The Fresh-Water Fishes of China

Total Page:16

File Type:pdf, Size:1020Kb

The Fresh-Water Fishes of China NATURAL HISTORY OF CENTRAL ASIA VOLUME IX THE FRESHWATER RSHES OF CHINA tJ i. t 35, J Is. CENTRAL ASIATIC EXPEDITIONS LIBRARY OF THE rNNAf^^ ^ FOR THE ^. V PEOPLE ^ < FOR ^ EDVCATION O pi* FOR ^ n SCIENCE ^ THE FRESH-WATER FISHES OF CHINA CENTRAL ASIATIC EXPEDITIONS ROY CHAPMAN ANDREWS, Leader The Fresh-Water Fishes OF China BY JOHN TREADWELL NICHOLS, A.B. CURATOR OF RECENT FISHES THE AMERICAN MUSEUM OF NATURAL HISTORY With 143 Figures in the Text, 10 Colored Plates, and 1 Map NATURAL HISTORY OF CENTRAL ASIA VOLUME IX RUTH TYLER, M.A., Editor THE AMERICAN MUSEUM OF NATURAL HISTORY F. TRUBEE DAVISON, President NEW YORK 1943 THE FRESH-WATER FISRES OF CnilVA Copyright, 1943 by The American Museum of Natural History Published December 30, 1943 First Edition All rights reserved. This book, or parts thereof, must not be reproduced in any form without permission. Made in the United States of America. PREFACE The Asiatic Expeditions of the American Museum of Natural History have brought together general collections of fresh-water fishes from representative lo- calities in China. "These make up what is probably the most nearly adequate representation of such fishes that has been assembled to date, and with its aid it is possible to obtain a fair idea of the fauna as a whole, which in the last analysis will probably be found to comprise some 500 forms. This supposes that even in the best known areas a few undescribed species still await discovery, and that close study of large series of specimens of various variable and difficult groups, from different parts of China, will lead to the recognition of a number of new forms well in excess of the number of such which will doubtless be found to be merely nomi- nal" (Nichols, in Andrews, R. C, 1932, Natural History of Central Asia, I, p. 597). This is primarily a general report on the American Museum collections of Chinese fresh-water fishes. It also aims to be a comprehensive review of the fresh- water fishes of China proper, outlying territories such as Manchuria and Mongolia not being included. No attempt has been made to include marine species, or brack- ish-water species with marine affinities, though such may at times occur in fresh water. In so far as possible, all recent literature has been studied and carefully considered to, and including, the year 1934 (see beyond). The last few years before the present war witnessed much active interest in systematic ichthyology in China; in stimulating this interest the series of prelimi- nary papers issued by the American Museum can presumably claim a share. We now aim to acquaint the several workers in this field more fully with the extent of our collections and the conclusions to which they lead. It is also hoped that the present volume will serve as a "handbook" to the subject. To review briefly the sources of the principal material examined in preparing this report, the first small collections of Chinese fresh-water fishes to reach the American Museum were obtained from the Reverend John Graham in Yunnan, and by Doctor H. R. Caldwell in Fukien, and reported on in 1918. Doctor Caldwell later sent in more extensive collections from the neighborhood of Yenping. In the winter of 1921-1922, Mr. Clifford H. Pope spent three months at Huping, Tungting Lake, Hunan, and nine months in 1922 and 1923 near Nodoa on vi PREFACE Hainan Island, making comprehensive collections of the fish faunas of central and of southern China at these localities, respectively. This material is the most exten- sive that we have had for study. At other times Mr. Pope obtained lesser collec- tions from various localities in Chihli, Suiyuan in Anhwei, Shansi, Shantung, and Fukien. To him belongs the credit for assembling a major part of our material. The material from Chihli and Anhwei was reported on by Mr. Henry W. Fowler of the Academy of Natural Sciences of Philadelphia in 1924, in a paper which was of great