Andinoacara Rivulatus
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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. -
Andinoacara Coeruleopunctatus (Cichlidae)
Hindawi Publishing Corporation International Journal of Evolutionary Biology Volume 2012, Article ID 780169, 12 pages doi:10.1155/2012/780169 Research Article Phylogeographic Diversity of the Lower Central American Cichlid Andinoacara coeruleopunctatus (Cichlidae) S. Shawn McCafferty,1 Andrew Martin,2 and Eldredge Bermingham3 1 Biology Department, Wheaton College, 26 East Main Street, Norton, MA 02766, USA 2 Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO 80309-0334, USA 3 Smithsonian Tropical Research Institute, P.O. Box 2072, Balboa, Panama Correspondence should be addressed to S. Shawn McCafferty, smccaff[email protected] Received 15 February 2012; Accepted 29 June 2012 Academic Editor: R. Craig Albertson Copyright © 2012 S. Shawn McCafferty et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. It is well appreciated that historical and ecological processes are important determinates of freshwater biogeographic assemblages. Phylogeography can potentially lend important insights into the relative contribution of historical processes in biogeography. How- ever, the extent that phylogeography reflects historical patterns of drainage connection may depend in large part on the dispersal capability of the species. Here, we test the hypothesis that due to their relatively greater dispersal capabilities, the neotropical cichlid species Andinoacara coeruleopunctatus will display a phylogeographic pattern that differs from previously described biogeographic assemblages in this important region. Based on an analysis of 318 individuals using mtDNA ATPase 6/8 sequence and restriction fragment length polymorphism data, we found eight distinct clades that are closely associated with biogeographic patterns. -
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 ................................................................................................................................ -
Genome Sequences of Tropheus Moorii and Petrochromis Trewavasae, Two Eco‑Morphologically Divergent Cichlid Fshes Endemic to Lake Tanganyika C
www.nature.com/scientificreports OPEN Genome sequences of Tropheus moorii and Petrochromis trewavasae, two eco‑morphologically divergent cichlid fshes endemic to Lake Tanganyika C. Fischer1,2, S. Koblmüller1, C. Börger1, G. Michelitsch3, S. Trajanoski3, C. Schlötterer4, C. Guelly3, G. G. Thallinger2,5* & C. Sturmbauer1,5* With more than 1000 species, East African cichlid fshes represent the fastest and most species‑rich vertebrate radiation known, providing an ideal model to tackle molecular mechanisms underlying recurrent adaptive diversifcation. We add high‑quality genome reconstructions for two phylogenetic key species of a lineage that diverged about ~ 3–9 million years ago (mya), representing the earliest split of the so‑called modern haplochromines that seeded additional radiations such as those in Lake Malawi and Victoria. Along with the annotated genomes we analysed discriminating genomic features of the study species, each representing an extreme trophic morphology, one being an algae browser and the other an algae grazer. The genomes of Tropheus moorii (TM) and Petrochromis trewavasae (PT) comprise 911 and 918 Mbp with 40,300 and 39,600 predicted genes, respectively. Our DNA sequence data are based on 5 and 6 individuals of TM and PT, and the transcriptomic sequences of one individual per species and sex, respectively. Concerning variation, on average we observed 1 variant per 220 bp (interspecifc), and 1 variant per 2540 bp (PT vs PT)/1561 bp (TM vs TM) (intraspecifc). GO enrichment analysis of gene regions afected by variants revealed several candidates which may infuence phenotype modifcations related to facial and jaw morphology, such as genes belonging to the Hedgehog pathway (SHH, SMO, WNT9A) and the BMP and GLI families. -
Abstracts Part 1
375 Poster Session I, Event Center – The Snowbird Center, Friday 26 July 2019 Maria Sabando1, Yannis Papastamatiou1, Guillaume Rieucau2, Darcy Bradley3, Jennifer Caselle3 1Florida International University, Miami, FL, USA, 2Louisiana Universities Marine Consortium, Chauvin, LA, USA, 3University of California, Santa Barbara, Santa Barbara, CA, USA Reef Shark Behavioral Interactions are Habitat Specific Dominance hierarchies and competitive behaviors have been studied in several species of animals that includes mammals, birds, amphibians, and fish. Competition and distribution model predictions vary based on dominance hierarchies, but most assume differences in dominance are constant across habitats. More recent evidence suggests dominance and competitive advantages may vary based on habitat. We quantified dominance interactions between two species of sharks Carcharhinus amblyrhynchos and Carcharhinus melanopterus, across two different habitats, fore reef and back reef, at a remote Pacific atoll. We used Baited Remote Underwater Video (BRUV) to observe dominance behaviors and quantified the number of aggressive interactions or bites to the BRUVs from either species, both separately and in the presence of one another. Blacktip reef sharks were the most abundant species in either habitat, and there was significant negative correlation between their relative abundance, bites on BRUVs, and the number of grey reef sharks. Although this trend was found in both habitats, the decline in blacktip abundance with grey reef shark presence was far more pronounced in fore reef habitats. We show that the presence of one shark species may limit the feeding opportunities of another, but the extent of this relationship is habitat specific. Future competition models should consider habitat-specific dominance or competitive interactions. -
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.