Guayas Cichlid (Mesoheros Festae) ERSS
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Selection, Constraint, and Adaptation in the Visual Genes of Neotropical Cichlid Fishes and Other Vertebrates
SELECTION, CONSTRAINT, AND ADAPTATION IN THE VISUAL GENES OF NEOTROPICAL CICHLID FISHES AND OTHER VERTEBRATES by Frances Elisabeth Hauser A thesis submitted in conformity with the requirements for the degree of Doctor of Philosophy Ecology and Evolutionary Biology University of Toronto © Copyright by Frances E. Hauser 2018 SELECTION, CONSTRAINT, AND ADAPTATION IN THE VISUAL GENES OF NEOTROPICAL CICHLID FISHES AND OTHER VERTEBRATES Frances E. Hauser Doctor of Philosophy, 2018 Department of Ecology and Evolutionary Biology University of Toronto 2018 ABSTRACT The visual system serves as a direct interface between an organism and its environment. Studies of the molecular components of the visual transduction cascade, in particular visual pigments, offer an important window into the relationship between genetic variation and organismal fitness. In this thesis, I use molecular evolutionary models as well as protein modeling and experimental characterization to assess the role of variable evolutionary rates on visual protein function. In Chapter 2, I review recent work on the ecological and evolutionary forces giving rise to the impressive variety of adaptations found in visual pigments. In Chapter 3, I use interspecific vertebrate and mammalian datasets of two visual genes (RH1 or rhodopsin, and RPE65, a retinoid isomerase) to assess different methods for estimating evolutionary rate across proteins and the reliability of inferring evolutionary conservation at individual amino acid sites, with a particular emphasis on sites implicated in impaired protein function. ii In Chapters 4, and 5, I narrow my focus to devote particular attention to visual pigments in Neotropical cichlids, a highly diverse clade of fishes distributed across South and Central America. -
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 ................................................................................................................................ -
Vertebrate Zoology 60 (1) 2010 19 19 – 25 © Museum Für Tierkunde Dresden, ISSN 1864-5755, 18.05.2010
Vertebrate Zoology 60 (1) 2010 19 19 – 25 © Museum für Tierkunde Dresden, ISSN 1864-5755, 18.05.2010 Australoheros capixaba, a new species of Australoheros from south-eastern Brazil (Labroidei: Cichlidae: Cichlasomatinae) FELIPE P. OTTONI Laboratório de Ictiologia Geral e Aplicada, Departamento de Zoologia, Universidade Federal do Rio de Janeiro Cidade Universitária, CEP 21994-970, Caixa Postal 68049, Rio de Janeiro, RJ, Brazil fpottoni(at)yahoo.com.br Received on November 13, 2009, accepted on February 14, 2010. Published online at www.vertebrate-zoology.de on May 12, 2010. > Abstract Australoheros capixaba, new species, is distributed along the rio Itaúnas, rio Barra Seca, rio São Mateus and the lower rio Doce basins. The new species is distinguished from its congeners in the rio Paraná-Uruguay system and Laguna dos Patos system by having 12 caudal vertebrae (vs. 13 – 15). Australoheros capixaba differs from the other species of Australoheros from south-eastern Brazil by its coloration in life (a reddish chest, large spots on the dorsal region of the trunk and a green iridescence on the pelvic fi ns). It also differs from some of its congeners by having a longer caudal peduncle, a longer anal- fi n spine, fewer dorsal-fi n spines and fewer anal-fi n rays. Australoheros capixaba sp. n. is the fi rst species from the genus described for the Estado do Espírito Santo, south-eastern Brazil. The phylogenetic placement of the species in the genus cannot be discussed, because there is no phylogenetic work about the Australoheros species from south-eastern Brazil. > Resumo Australoheros capixaba, nova espécie, se distribui ao longo das bacias do rio Itaúnas, rio Barra Seca, rio São Mateus e baixo rio Doce. -
Abstract Book JMIH 2011