service to the writer when initiating his study of the collections as a whole. Other members of the Asiatic Expeditions collected a few fishes incidentally, notably Doctor Walter Granger in western China; some from the vicinity of Can- ton were received through the courtesy of Doctor William E. Hoffmann of Lingnan University. Preliminary papers based on these collections include a report on those from Chihli and Anhwei by Fowler (1924), on the fishes of Hainan by Nichols and Pope (1927), a provisional check-list of the fresh-water fishes of China (1928), and a series of American Museum Novitates articles describing new forms by Nichols (1925-1931, see bibliography). Acknowledgment should be made of courtesies and assistance received by Mr. Pope from Mr. George Bachman and other members of the faculty of Huping College, near Yochow, Hunan; the late Reverend William J. Leverett and asso- ciates of the American Presbyterian Mission at Nodoa, Hainan, as well as numer- ous other persons and institutions. The color plates are from sketches made under Mr. Pope's direction in the field by Mr. Wang Hao-T'ing. With the exception of one taken from "The Fishes of Hainan" (Nichols and Pope, 1927), they are repro- duced here for the first time. The text figures have been taken from preliminary papers; a few are reproduced with Mr. Fowler's permission from his report. The outline drawings from "The Fishes of Hainan" were executed by Miss Olive Otis; most of the others, by Mrs. Louise Nash and Mrs. Helen Ziska. The literature references, both in the text and the bibliography, have been painstakingly revised by Miss Ruth Tyler, the editor, and she should have credit for such completeness, uniformity, and freedom from error as they show. A consistent usage in Chinese place names could not be attempted in this vol- ume. The spelling of the authors cited has in many cases been retained. Hence the reader will find Chihli as well as the more recent equivalent, Hopei; Cochinchina as well as French Indo-China, Korea and Chosen, Manchuria and Manchukuo, Pei- ping and Peking. The map of China showing the location of places visited by mem- bers of the Asiatic Expeditions, 1921-1930 (Andrews, 1932, Natural History of Central Asia, I), and the map of later date inserted in this volume will prove useful for an orientation of Chinese provincial areas. Data on a number of the localities PREFACE vii mentioned and the collecting stations will be found in the reptile volume of this series (Pope, 1935, Natural History of Central Asia, X, pp. 491-503). The main portion of the manuscript for this volume was closed in February, 1935. Delay in securing means for publication made it advisable to examine nu- merous papers which had appeared in 1935 and .1936, very active years in Chinese ichthyology, and to embody taxonomic changes and additions therefrom in a Sup- plement, the manuscript for which was closed in May, 1938. Further unexpected delays occurred, and now that the volume is finally in the hands of the printer it seems best to let it stand as of 1938, rather than to attempt to introduce the small amount of additional material possible, which, though of interest, would give a false impression of up-to-dateness. As of 1938, it closes the pre-war period of Chinese ichthyology, of which it is a part. John Treadwell Nichols The American Museum of Natural History New York, N. Y. July, 1943 CONTENTS Preface Text Figures XXXI Plates XXXV CHAPTER I.—INTRODUCTION Faunal Discussion ..... Orientation of the Chinese Fish Fauna Speculation on the History of the Ostariophysi Tables of Adaptations of the Carp-like Fishes Plan of the Present Work Doubtful Species References . CHAPTER II.