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A Case Study for Molecular Phylogeny of Acanthomorpha (Teleostei) with Larger Number of Taxa
MOLECULAR PHYLOGENETICS AND EVOLUTION Molecular Phylogenetics and Evolution 26 (2003) 262–288 www.elsevier.com/locate/ympev Repeatability of clades as a criterion of reliability: a case study for molecular phylogeny of Acanthomorpha (Teleostei) with larger number of taxa Wei-Jen Chen,1 Ceeline Bonillo,and Guillaume Lecointre * Laboratoire d’Ichtyologie generale et appliquee, et service de systematique moleculaire (IFR CNRS 1541), Museun National d’Histoire Naturelle, 43 rue Cuvier, 75231 Paris cedex 05, France Received 17 April 2002; revised 30 August 2002 Abstract Although much progress has been made recently in teleostean phylogeny,relationships among the main lineages of the higher teleosts (Acanthomorpha),containing more than 60% of all fish species,remain poorly defined. This study represents the most extensive taxonomic sampling effort to date to collect new molecular characters for phylogenetic analysis of acanthomorph fishes. We compiled and analyzed three independent data sets,including: (i) mitochondrial ribosomal fragments from 12S and 16s (814 bp for 97 taxa); (ii) nuclear ribosomal 28S sequences (847 bp for 74 taxa); and (iii) a nuclear protein-coding gene,rhodopsin (759 bp for 86 taxa). Detailed analyses were conducted on each data set separately and the principle of taxonomic congruence without con- sensus trees was used to assess confidence in the results as follows. Repeatability of clades from separate analyses was considered the primary criterion to establish reliability,rather than bootstrap proportions from a single combined -
Training Manual Series No.15/2018
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by CMFRI Digital Repository DBTR-H D Indian Council of Agricultural Research Ministry of Science and Technology Central Marine Fisheries Research Institute Department of Biotechnology CMFRI Training Manual Series No.15/2018 Training Manual In the frame work of the project: DBT sponsored Three Months National Training in Molecular Biology and Biotechnology for Fisheries Professionals 2015-18 Training Manual In the frame work of the project: DBT sponsored Three Months National Training in Molecular Biology and Biotechnology for Fisheries Professionals 2015-18 Training Manual This is a limited edition of the CMFRI Training Manual provided to participants of the “DBT sponsored Three Months National Training in Molecular Biology and Biotechnology for Fisheries Professionals” organized by the Marine Biotechnology Division of Central Marine Fisheries Research Institute (CMFRI), from 2nd February 2015 - 31st March 2018. Principal Investigator Dr. P. Vijayagopal Compiled & Edited by Dr. P. Vijayagopal Dr. Reynold Peter Assisted by Aditya Prabhakar Swetha Dhamodharan P V ISBN 978-93-82263-24-1 CMFRI Training Manual Series No.15/2018 Published by Dr A Gopalakrishnan Director, Central Marine Fisheries Research Institute (ICAR-CMFRI) Central Marine Fisheries Research Institute PB.No:1603, Ernakulam North P.O, Kochi-682018, India. 2 Foreword Central Marine Fisheries Research Institute (CMFRI), Kochi along with CIFE, Mumbai and CIFA, Bhubaneswar within the Indian Council of Agricultural Research (ICAR) and Department of Biotechnology of Government of India organized a series of training programs entitled “DBT sponsored Three Months National Training in Molecular Biology and Biotechnology for Fisheries Professionals”. -
NEPA-EA-Acls-Coral-R
U.S. DEPARTMENT OF COMMERCE National Oceanic and Atmospheric Administration NATIONAL MARINE FISHERIES SERVICE Pacific Islands Regional Office 1845 Wasp Blvd. Bldg.176 Honolulu, Hawaii 96818 (808) 725-5000 • Fax (808) 725-5215 Environmental Assessment Specification of Annual Catch Limits and Accountability Measures for Pacific Island Coral Reef Ecosystem Fisheries in Fishing Years 2015 through 2018 (RIN 0648-XD558) August 12, 2015 Responsible Agency: National Oceanic and Atmospheric Administration (NOAA) National Marine Fisheries Service (NMFS) Pacific Islands Regional Office (PIRO) Responsible Official: Michael D. Tosatto Regional Administrator, PIRO 1845 Wasp Blvd., Bldg 176 Honolulu, HI 96818 Tel (808)725-5000 Fax (808)725-5215 Responsible Council: Western Pacific Fishery Management Council 1164 Bishop St. Suite 1400 Honolulu, HI 96813 Tel (808)522-8220 Fax (808)522-8226 Abstract: The Western Pacific Fishery Management Council (Council) recommended NMFS specify multi-year annual catch limits (ACL) and accountability measures (AM) effective in fishing years 2015-2018, the environmental effects of which are analyzed in this document. NMFS proposes to implement the specifications for fishing year 2015, 2016, 2017, and 2018 separately prior to each fishing year. The specifications pertain to ACLs for coral reef ecosystem fisheries in the Exclusive Economic Zone (EEZ or federal waters; generally 3-200 nautical miles or nm) around American Samoa, the Commonwealth of the Northern Mariana Islands (CNMI), Guam, and Hawaii, and a post-season AM to correct the overage of an ACL if it occurs. Because of the large number of individual coral reef ecosystem management unit species (CREMUS) in each island area, individual species were aggregated into higher taxonomic groups, generally at the family level. -
Short Communication
RAY : New Records of Four Squirrelfishes......from the coastal waters of West Bengal, India 207 ISSN 0375-1511 Rec. zool. Surv. India : 115(Part-2) : 207-211, 2015 Short Communication NEW RECORDS OF FOUR SQUIRRELFISHES (BERYCIFORMES : HOLOCENTRIDAE) FROM THE COASTAL WATERS OF WEST BENGAL, INDIA INTRODUCTION 1802) which were not reported from the coast. The fishes of family Holocentridae (Order This paper describes four species of fishes from Berciformes) are characterized by having large family Holocentridae which are new addition to eyes, brilliant colouration with red predominating the icthyofaunal resource of West Bengal. and spiny squamation (Shimizu & Yamakawa, MATERIALS AND METHODS 1979). The family represented by 8 genera All the specimens were collected from fish and 65 species throughout the world (Nelson, landing centre Digha Mohona (21°37.843’N, 2006), however, 19 species from 4 genera were 87°32.827’E). The detail morphometric reported so far in Indian waters (Talwar, 1991). measurements were taken in the field and the The two subfamilies of this group, Holocentrinae specimens were preserved in 10% formalin after (squirrelfishes) and Myripristinae (soldierfishes) taking the fresh photographs. Material details are are distributed worldwide from tropical to warm given under each species and these specimens temperate waters in shallow water on coral reefs are housed at museum of Marine Aquarium and or rocky bottom. The family is well known Regional Center of Zoological Survey of India, for sound production and nocturnal habit, hide Digha. in caves during day and come out at night for feeding. These fishes are very hardy in aquariums RESULTS AND DISCUSSION and attractive for the bright colouration. -
Annotated Checklist of the Fish Species (Pisces) of La Réunion, Including a Red List of Threatened and Declining Species
Stuttgarter Beiträge zur Naturkunde A, Neue Serie 2: 1–168; Stuttgart, 30.IV.2009. 1 Annotated checklist of the fish species (Pisces) of La Réunion, including a Red List of threatened and declining species RONALD FR ICKE , THIE rr Y MULOCHAU , PA tr ICK DU R VILLE , PASCALE CHABANE T , Emm ANUEL TESSIE R & YVES LE T OU R NEU R Abstract An annotated checklist of the fish species of La Réunion (southwestern Indian Ocean) comprises a total of 984 species in 164 families (including 16 species which are not native). 65 species (plus 16 introduced) occur in fresh- water, with the Gobiidae as the largest freshwater fish family. 165 species (plus 16 introduced) live in transitional waters. In marine habitats, 965 species (plus two introduced) are found, with the Labridae, Serranidae and Gobiidae being the largest families; 56.7 % of these species live in shallow coral reefs, 33.7 % inside the fringing reef, 28.0 % in shallow rocky reefs, 16.8 % on sand bottoms, 14.0 % in deep reefs, 11.9 % on the reef flat, and 11.1 % in estuaries. 63 species are first records for Réunion. Zoogeographically, 65 % of the fish fauna have a widespread Indo-Pacific distribution, while only 2.6 % are Mascarene endemics, and 0.7 % Réunion endemics. The classification of the following species is changed in the present paper: Anguilla labiata (Peters, 1852) [pre- viously A. bengalensis labiata]; Microphis millepunctatus (Kaup, 1856) [previously M. brachyurus millepunctatus]; Epinephelus oceanicus (Lacepède, 1802) [previously E. fasciatus (non Forsskål in Niebuhr, 1775)]; Ostorhinchus fasciatus (White, 1790) [previously Apogon fasciatus]; Mulloidichthys auriflamma (Forsskål in Niebuhr, 1775) [previously Mulloidichthys vanicolensis (non Valenciennes in Cuvier & Valenciennes, 1831)]; Stegastes luteobrun- neus (Smith, 1960) [previously S. -