Abstract Book JMIH 2011 Abstracts for the 2011 Joint Meeting of Ichthyologists & Herpetologists AES – American Elasmobranch Society ASIH - American Society of Ichthyologists & Herpetologists HL – Herpetologists’ League NIA – Neotropical Ichthyological Association SSAR – Society for the Study of Amphibians & Reptiles Minneapolis, Minnesota 6-11 July 2011 Edited by Martha L. Crump & Maureen A. Donnelly 0165 Fish Biogeography & Phylogeography, Symphony III, Saturday 9 July 2011 Amanda Ackiss1, Shinta Pardede2, Eric Crandall3, Paul Barber4, Kent Carpenter1 1Old Dominion University, Norfolk, VA, USA, 2Wildlife Conservation Society, Jakarta, Java, Indonesia, 3Fisheries Ecology Division; Southwest Fisheries Science Center, Santa Cruz, CA, USA, 4University of California, Los Angeles, CA, USA Corroborated Phylogeographic Breaks Across the Coral Triangle: Population Structure in the Redbelly Fusilier, Caesio cuning The redbelly yellowtail fusilier, Caesio cuning, has a tropical Indo-West Pacific range that straddles the Coral Triangle, a region of dynamic geological history and the highest marine biodiversity on the planet. Caesio cuning is a reef-associated artisanal fishery, making it an ideal species for assessing regional patterns of gene flow for evidence of speciation mechanisms as well as for regional management purposes. We evaluated the genetic population structure of Caesio cuning using a 382bp segment of the mitochondrial control region amplified from over 620 fish sampled from 33 localities across the Philippines and Indonesia. Phylogeographic -
Comparative Cytogenetics of Neotropical Cichlid Fishes
COMPARATIVE A peer-reviewed open-access journal CompCytogen 8(3): 169–183 (2014)Comparative cytogenetics of Neotropical cichlid fishes... 169 doi: 10.3897/CompCytogen.v8i3.7279 RESEARCH ARTICLE Cytogenetics www.pensoft.net/journals/compcytogen International Journal of Plant & Animal Cytogenetics, Karyosystematics, and Molecular Systematics Comparative cytogenetics of Neotropical cichlid fishes (Nannacara, Ivanacara and Cleithracara) indicates evolutionary reduction of diploid chromosome numbers Lucie Hodaňová1, Lukáš Kalous1, Zuzana Musilová1,2,3 1 Department of Zoology and Fisheries, Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Prague, Czech Republic 2 Laboratory of Fish Genetics, Institute of Animal Physiology and Genetics AV CR, Libechov, Czech Republic 3 Zoological Institute, University of Basel, Switzerland Corresponding author: Zuzana Musilová ([email protected]) Academic editor: Petr Rab | Received 17 February 2014 | Accepted 29 July 2014 | Published 8 August 2014 http://zoobank.org/E973BC3C-DBEA-4915-9E63-6BBEE9E0940D Citation: Hodaňová L, Kalous L, Musilová Z (2014) Comparative cytogenetics of Neotropical cichlid fishes Nannacara( , Ivanacara and Cleithracara) indicates evolutionary reduction of diploid chromosome numbers. Comparative Cytogenetics 8(3): 169–183. doi: 10.3897/CompCytogen.v8i3.7279 Abstract A comparative cytogenetic analysis was carried out in five species of a monophyletic clade of neotropical Cichlasomatine cichlids, namely Cleithracara maronii Steindachner, 1881, Ivanacara adoketa (Kullander & Prada-Pedreros, 1993), Nannacara anomala Regan, 1905, N. aureocephalus Allgayer, 1983 and N. tae- nia Regan, 1912. Karyotypes and other chromosomal characteristics were revealed by CDD banding and mapped onto the phylogenetic hypothesis based on molecular analyses of four genes, namely cyt b, 16S rRNA, S7 and RAG1. The diploid numbers of chromosomes ranged from 44 to 50, karyotypes were com- posed predominantly of monoarmed chromosomes and one to three pairs of CMA3 signal were observed. -
Neue Gattungseinteilung Der Mittelamerikanischen Cichliden