—SYSTEMATIC ACCOUNT OF THE FRESH-WATER FISHES OF CHINA 15 Family Acipenseridae. Sturgeons IS Genus Acipenser Linnaeus IS Key to Chinese Acipenser IS Acipenser sinensis Gray 16 Acipenser dabryanus Dumeril 16 Genus Huso Brandt and Ratzeburg 16 Huso dauricus (Georgi) 16 Family Polyodontidae. Paddle Fishes Genus Psephurus Gunther . Psephurus gladius (Martens) Family Elopidae. Tarpons Genus Megalops Lacepede . Megalops cyprinoides (Broussonet) 18 Family Clupeidae. Herrings 18 Genus Hilsa Regan 18 Hilsa reevesii (Richardson) 18 Family Engraulidae. Anchovies 19 Genus Coilia Gray 19 Key to Chinese Fresh-Water Coilia 19 Coilia nasus Temminck and Schlegel 19 Coilia brachygnathus Kreyenberg and Pappenheim 19 CONTENTS Family Salmonidae. Salmons .... Genus Flecoglossus Temminck and Schlegel Plecoglossus altivelis Temminck and Schlegel Genus Brachymystax GUnther Brachymystax lenok (Pallas) Genus Hucho Giinther .... Hucho bleekeri Kimura Family Salangidae. Salangids .... Genus Salangichthys Bleeker Key to Chinese Salangichthys . Subgenus Protosalanx Regan . Salangichthys hyalocranius (Abbott) Subgenus Paraprotosalanx Fang Salangichthys anderssoni (Rendahl) Genus Salanx Cuvier ..... Key to Chinese Salanx .... Subgenus Hemisalanx Regan . Salanx prognalhus (Regan) Subgenus Leucosoma Gray Salanx chinensis (Osbeck) . Subgenus Salanx Cuvier Salanx cuvieri Cuvier and Valenciennes . Salanx brachyrostralis Fang Subgenus Parasalanx Regan . Salanx gracilUmus (Regan) Salanx annitae (van Dam) . Salanx acuticeps Regan Salanx longianalis (Regan) Salanx augusticeps (Regan) Family Monopteridae. Symbranch Eels Genus Fluta Bloch and Schneider . Key to Chinese Fluta alba Fluta alba xanthognatha (Richardson) . Fluta alba cincrea (Richardson) . Family Mastacembelidae. Spiny Eels Genus Mastacembelus Scopoli Key to Chinese Mastacembelus . Mastacembelus armatus undulatus McClelland Mastacembelus sinensis (Bleeker) Family Anguillidae. True Eels .... Genus Anguilla Shaw ..... Key to Chinese Anguilla .... Anguilla sinensis McClelland Anguilla japonica Temminck and Schlegel Anguilla mauritiana Bennett Family Siluridae. Catfishes .... CONTENTS XI PAGE Genus Parasilurus Bleeker . 33 Key to Chinese Parasilurus 33 Parasilurus cincreus (Dabry de Thiersant) 34 Parasilurus mento (Regan) 34 Parasilurus grahami (Regan) 34 Parasilurus asotus asotus (Linnaeus) 34 Parasilurus asotus bedjordi (Regan) 35 Parasilurus asotus longiis Wu 35 Parasilurus cochinchinensis (Cuvier and Valenciennes) 35 Parasilurus anomalus (Herre) 35 Genus Silurodon Kner ...
Recommended publications
  • Dynamic Genetic Diversity and Population Structure of Coreius Guichenoti
    ZooKeys 1055: 135–148 (2021) A peer-reviewed open-access journal doi: 10.3897/zookeys.1055.70117 RESEARCH ARTICLE https://zookeys.pensoft.net Launched to accelerate biodiversity research Dynamic genetic diversity and population structure of Coreius guichenoti Dongqi Liu1*, Feng Lan2*, Sicai Xie1, Yi Diao1, Yi Zheng1, Junhui Gong1 1 Sichuan Province Key Laboratory of Characteristic Biological Resources of Dry and Hot River Valley, Pan- zhihua University, Panzhihua, 617000, China 2 Upper Changjiang River Burean of Hydrological and Water Resources Survey, Chongqing, 400000, China Corresponding author: Feng Lan ([email protected]) Academic editor: M.E. Bichuette | Received 14 June 2021 | Accepted 27 July 2021 | Published 11 August 2021 http://zoobank.org/ADECA19A-B689-47AE-971B-42913F28F5CE Citation: Liu D, Lan F, Xie S, Diao Y, Zheng Y, Gong J (2021) Dynamic genetic diversity and population structure of Coreius guichenoti. ZooKeys 1055: 135–148. https://doi.org/10.3897/zookeys.1055.70117 Abstract To investigate the genetic effects on the population of Coreius guichenoti of dam constructions in the upper reaches of the Yangtze River, we analyzed the genetic diversity and population structure of 12 popula- tions collected in 2009 and 2019 using mitochondrial DNA (mtDNA) control regions. There was no significant difference in genetic diversity between 2009 and 2019P ( > 0.05), but the population structure tended to become stronger. Genetic differentiation (FST) among five populations (LX, BB, YB, SF and JA) collected in 2009 was not significant P( > 0.05). However, some populations collected in 2019 were significantly differentiated (P < 0.05), indicating that the population structure has undergone change.