Evaluation of Genetic Relationship of Some Squirrelfishes Through DNA Barcode
Vol.64: e21210076, 2021 https://doi.org/10.1590/1678-4324-2021210076 ISSN 1678-4324 Online Edition Article - Biological and Applied Sciences Evaluation of Genetic Relationship of some Squirrelfishes through DNA Barcode Lamiaa Elsayed Mokhtar Deef1* https://orcid.org/0000-0002-4462-3432 1Damietta University, Faculty of Science, Department of Zoology, New Damietta, Damietta, Egypt. Editor-in-Chief: Alexandre Rasi Aoki Associate Editor: Marcelo Ricardo Vicari Received: 2021.02.13; Accepted: 2021.04.25. *Correspondence: [email protected] and [email protected]; Tel.: +201006796514 (L.E.M.D.). HIGHLIGHTS Confusion in the taxonomy of squirrelfishes was caused by the numerous nominal species. Our phylogeny provides a basis for evolutionary analyses of the Holocentridae. Silverspot squirrelfish was clustered as closest taxa to sabre squirrelfish. Abstract: Species of the subfamily Holocentrinae, family Holocentidae, commonly called, squirrelfishes, are widely distributed from tropical to warm temperate waters. In Egypt, no data are available on genetic and evolutionary relationships of the family Holocentridae. Therefore, the study of the genetic relationship among Holocentrids species is crucial for proper management and convenient strategies. The purpose of this study was to evaluate the genetic relationship among eight species belonging to the family Holocentridae from the Mediterranean Sea and the Red Sea in Egypt using DNA barcoding. Based on this molecular marker, a phylogenetic tree was constructed for the studied Holocentrids species. 12S rRNA sequences discovered that Sargocentron caudimaculatum was clustered as closest taxa to Sargocentron spiniferum, being a sister group to each other. Also, Sargocentron punctatissimum and Sargocentron macrosquamis were more related to each other and formed a sister group. -
First Record of the Lattice Soldierfish, Myripristis Violacea (Actinopterygii: Holocentriformes: Holocentridae), from Reunion Island (South-Western Indian Ocean)
ACTA ICHTHYOLOGICA ET PISCATORIA (2019) 49 (4): 415–420 DOI: 10.3750/AIEP/02694 FIRST RECORD OF THE LATTICE SOLDIERFISH, MYRIPRISTIS VIOLACEA (ACTINOPTERYGII: HOLOCENTRIFORMES: HOLOCENTRIDAE), FROM REUNION ISLAND (SOUTH-WESTERN INDIAN OCEAN) Philippe BOURJON1* and Ronald FRICKE2 1Reunion Island Biodiversity Research Agency, Saint Leu, La Reunion, France 2Im Ramstal 76, 97922 Lauda-Königshofen, Germany Bourjon P., Fricke R. 2019. First record of the lattice soldierfish, Myripristis violacea (Actinopterygii: Holocentriformes: Holocentridae), from Reunion Island (south-western Indian Ocean). Acta Ichthyol. Piscat. 49 (4): 415–420. Abstract. The lattice soldierfish, Myripristis violacea Bleeker, 1851, is recorded for the first time from Reunion Island. An aggregation of 12 individuals was observed and photographed on 12 January 2019 and later on the L’Hermitage reef, located on the west coast of the island. Examination of high-resolution photographs of the largest of these individuals shows that its external morphological characteristics agree well with those reported in the description of the species provided by the last revision of the genus. Studies on regional connectivity make it likely that the Reunion Island population of M. violacea originates from the northern Seychelles Island or Chagos Archipelago via stepping-stone populations. Our observations extend the known distribution of the species to the southernmost island of the Mascarene Archipelago, and extend its known depth range. Keywords: Myripristis violacea, first record, distribution, Reunion Island, connectivity INTRODUCTION Neoniphon, Sargocentron, Myripristis, Ostichthys, and Fishes of the family Holocentridae Bonaparte, 1833 Pristilepis. The genus Myripristis contained nine species, are abundant members of tropical reef assemblages Myripristis adusta Bleeker, 1853; Myripristis berndti that occur in the Atlantic, Indian and Pacific Oceans Jordan et Evermann, 1903; Myripristis botche Cuvier, (Greenfield 1968). -
Teleostei: Beryciformes: Holocentridae): Reconciling More Than 100 Years of Taxonomic Confusion ⇑ Alex Dornburg A, , Jon A