DCG_Info_07_2016_HR_20160621_DCG_Info 21.06.2016 06:51 Seite 146 Neue Gattungseinteilung der mittelamerikanischen Cichliden Rico Morgenstern Foto: Juan Miguel Artigas Azas Theraps irregularis verbleibt als einzige Art in der Gattung Theraps. Die Aufnahme entstand im Rio Lacanja im südlichen Chiapas, Mexiko. Inzwischen ist es fast 33 Jahre her, wenigstens Versuche, einzelne Gat- schien die Abhandlung „Diversity and dass KULLANDER (1983) die Gattung tungen neu zu definieren – aber eine evolution of the Middle American cich- Cichlasoma auf zwölf südamerikani- umfassende Gesamtbearbeitung er- lid fishes (Teleostei: Cichlidae) with re- sche, nahe mit der Typusart C. bima- folgte bisher nicht. Vielfach wurden vised classification“ (ŘIČAN et al. culatum verwandte Arten beschränkte. Zuordnungen vorgenommen, ohne 2016). Seither durfte der Name streng ge- dass man sich um eine wirkliche Be- nommen für die Mehrzahl der bis gründung bemühte. Die Arbeit berücksichtigt alle Cichliden dahin in dieser ehemaligen Sammel- Nord- und Mittelamerikas und der An- gattung untergebrachten, überwie- Bei der Gattungseinteilung der mittel- tillen sowie einige eng verwandte süd- gend mittelamerikanischen Arten amerikanischen Cichliden herrschte amerikanische Gattungen (Australoheros, nicht mehr verwendet werden. Man- somit bis vor kurzem ein ziemliches Caquetaia, Heroina, Mesoheros). gels geeigneter Alternativen ist das Chaos. Nun ist jedoch das Ende der An- Diese Fische gehören zu den „heroinen aber dennoch geschehen, wobei der führungszeichen (mit einer Ausnahme) -
A Morphological Phylogenetic Analysis of Middle American Cichlids with Special Emphasis on the Section ‘Nandopsis’ Sensu Regan
A MORPHOLOGICAL PHYLOGENETIC ANALYSIS OF MIDDLE AMERICAN CICHLIDS WITH SPECIAL EMPHASIS ON THE SECTION ‘NANDOPSIS’ SENSU REGAN PROSANTA CHAKRABARTY MISCELLANEOUS PUBLICATIONS MUSEUM OF ZOOLOGY, UNIVERSITY OF MICHIGAN, NO. 198 Ann Arbor, September, 2007 ISSN 0076-8405 P U B L I C A T I O N S O F T H E MUSEUM OF ZOOLOGY, UNIVERSITY OF MICHIGAN, NO. 198 J. B. BURCH, Editor J. L. Pappas, Assistant Editor Marjorie O’Brien, Editorial Assistant The publications of the Museum of Zoology, The University of Michigan, consist primarily of two series—the Miscellaneous Publications and the Occasional Papers. Both series were founded by Dr. Bryant Walker, Mr. Bradshaw H. Swales, and Dr. W. W. Newcomb. Occasionally the Museum publishes contributions outside of these series; beginning in 1990 these are titled Special Publications and are numbered. All submitted manuscripts to any of the Museum’s publications receive external review. The Occasional Papers, begun in 1913, serve as a medium for original studies based principally upon the collections in the Museum. They are issued separately. When a sufficient number of pages has been printed to make a volume, a title page, table of contents, and an index are supplied to libraries and individuals on the mailing list for the series. The Miscellaneous Publications, initiated in 1916, include monographic studies, papers on field and museum techniques, and other contributions not within the scope of the Occasional Papers, and are published separately. It is not intended that they be grouped into volumes. Each number has a title page and, when desirable, a table of contents. -
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CICHLIFORMES: Cichlidae (part 6) · 1 The ETYFish Project © Christopher Scharpf and Kenneth J. Lazara COMMENTS: v. 6.0 - 18 April 2020 Order CICHLIFORMES (part 6 of 8) Family CICHLIDAE Cichlids (part 6 of 7) Subfamily Cichlinae American Cichlids (Acarichthys through Cryptoheros) Acarichthys Eigenmann 1912 Acara (=Astronotus, from acará, Tupí-Guaraní word for cichlids), original genus of A. heckelii; ichthys, fish Acarichthys heckelii (Müller & Troschel 1849) in honor of Austrian ichthyologist Johann Jakob Heckel (1790-1857), who proposed the original genus, Acara (=Astronotus) in 1840, and was the first to seriously study cichlids and revise the family Acaronia Myers 1940 -ia, belonging to: Acara (=Astronotus, from acará, Tupí-Guaraní word for cichlids), original genus of A. nassa [replacement name for Acaropsis Steindachner 1875, preoccupied by Acaropsis Moquin-Tandon 1863 in Arachnida] Acaronia nassa (Heckel 1840) wicker