    [Show full text]
  • Acanthobrama Telavivensis), in a Mediterranean-Type Stream
    Environ Biol Fish DOI 10.1007/s10641-006-9066-8 ORIGINAL PAPER Reproductive strategy of a small endemic cyprinid, the Yarqon bleak (Acanthobrama telavivensis), in a mediterranean-type stream Eldad Elron Æ Avital Gasith Æ Menachem Goren Received: 22 November 2005 / Accepted: 4 April 2006 Ó Springer Science+Business Media B.V. 2006 Abstract A mediterranean-type climate exists in mediterranean-climate hydrologic regime. It five widely separated regions; the Mediterranean breeds in late winter and early spring, a window basin, parts of western North America, parts of of opportunity between flash floods and habitat western and southern Australia, southwestern desiccation. Being a multiple spawner allows the South Africa and parts of central Chile. Streams fish to compensate for the potential loss of part of in these regions feature seasonal disturbances of its reproductive output due to scouring flows of contrasting hydrology with high predictability of late floods. The ability of the Yarqon bleak to the timing of flooding and drying but low con- spawn on different substrate-types enables it to stancy. We would expect fish living in these take advantage of different stream conditions that streams to avoid scouring flow and breed after pertain in different years. The fish attains pre- cessation of the flood period. The aim of the adult size (ca. 33–42 mm) within the first year, present study was to examine the adaptation of prior to drying out of most stream reaches, and the Yarqon bleak, Acanthobrama telavivensis,an matures by the beginning of the second year endemic cyprinid in the coastal streams of Israel, (males >41; females >42 mm).
    [Show full text]
  • §4-71-6.5 LIST of CONDITIONALLY APPROVED ANIMALS November
    §4-71-6.5 LIST OF CONDITIONALLY APPROVED ANIMALS November 28, 2006 SCIENTIFIC NAME COMMON NAME INVERTEBRATES PHYLUM Annelida CLASS Oligochaeta ORDER Plesiopora FAMILY Tubificidae Tubifex (all species in genus) worm, tubifex PHYLUM Arthropoda CLASS Crustacea ORDER Anostraca FAMILY Artemiidae Artemia (all species in genus) shrimp, brine ORDER Cladocera FAMILY Daphnidae Daphnia (all species in genus) flea, water ORDER Decapoda FAMILY Atelecyclidae Erimacrus isenbeckii crab, horsehair FAMILY Cancridae Cancer antennarius crab, California rock Cancer anthonyi crab, yellowstone Cancer borealis crab, Jonah Cancer magister crab, dungeness Cancer productus crab, rock (red) FAMILY Geryonidae Geryon affinis crab, golden FAMILY Lithodidae Paralithodes camtschatica crab, Alaskan king FAMILY Majidae Chionocetes bairdi crab, snow Chionocetes opilio crab, snow 1 CONDITIONAL ANIMAL LIST §4-71-6.5 SCIENTIFIC NAME COMMON NAME Chionocetes tanneri crab, snow FAMILY Nephropidae Homarus (all species in genus) lobster, true FAMILY Palaemonidae Macrobrachium lar shrimp, freshwater Macrobrachium rosenbergi prawn, giant long-legged FAMILY Palinuridae Jasus (all species in genus) crayfish, saltwater; lobster Panulirus argus lobster, Atlantic spiny Panulirus longipes femoristriga crayfish, saltwater Panulirus pencillatus lobster, spiny FAMILY Portunidae Callinectes sapidus crab, blue Scylla serrata crab, Samoan; serrate, swimming FAMILY Raninidae Ranina ranina crab, spanner; red frog, Hawaiian CLASS Insecta ORDER Coleoptera FAMILY Tenebrionidae Tenebrio molitor mealworm,
    [Show full text]
  • Review and Updated Checklist of Freshwater Fishes of Iran: Taxonomy, Distribution and Conservation Status