Molecular Phylogenetics and Evolution 65 (2012) 727–738 Contents lists available at SciVerse ScienceDirect Molecular Phylogenetics and Evolution journal homepage: www.elsevier.com/locate/ympev Molecular phylogenetics of squirrelfishes and soldierfishes (Teleostei: Beryciformes: Holocentridae): Reconciling more than 100 years of taxonomic confusion ⇑ Alex Dornburg a, , Jon A. Moore b,c, Rachel Webster a, Dan L. Warren d, Matthew C. Brandley e, Teresa L. Iglesias f, Peter C. Wainwright g, Thomas J. Near a,h a Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT 06520, USA b Florida Atlantic University, Wilkes Honors College, Jupiter, FL 33458, USA c Florida Atlantic University, Harbor Branch Oceanographic Institution, Fort Pierce, FL 34946, USA d Section of Integrative Biology, University of Texas, Austin, TX 78712, USA e School of Biological Sciences, University of Sydney, NSW 2006, Australia f Graduate Group in Animal Behavior, University of California, Davis, CA 95616, USA g Department of Evolution and Ecology, University of California, Davis, CA 95616, USA h Peabody Museum of Natural History, Yale University, New Haven, CT 06520, USA article info abstract Article history: Squirrelfishes and soldierfishes (Holocentridae) are among the most conspicuous species in the nocturnal Received 16 April 2012 reef fish community. However, there is no clear consensus regarding their evolutionary relationships, Revised 19 July 2012 which is reflected in a complicated taxonomic history. We collected DNA sequence data from multiple Accepted 23 July 2012 single copy nuclear genes and one mitochondrial gene sampled from over fifty percent of the recognized Available online 3 August 2012 holocentrid species and infer the first species-level phylogeny of the Holocentridae. -
Marine and Estuarine Fish Fauna of Tamil Nadu, India
Proceedings of the International Academy of Ecology and Environmental Sciences, 2018, 8(4): 231-271 Article Marine and estuarine fish fauna of Tamil Nadu, India 1,2 3 1 1 H.S. Mogalekar , J. Canciyal , D.S. Patadia , C. Sudhan 1Fisheries College and Research Institute, Thoothukudi - 628 008, Tamil Nadu, India 2College of Fisheries, Dholi, Muzaffarpur - 843 121, Bihar, India 3Central Inland Fisheries Research Institute, Barrackpore, Kolkata - 700 120, West Bengal, India E-mail: [email protected] Received 20 June 2018; Accepted 25 July 2018; Published 1 December 2018 Abstract Varied marine and estuarine ecosystems of Tamil Nadu endowed with diverse fish fauna. A total of 1656 fish species under two classes, 40 orders, 191 families and 683 geranra reported from marine and estuarine waters of Tamil Nadu. In the checklist, 1075 fish species were primary marine water and remaining 581 species were diadromus. In total, 128 species were reported under class Elasmobranchii (11 orders, 36 families and 70 genera) and 1528 species under class Actinopterygii (29 orders, 155 families and 613 genera). The top five order with diverse species composition were Perciformes (932 species; 56.29% of the total fauna), Tetraodontiformes (99 species), Pleuronectiforms (77 species), Clupeiformes (72 species) and Scorpaeniformes (69 species). At the family level, the Gobiidae has the greatest number of species (86 species), followed by the Carangidae (65 species), Labridae (64 species) and Serranidae (63 species). Fishery status assessment revealed existence of 1029 species worth for capture fishery, 425 species worth for aquarium fishery, 84 species worth for culture fishery, 242 species worth for sport fishery and 60 species worth for bait fishery. -
Actinopterygii, Beryciformes, Holocentridae) from the Egyptian Mediterranean Coast
Acta Ichthyologica et Piscatoria 51(1), 2021, 107–112 | DOI 10.3897/aiep.51.63216 First record of two squirrelfishes, Sargocentron spinosissimum and Sargocentron tiereoides (Actinopterygii, Beryciformes, Holocentridae) from the Egyptian Mediterranean coast Lamiaa Elsayed Mokhtar DEEF1 1 Department of Zoology, Faculty of Science, Damietta University, New Damietta, Damietta, Egypt http://zoobank.org/C2BAD19D-9895-4C09-A2E8-92600C32E378 Corresponding author: Lamiaa Elsayed Mokhtar Deef ([email protected]; [email protected]) Academic editor: Paraskevi Karachle ♦ Received 21 November 2020 ♦ Accepted 16 January 2021 ♦ Published 31 March 2021 Citation: Deef LEM (2021) First record of two squirrelfishes, Sargocentron spinosissimum and Sargocentron tiereoides (Actinopterygii, Beryciformes, Holocentridae) from the Egyptian Mediterranean coast. Acta Ichthyologica et Piscatoria 51(1): 107–112. https://doi.org/10.3897/aiep.51.63216 Abstract Holocentrinae and Myripristinae (Holocentridae) are among the most apparent species in