basket or fish trap, presumably based on its local name, Bocca de Juquia, meaning “fish trap mouth,” referring to its protractile jaws and gape-and-suck feeding strategy Acaronia vultuosa Kullander 1989 full of facial expressions or grimaces, referring to diagnostic conspicuous black markings on head Aequidens Eigenmann & Bray 1894 aequus, same or equal; dens, teeth, referring to even-sized teeth of A. tetramerus, proposed as a subgenus of Astronotus, which has enlarged anterior teeth Aequidens chimantanus Inger 1956 -anus, belonging to: Chimantá-tepui, Venezuela, where type locality (Río Abácapa, elevation 396 m) is -
Phylogenetic Relationships of Middle American Cichlids (Cichlidae, Heroini) Based on Combined Evidence from Nuclear Genes, Mtdna, and Morphology
Molecular Phylogenetics and Evolution 49 (2008) 941–957 Contents lists available at ScienceDirect Molecular Phylogenetics and Evolution journal homepage: www.elsevier.com/locate/ympev Phylogenetic relationships of Middle American cichlids (Cichlidae, Heroini) based on combined evidence from nuclear genes, mtDNA, and morphology Oldrˇich Rˇícˇan a,b,*, Rafael Zardoya c, Ignacio Doadrio c a Department of Zoology, Faculty of Science, University of South Bohemia, Branišovská 31, 37005, Cˇeské Budeˇjovice, Czech Republic b Institute of Animal Physiology and Genetics of the Academy of Sciences of the Czech Republic, Rumburská 89, 277 21 Libeˇchov, Czech Republic c Departamento de Biodiversidad y Biología Evolutiva, Museo Nacional de Ciencias Naturales, CSIC, Madrid, Spain article info abstract Article history: Heroine cichlids are the second largest and very diverse tribe of Neotropical cichlids, and the only cichlid Received 2 June 2008 group that inhabits Mesoamerica. The taxonomy of heroines is complex because monophyly of most gen- Revised 26 July 2008 era has never been demonstrated, and many species groups are without applicable generic names after Accepted 31 July 2008 their removal from the catch-all genus Cichlasoma (sensu Regan, 1905). Hence, a robust phylogeny for the Available online 7 August 2008 group is largely wanting. A rather complete heroine phylogeny based on cytb sequence data is available [Concheiro Pérez, G.A., Rˇícˇan O., Ortí G., Bermingham, E., Doadrio, I., Zardoya, R. 2007. Phylogeny and bio- Keywords: geography of 91 species of heroine cichlids (Teleostei: Cichlidae) based on sequences of the cytochrome b Cichlidae gene. Mol. Phylogenet. Evol. 43, 91–110], and in the present study, we have added and analyzed indepen- Middle America Central America dent data sets (nuclear and morphological) to further confirm and strengthen the cytb-phylogenetic Biogeography hypothesis. -
The Tree of Life and a New Classification of Bony Fishes
The Tree of Life and a New Classification of Bony Fishes April 18, 2013 · Tree of Life Ricardo Betancur-R.1, Richard E. Broughton2, Edward O. Wiley3, Kent Carpenter4, J. Andrés López5, Chenhong Li 6, Nancy I. Holcroft7, Dahiana Arcila1, Millicent Sanciangco4, James C Cureton II2, Feifei Zhang2, Thaddaeus Buser, Matthew A. Campbell5, Jesus A Ballesteros1, Adela Roa-Varon8, Stuart Willis9, W. Calvin Borden10, Thaine Rowley11, Paulette C. Reneau12, Daniel J. Hough2, Guoqing Lu13, Terry Grande10, Gloria Arratia3, Guillermo Ortí1 1 The George Washington University, 2 University of Oklahoma, 3 University of Kansas, 4 Old Dominion University, 5 University of Alaska Fairbanks, 6 Shanghai Ocean University, 7 Johnson County Community College, 8 George Washington University, 9 University of Nebraska-Lincoln, 10 Loyola University Chicago, 11 University of Nebraska- Omaha, 12 Florida A&M University, 13 University of Nebraska at Omaha Betancur-R. R, Broughton RE, Wiley EO, Carpenter K, López JA, Li C, Holcroft NI, Arcila D, Sanciangco M, Cureton II JC, Zhang F, Buser T, Campbell MA, Ballesteros JA, Roa-Varon A, Willis S, Borden WC, Rowley T, Reneau PC, Hough DJ, Lu G, Grande T, Arratia G, Ortí G. The Tree of Life and a New Classification of Bony Fishes. PLOS Currents Tree of Life. 2013 Apr 18 [last modified: 2013 Apr 23]. Edition 1. doi: 10.1371/currents.tol.53ba26640df0ccaee75bb165c8c26288. Abstract The tree of life of fishes is in a state of flux because we still lack a comprehensive phylogeny that includes all major groups. The situation is most critical for a large clade of spiny-finned fishes, traditionally referred to as percomorphs, whose uncertain relationships have plagued ichthyologists for over a century. -