    Iran. J. Ichthyol. (March 2017), 4(Suppl. 1): 1–114 Received: October 18, 2016 © 2017 Iranian Society of Ichthyology Accepted: February 30, 2017 P-ISSN: 2383-1561; E-ISSN: 2383-0964 doi: 10.7508/iji.2017 http://www.ijichthyol.org Review and updated checklist of freshwater fishes of Iran: Taxonomy, distribution and conservation status Hamid Reza ESMAEILI1*, Hamidreza MEHRABAN1, Keivan ABBASI2, Yazdan KEIVANY3, Brian W. COAD4 1Ichthyology and Molecular Systematics Research Laboratory, Zoology Section, Department of Biology, College of Sciences, Shiraz University, Shiraz, Iran 2Inland Waters Aquaculture Research Center. Iranian Fisheries Sciences Research Institute. Agricultural Research, Education and Extension Organization, Bandar Anzali, Iran 3Department of Natural Resources (Fisheries Division), Isfahan University of Technology, Isfahan 84156-83111, Iran 4Canadian Museum of Nature, Ottawa, Ontario, K1P 6P4 Canada *Email: [email protected] Abstract: This checklist aims to reviews and summarize the results of the systematic and zoogeographical research on the Iranian inland ichthyofauna that has been carried out for more than 200 years. Since the work of J.J. Heckel (1846-1849), the number of valid species has increased significantly and the systematic status of many of the species has changed, and reorganization and updating of the published information has become essential. Here we take the opportunity to provide a new and updated checklist of freshwater fishes of Iran based on literature and taxon occurrence data obtained from natural history and new fish collections. This article lists 288 species in 107 genera, 28 families, 22 orders and 3 classes reported from different Iranian basins. However, presence of 23 reported species in Iranian waters needs confirmation by specimens.
    [Show full text]
  • Length-Weight Relationship of Ten Species of Leuciscinae Sub-Family (Cyprinidae) from Iranian Inland Waters
    Int Aquat Res (2020) 12:133–136 https://doi.org/10.22034/IAR(20).2020.1891648.1004 SHORT COMMUNICATION Length-weight relationship of ten species of Leuciscinae sub-family (Cyprinidae) from Iranian inland waters Soheil Eagderi . Atta Mouludi-Saleh . Erdogan Çiçek Received: 23 January 2020 / Accepted: 16 April 2020 / Published online: 16 May 2020 © The Author(s) 2020 Abstract In this study, the length-weight relationships (LWRs) were estimated for 697 specimens belonging to ten species of Leuciscinae subfamily, viz. Squalius berak, S. namak, S. turcicus, Acanthobrama marmid, A. microlepis, Chondrostoma esmaeilii, Leuciscus latus, Alburnus doriae, Leucaspius delineates and Blicca bjoerkna from Iranian inland waters, including the Persian Gulf, Caspian Sea, Namak Lake, Dasht-e Kavir, Hari River and Isfahan basins. Total length and total weight of the examined specimens ranged 3.8-27.8 cm and 0.59-247 g, respectively. Fishes were collected using electrofishing device between July 2010 and August 2017. This study represents the first reports of LWRs data for A. doriae, C. esmaeilii, L. latus and L. delineates. The length-weight parameter b found to be 2.75 (A. microlepis) - 3.44 (B. bjoerkna) with regression coefficients (r2) ranging 0.87 to 0.99 for the studied fishes. The student’s t-test showed all studied species have a positive allometric growth pattern except A. doriae (isometric) and A. microlepis (negative allometric). Keywords LWRs . Leuciscinae . Chondrostoma esmaeilii . Leuciscus latus Introduction Study of fish species and their populations are important to understand their biological aspects in order to optimal management of their resources (Jalili et al.