the nocturnal reef fish community. However, there is no clear assent regarding their phylogenetic relations, which is reported in their complicated taxonomic history. In this study, Sargocentron spinosissimum (Temminck et Schlegel, 1843) and Sargocentron tiereoides (Bleeker, 1853) were reported from the Medi- terranean coast of Egypt (Damietta coast). This is the first record of these species which is greatly distributed across Indo-Pacific regions and eastern Africa showed the success of these species to migrate to the Mediterranean water with a good adaptation to the new habitats. In the presently reported study, 26 morphometric measurements were recorded and cytochrome c oxidase subunit I (COI) bar- codes were recovered for a total of 20 specimens (8 from S. spinosissimum and 12 from S. tiereoides). -
Major Coral Reef Fish Species of the South Pacific with Basic Information on Their Biology and Ecology
COMPONENT 2A - Project 2A2 Improve knowledge and capacity for a better management of reef ecosystems May 2011 SCIENTIFIC REPORT MAJOR CORAL REEF FISH SPECIES OF THE SOUTH PACIFIC WITH BASIC INFORMATION ON THEIR BIOLOGY AND ECOLOGY Authors: Michel Kulbicki, Gérard Mou-Tham, Laurent Vigliola, Laurent Wantiez, Esther Manaldo, Pierre Labrosse, Yves Letourneur Photo credit: Eric Clua The CRISP Coordinating Unit (CCU) was integrated into the Secretariat of the Pacifi c Community in April 2008 to insure maximum coordination and synergy in work relating to coral reef management in the region. The CRISP programme is implemented as part of the policy developed by the Secretariat of the Pacifi c Regional Envi- ronment Programme for a contribution to conservation and sustainable development of coral reefs in the Pacifi c. he Initiative for the Protection and Management of Coral Reefs in the Pacifi c (CRISP), T sponsored by France and prepared by the French Development Agency (AFD) as part of an inter-ministerial project from 2002 onwards, aims to develop a vision for the future of these unique ecosystems and the communities that depend on them and to introduce strategies and projects to conserve their biodiversity, while developing the economic and environmental services that they provide both locally and globally. Also, it is designed as a factor for integration between developed countries (Australia, New Zealand, Japan and USA), French overseas territories and Pacifi c Island developing countries. The CRISP Programme comprises three major components, -
The First Record of the Sargocentron Genus from the Maltese Islands (Central Mediterranean) - Who Will Unravel the Current Conundrum?
BioInvasions Records (2016) Volume 5, Issue 2: 123–126 Open Access DOI: http://dx.doi.org/10.3391/bir.2016.5.2.10 © 2016 The Author(s). Journal compilation © 2016 REABIC Rapid Communication The first record of the Sargocentron genus from the Maltese Islands (Central Mediterranean) - who will unravel the current conundrum? 1, 2 6 2 2 Alan Deidun *, Stephen Attard , Melchiore Camilleri , Joe Vella Gaffiero , Diana Hampson , 3 4 5 Alicia Said , Ernesto Azzurro and Menachem Goren 1Department of Geosciences, University of Malta, Msida MSD 2080, Malta 2St. Andrew’s Dive Cove, St. Simon Street, Xlendi XLN 1302 Gozo, Malta 3School of Anthropology and Conservation, University of Kent, Canterbury, Kent, England 4Institute for Environmental Protection and Research (ISPRA), Sts Livorno, Piazzale dei Marmi 2, 57123, Livorno, Italy 5Department of Zoology and the Steinhardt Museum of Natural History, Tel Aviv University, Tel Aviv 69978, Israel 6Private individual/Independent (Maltese full-time fisherman) *Corresponding author E-mail: [email protected] Received: 6 January 2016 / Accepted: 18 March 2016 / Published online: 29 March 2016 Handling editor: John Mark Hanson Abstract The squirrelfish genus, Sargocentron, is reported for the first time from Maltese coastal waters within the Central Mediterranean. The record is based on two individuals caught at two different coastal locations in the Maltese Islands within the space of a few days of each other, through the same fishing technique (trammel nets). In view of the impossibility to collect meristic, morphometric and molecular data from the recorded individuals, and due to the close similarity between a number of Sargocentron congeners, the exact taxonomic identity of the captured individuals could not be conclusively confirmed, although the livery on the two caught individuals resulted to be consistent with that of S.