Exon-Based Phylogenomics Strengthens the Phylogeny of Neotropical Cichlids And
bioRxiv preprint doi: https://doi.org/10.1101/133512; this version posted July 13, 2017. 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 Exon-based phylogenomics strengthens the phylogeny of Neotropical cichlids and 2 identifies remaining conflicting clades (Cichliformes: Cichlidae: Cichlinae) 3 4 Katriina L. Ilves1,2*, Dax Torti3,4, and Hernán López-Fernández1 5 1 Department of Natural History, Royal Ontario Museum, 100 Queen’s Park, Toronto, 6 ON M5S 2C6 Canada 7 2 Current address: Biology Department, Pace University, 1 Pace Plaza, New York, NY 8 10038 9 3 Donnelly Sequencing Center, University of Toronto, 160 College Street, Toronto, ON 10 M5S 3E1 Canada 11 4 Current address: Ontario Institute for Cancer Research, MaRS Center, 661 University 12 Avenue, Toronto, ON M5G 0A3 Canada 13 *Corresponding author at: Biology Department, Pace University, 1 Pace Plaza, New 14 York, NY 10038; email: [email protected] 15 16 Abstract 17 The phenotypic, geographic, and species diversity of cichlid fishes have made them a 18 group of great interest for studying evolutionary processes. Here we present a targeted- 19 exon next-generation sequencing approach for investigating the evolutionary 20 relationships of cichlid fishes (Cichlidae), with focus on the Neotropical subfamily 21 Cichlinae using a set of 923 primarily single-copy exons designed through mining of the 22 Nile tilapia (Oreochromis niloticus) genome. Sequence capture and assembly were 23 robust, leading to a complete dataset of 415 exons for 139 species (147 terminals) that 1 bioRxiv preprint doi: https://doi.org/10.1101/133512; this version posted July 13, 2017. -
Teleostei: Cichlidae)
TERMS OF USE This pdf is provided by Magnolia Press for private/research use. Commercial sale or deposition in a public library or website is prohibited. Zootaxa 2833: 1–14 (2011) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2011 · Magnolia Press ISSN 1175-5334 (online edition) Paraneetroplus synspilus is a Junior Synonym of Paraneetroplus melanurus (Teleostei: Cichlidae) CALEB D. MCMAHAN1,2, CHRISTOPHER M. MURRAY2, AARON D. GEHEBER3,2, CHRISTOPHER D. BOECKMAN2 & KYLE R. PILLER2 1Division of Ichthyology, LSU Museum of Natural Science, Baton Rouge, LA 70803 USA. E-mail: [email protected] 2Department of Biological Sciences, Southeastern Louisiana University, Hammond LA 70402 USA 3Department of Zoology, University of Oklahoma, Norman OK 73019 USA Abstract The genus Paraneetroplus (Teleostei: Cichlidae) currently consists of 11 species that naturally occur from southern Mex- ico south to Panama. Paraneetroplus melanurus (Günther 1862) is found in the Lago de Petén system of Guatemala, and P. synspilus (Hubbs 1935) in the Río Grijalva-Usumacinta system, and other systems in Mexico, Belize, and Guatemala. Reported morphological differences between the two nominal species in the literature are vague but center around char- acteristics of a dark band that begins at the caudal fin and tapers anteriorly near mid-body. This band is reported as straight (horizontal) in P. melanurus but ventrally sloped in P. synspilus. Some authors have previously suggested that these two forms are not distinct. The purpose of this study was to conduct a systematic morphological comparison of P. melanurus and P. synspilus to further investigate their validity. We examined meristic, morphometric, and geometric morphometric characters and failed to recover diagnostic differences between these two forms.