    [Show full text]
  • Age, Growth and Mortality of Acanthobrama Microlepis (De Filippi, 1863) from Lake Çıldır, Turkey
    Age, growth and mortality of Acanthobrama microlepis (De Filippi, 1863) from Lake Çıldır, Turkey Nurcihan ÇAKIR, Erdoğan ÇİÇEK*, Burak SEÇER, Sevil BİRECİKLİGİL Department of Biology, Faculty of Art and Sciences, Nevşehir Hacı Bektaş Veli University, Nevşehir, Turkey. *Corresponding author: [email protected] Abstract: This study was carried out in August-September 2014 and May 2015 in Lake Çıldır. A total of 229 specimens of Acanthobrama microlepis were used to determine some population parameters. The age of the specimens ranged from I to IV age groups and dominant age group was II. Total length varied from 7.6 to 24.2 cm with mean of 16.23±4.22 cm and total weight ranged from 3.68 to 123.46 g with mean of 42.70±33.24 g. The length- 3.1199 weight relationship were estimated as W = 0.0058L . The von Bertalanffy growth parameters, growth performance index and Fulton’s condition factor were calculates as L∞ = -1 38.37 cm, k = 0.193 year , to = -0.73 year, Φ = 2.45 and K = 0.75, respectively. Total mortality, natural mortality, fishing mortality and exploitation rates also estimated as Z = 0.50, M = 0.28, F = 0.22 and E = 0.44, respectively. In the light of these values it could not indicate any overfishing on population based on the exploitation rate. Keywords: Acanthobrama microlepis, Blackbrow bleak, Caucasian bream, Lake Çıldır, Population parameters, Mortality rates. Introduction Coad, 2015). Even though the species has not economic The genus Acanthalburnus belongs to Leuciscine value, is used for human consumption by locally, Cyprinids and distributed in Southwest Asia.
    [Show full text]
  • 3D Morphology of Pharyngeal Dentition of the Genus Capoeta (Cyprinidae): Implications for Taxonomy and Phylogeny
    Accepted: 26 January 2018 DOI: 10.1111/jzs.12217 ORIGINAL ARTICLE 3D morphology of pharyngeal dentition of the genus Capoeta (Cyprinidae): Implications for taxonomy and phylogeny Anna Ayvazyan1 | Davit Vasilyan2,3 | Madelaine Bohme€ 1,4 1Department of Geosciences, Eberhard- Karls-University Tubingen,€ Tubingen,€ Abstract Germany Capoeta is a herbivorous cyprinid fish genus, widely distributed in water bodies of 2JURASSICA Museum, Porrentruy, Western Asia. Recent species show a distinct biogeographic pattern with endemic Switzerland 3Universite de Fribourg, Fribourg, distribution in large fluvial drainage basins. As other cyprinids, the species of this Switzerland genus are characterized by the presence of the pharyngeal bone with pharyngeal 4 Senckenberg Center for Human Evolution teeth. Despite this, the detailed morphology of the pharyngeal teeth, its interspecific and Palaeoenvironment (HEP), Tubingen,€ Germany and topologic variations, and the importance for taxonomy and phylogeny of the genus Capoeta are still not established. For the first time, a detailed comprehensive Correspondence Anna Ayvazyan study of the pharyngeal dentition of 10 Capoeta species has been provided. The Email: [email protected] morphologic study of the pharyngeal dentition bases on the 3D microtomography Funding information and follows the purpose to evaluate the potential taxonomic and phylogenetic sig- This work was funded by the German nals of these elements, as well as to study interspecific and topologic variations of Academic Exchange Service (DAAD) and the SYNTHESYS Grant (ES-TAF-5970) to the the pharyngeal teeth. In this study, we propose a new methodology to categorize National Museum of Natural Sciences of the studied pharyngeal teeth in 18 shape classes. The results of this study show Madrid (MNCN).
    [Show full text]
  • The Status and Distribution of Freshwater Fish Endemic to the Mediterranean Basin
    IUCN – The Species Survival Commission The Status and Distribution of The Species Survival Commission (SSC) is the largest of IUCN’s six volunteer commissions with a global membership of 8,000 experts. SSC advises IUCN and its members on the wide range of technical and scientific aspects of species conservation Freshwater Fish Endemic to the and is dedicated to securing a future for biodiversity. SSC has significant input into the international agreements dealing with biodiversity conservation. Mediterranean Basin www.iucn.org/themes/ssc Compiled and edited by Kevin G. Smith and William R.T. Darwall IUCN – Freshwater Biodiversity Programme The IUCN Freshwater Biodiversity Assessment Programme was set up in 2001 in response to the rapidly declining status of freshwater habitats and their species. Its mission is to provide information for the conservation and sustainable management of freshwater biodiversity. www.iucn.org/themes/ssc/programs/freshwater IUCN – Centre for Mediterranean Cooperation The Centre was opened in October 2001 and is located in the offices of the Parque Tecnologico de Andalucia near Malaga. IUCN has over 172 members in the Mediterranean region, including 15 governments. Its mission is to influence, encourage and assist Mediterranean societies to conserve and use sustainably the natural resources of the region and work with IUCN members and cooperate with all other agencies that share the objectives of the IUCN. www.iucn.org/places/medoffice Rue Mauverney 28 1196 Gland Switzerland Tel +41 22 999 0000 Fax +41 22 999 0002 E-mail: [email protected] www.iucn.org IUCN Red List of Threatened SpeciesTM – Mediterranean Regional Assessment No.
