpl~fy th~ngs. · Stoye (1971) notes that E. chaetodon (chaets) were first collect- .ed in the.swamps of Southern New Jersey and introduced into Ger many in 1897, although they were not kept by American aquarists until 1910. In addition to New Jersey the range includes Maryland, Delaware, Virginia, North Carolina, and Florida. Informative reports by Quinn {1967a,b) and Coombs(l97J) recorded water acidity at 6,4 pH and below in some areas. Quinn observes that "waving fronds of sphagnum moss" and decaying plant material are abundant in the lowlands of the pine barrensa these factors account, for the most part, for the acidic water quality. Although we have ·acclimated chaets to 8,2 pH water, we found that they stayed in better health and bred when maintained at 7,0 pH or be low. -
AKFS Aktuell Nr. 35
Kaltwasserfische und Fische der Subtropen A K F S aktuell Nr. 35 - Oktober 2015 Sonderheft Die Haltung des Scheibenbarsches im Wandel der Zeit ISSN 1864-8681 4 ─ Kaltwasserfische und Fische der Subtropen ● AKFS-aktuell 35/2015 Kaltwasserfische und Fische der Subtropen ● AKFS-aktuell 35/2015 ─ 5 und dort fünf Jahre bis zu einem Umzug in eine zentralbeheizte Anlässe, über den Scheibenbarsch zu schreiben Peter Pretor — Rösrath Neubauwohnung blieb. Danach vergingen gut 30 Jahre bis mich Über die Lebensverhältnisse der Scheibenbarsche ist bisher er- Anfang der achtziger Jahre - ausgelöst durch ein wunderschön staunlich wenig bekannt. Es fehlen umfassende Studien. Kaum eingerichtetes Aquarium meines damals 16jährigen Sohnes - er- etwas ist nach Rohde et al. (2009) zu Ihrer Ökologie bekannt, Über den Scheibenbarsch Enneacanthus chaetodon (Baird, 1855) neut die Lust auf die Wasserwelt packte. d.h. zu ihren Lebensräumen, ihrer Lebensgeschichte, ihrer Rolle und seine Haltung im Wandel der Zeit Eine ausführliche Literatursichtung lenkte mein Interesse vor in der Lebensgemeinschaft und ihren Anpassungen. allem auf eine Tropenwelt hinter Glas, wie sie Werner Schmett- Über den Scheibenbarsch zu schreiben heißt: Mit der Zielsetzung kamp 1982 in seinem Buch ‘Die Zwergcichliden Südamerikas‘ als und dem Anspruch zu schreiben, das gesamte Spektrum von der Zusammenfassung zahlreicher Dia-Vorträge faszinierend zum Haltung, Pflege, Zucht, Systematik und Verbreitung, seiner Histo- Leben erweckt hat und mit dem ich über viele Jahre hinweg die rie bis zu wesentlichen Bereichen wissenschaftlicher Erkenntnis- Begeisterung für Apistogramma-Arten in freundschaftlicher Ver- se zu erfassen. Dies erfordert zeitaufwendige und sehr sorgfältige bundenheit teilen konnte. Unter Beachtung der beschriebenen Recherchen, um bevorzugt auf Basis eigener Nachforschungen Daten vom Fundort sowie sonstiger ökologischen Untersuchun- ein umfassendes Gesamtbild von dieser Art zu vermitteln. -
Genetic Criteria for Establishing Evolutionarily Significant Units in Cryan's Bucktooth
Genetic Criteria for Establishing Evolutionarily Significant Units in Cryan's Bucktooth JOHN T. LEGGE,*II RICHARD ROUSH,*¶ ROB DESALLE,t ALFRIED P. VOGLER, t~: AND BERNIE MAYg *Department of Entomology, Comstock Hail, Corner University, Ithaca, NY 14853, lJ S.A. t Department of Entomology, American Museum of NaturalHistory, Central Park West at 79th Street, New York, NY 10024, U.S.A. § Genome Variation Analysis Facility, Department of Natural Resources, Comer University, Ithaca, NY 14853, U.S.A'. Abstract: Buckmoths (Hemileuca spp.) are day-flying saturniid moths with diverse ecologies and host plants. Populations that feed on Menyanthes trifoliata, known commonly as Cryan's buckmoths, have been found in only a few bogs and fens near eastern Lake Ontario in New York and near Ottawa in Ontario, Canada. Be- cause of their unique ecological traits, geographic isolation from other Hemileuca populations, and the small number of sites they occupy, there ts concern that the Cryan's buckmoth populations are phylogenetically dis- tinct and should be protected. The Cryan's buckmoths have not yet been taxonomically described and do not appear to have clear distinguishing morphological characters. Both molecular genetic traits (allozymes and mitochondrial DNA sequences) and an ecologically based character (host performance) were investigated to determine whether these populations possess fixed diagnostic characters signifying genetic differentiation from other eastern Hemileuca populations. Such differences would merit separate conservation management as an evolutionarily significant unit. Our studies showed that the Cryan's buckmoths clearly belong to the Hemileuca maia species group, but they could not be readily distinguished from other members of that group by means of molecular genetic techniques. -
Phylogenetic Analysis of Freshwater Crayfish of Massachusetts: the Genus Procambarus ______
Phylogenetic Analysis of Freshwater Crayfish of Massachusetts: The genus Procambarus ______________________________________________ A Major Qualifying Project Submitted to the Faculty of WORCESTER POLYTECHNIC INSTITUTE in partial fulfillment of the requirements for the Degree of Bachelor of Science by ___________________________________ Dilbar Ibrasheva Approved by: ___________________________________ Professor Michael A. Buckholt Professor Lauren Mathews January 13, 2011 Contents Abstract ......................................................................................................................................................... 3 Acknowledgements ....................................................................................................................................... 4 1 Introduction .......................................................................................................................................... 5 2 Background ........................................................................................................................................... 7 2.1 The Species Concept ..................................................................................................................... 7 2.2 Phylogeography and Population Genetics .................................................................................... 8 3 Materials and Methods ....................................................................................................................... 13 3.1 Samples and DNA Extraction