    [Show full text]
  • Phylogenetic Relationships of Freshwater Fishes of the Genus Capoeta (Actinopterygii, Cyprinidae) in Iran
    Received: 3 May 2016 | Revised: 8 August 2016 | Accepted: 9 August 2016 DOI: 10.1002/ece3.2411 ORIGINAL RESEARCH Phylogenetic relationships of freshwater fishes of the genus Capoeta (Actinopterygii, Cyprinidae) in Iran Hamid Reza Ghanavi | Elena G. Gonzalez | Ignacio Doadrio Museo Nacional de Ciencias Naturales, Biodiversity and Evolutionary Abstract Biology Department, CSIC, Madrid, Spain The Middle East contains a great diversity of Capoeta species, but their taxonomy re- Correspondence mains poorly described. We used mitochondrial history to examine diversity of the Hamid Reza Ghanavi, Department of algae- scraping cyprinid Capoeta in Iran, applying the species- delimiting approaches Biology, Lund University, Lund, Sweden. Email: [email protected] General Mixed Yule- Coalescent (GMYC) and Poisson Tree Process (PTP) as well as haplotype network analyses. Using the BEAST program, we also examined temporal divergence patterns of Capoeta. The monophyly of the genus and the existence of three previously described main clades (Mesopotamian, Anatolian- Iranian, and Aralo- Caspian) were confirmed. However, the phylogeny proposed novel taxonomic findings within Capoeta. Results of GMYC, bPTP, and phylogenetic analyses were similar and suggested that species diversity in Iran is currently underestimated. At least four can- didate species, Capoeta sp4, Capoeta sp5, Capoeta sp6, and Capoeta sp7, are awaiting description. Capoeta capoeta comprises a species complex with distinct genetic line- ages. The divergence times of the three main Capoeta clades are estimated to have occurred around 15.6–12.4 Mya, consistent with a Mio- Pleistocene origin of the di- versity of Capoeta in Iran. The changes in Caspian Sea levels associated with climate fluctuations and geomorphological events such as the uplift of the Zagros and Alborz Mountains may account for the complex speciation patterns in Capoeta in Iran.
    [Show full text]
  • A Functional-Morphological Study on the Attachment, Respiration and Feeding Mechanisms in Balitorinae (Balitoridae, Teleostei)
    Faculty of Sciences Department of Biology Research group: Evolutionary Morphology of Vertebrates Academic year 2012-2013 A functional-morphological study on the attachment, respiration and feeding mechanisms in Balitorinae (Balitoridae, Teleostei) De Meyer Jens Supervisor: Dr. Tom Geerinckx Thesis submitted to obtain the degree of Tutor: Dr. Tom Geerinckx Master in Biology II © Faculty of Sciences – Evolutionary Morphology of Vertebrates Deze masterproef bevat vertrouwelijk informatie en vertrouwelijke onderzoeksresultaten die toebehoren aan de UGent. De inhoud van de masterproef mag onder geen enkele manier publiek gemaakt worden, noch geheel noch gedeeltelijk zonder de uitdrukkelijke schriftelijke voorafgaandelijke toestemming van de UGent vertegenwoordiger, in casu de promotor. Zo is het nemen van kopieën of het op eender welke wijze dupliceren van het eindwerk verboden, tenzij met schriftelijke toestemming. Het niet respecteren van de confidentiële aard van het eindwerk veroorzaakt onherstelbare schade aan de UGent. Ingeval een geschil zou ontstaan in het kader van deze verklaring, zijn de rechtbanken van het arrondissement Gent uitsluitend bevoegd daarvan kennis te nemen. All rights reserved. This thesis contains confidential information and confidential research results that are property to the UGent. The contents of this master thesis may under no circumstances be made public, nor complete or partial, without the explicit and preceding permission of the UGent representative, i.e. the supervisor. The thesis may under no circumstances be copied or duplicated in any form, unless permission granted in written form. Any violation of the confidential nature of this thesis may impose irreparable damage to the UGent. In case of a dispute that may arise within the context of this declaration, the Judicial Court of© All rights reserved.
    [Show full text]
  • Coreius Guichenoti
    www.nature.com/scientificreports OPEN Alterations of the gut microbiome of largemouth bronze gudgeon (Coreius guichenoti) suffering from Received: 25 January 2016 Accepted: 07 July 2016 furunculosis Published: 28 July 2016 Tongtong Li1,2,*, Meng Long1,*, Cheng Ji3, Zhixin Shen4, François-Joël Gatesoupe5, Xujie Zhang1, Qianqian Zhang1, Lanli Zhang1, Yuanli Zhao1, Xinhua Liu1 & Aihua Li1 High-throughput sequencing was applied to compare the intestinal microbiota in largemouth bronze gudgeon either healthy or affected by furunculosis. Proteobacteria, Actinobacteria, Tenericutes, Firmicutes and Bacteroidetes were detected as the predominant bacterial phyla in the gut of both diseased and healthy fish. The abundance of Proteobacteria differed significantly between the two groups of fish, mainly due to the overwhelming prevalence ofAeromonas in the diseased fish (81% ± 17%), while the genus was unevenly spread among the apparently healthy fish (33% ± 33%). The bacterial diversity in the intestine of diseased fish was markedly lower than in healthy fish. Analysis revealed the significant dissimilarity between the gut microbiota of diseased and healthy fish. The bacterial profiles in the gut were further characterized with the 28 phylotypes that were shared by the two groups. In diseased fish, two shared OTUs (OTU0001 and OTU0013) were closely related to Aeromonas salmonicida, their total proportion exceeding 70% of the sequences in diseased fish, while averaging 5.2% ± 4.6% in the healthy fish. This result suggested the presence of healthy carriers of pathogenic A. salmonicida among the farmed fish, and the gut appeared as a probable infection source for furunculosis in largemouth bronze gudgeon. Gut microbiota can play important roles in nutrition and health, and it may be considered as an integral com- ponent of the host1–4.
    [Show full text]
  • ML-DSP: Machine Learning with Digital Signal Processing for Ultrafast, Accurate, and Scalable Genome Classification at All Taxonomic Levels Gurjit S
    Randhawa et al. BMC Genomics (2019) 20:267 https://doi.org/10.1186/s12864-019-5571-y SOFTWARE ARTICLE Open Access ML-DSP: Machine Learning with Digital Signal Processing for ultrafast, accurate, and scalable genome classification at all taxonomic levels Gurjit S. Randhawa1* , Kathleen A. Hill2 and Lila Kari3 Abstract Background: Although software tools abound for the comparison, analysis, identification, and classification of genomic sequences, taxonomic classification remains challenging due to the magnitude of the datasets and the intrinsic problems associated with classification. The need exists for an approach and software tool that addresses the limitations of existing alignment-based methods, as well as the challenges of recently proposed alignment-free methods. Results: We propose a novel combination of supervised Machine Learning with Digital Signal Processing, resulting in ML-DSP: an alignment-free software tool for ultrafast, accurate, and scalable genome classification at all taxonomic levels. We test ML-DSP by classifying 7396 full mitochondrial genomes at various taxonomic levels, from kingdom to genus, with an average classification accuracy of > 97%. A quantitative comparison with state-of-the-art classification software tools is performed, on two small benchmark datasets and one large 4322 vertebrate mtDNA genomes dataset. Our results show that ML-DSP overwhelmingly outperforms the alignment-based software MEGA7 (alignment with MUSCLE or CLUSTALW) in terms of processing time, while having comparable classification accuracies for small datasets and superior accuracies for the large dataset. Compared with the alignment-free software FFP (Feature Frequency Profile), ML-DSP has significantly better classification accuracy, and is overall faster. We also provide preliminary experiments indicating the potential of ML-DSP to be used for other datasets, by classifying 4271 complete dengue virus genomes into subtypes with 100% accuracy, and 4,710 bacterial genomes into phyla with 95.5% accuracy.
    [Show full text]