Connecting Evolutionary Morphology to Genomics Using Ontologies: a Case Study from Cypriniformes Including Zebrafish PAULA M
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Article Evolutionary Dynamics of the OR Gene Repertoire in Teleost Fishes
bioRxiv preprint doi: https://doi.org/10.1101/2021.03.09.434524; this version posted March 10, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Article Evolutionary dynamics of the OR gene repertoire in teleost fishes: evidence of an association with changes in olfactory epithelium shape Maxime Policarpo1, Katherine E Bemis2, James C Tyler3, Cushla J Metcalfe4, Patrick Laurenti5, Jean-Christophe Sandoz1, Sylvie Rétaux6 and Didier Casane*,1,7 1 Université Paris-Saclay, CNRS, IRD, UMR Évolution, Génomes, Comportement et Écologie, 91198, Gif-sur-Yvette, France. 2 NOAA National Systematics Laboratory, National Museum of Natural History, Smithsonian Institution, Washington, D.C. 20560, U.S.A. 3Department of Paleobiology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, U.S.A. 4 Independent Researcher, PO Box 21, Nambour QLD 4560, Australia. 5 Université de Paris, Laboratoire Interdisciplinaire des Energies de Demain, Paris, France 6 Université Paris-Saclay, CNRS, Institut des Neurosciences Paris-Saclay, 91190, Gif-sur- Yvette, France. 7 Université de Paris, UFR Sciences du Vivant, F-75013 Paris, France. * Corresponding author: e-mail: [email protected]. !1 bioRxiv preprint doi: https://doi.org/10.1101/2021.03.09.434524; this version posted March 10, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Abstract Teleost fishes perceive their environment through a range of sensory modalities, among which olfaction often plays an important role. -
Phylogeny Classification Additional Readings Clupeomorpha and Ostariophysi
Teleostei - AccessScience from McGraw-Hill Education http://www.accessscience.com/content/teleostei/680400 (http://www.accessscience.com/) Article by: Boschung, Herbert Department of Biological Sciences, University of Alabama, Tuscaloosa, Alabama. Gardiner, Brian Linnean Society of London, Burlington House, Piccadilly, London, United Kingdom. Publication year: 2014 DOI: http://dx.doi.org/10.1036/1097-8542.680400 (http://dx.doi.org/10.1036/1097-8542.680400) Content Morphology Euteleostei Bibliography Phylogeny Classification Additional Readings Clupeomorpha and Ostariophysi The most recent group of actinopterygians (rayfin fishes), first appearing in the Upper Triassic (Fig. 1). About 26,840 species are contained within the Teleostei, accounting for more than half of all living vertebrates and over 96% of all living fishes. Teleosts comprise 517 families, of which 69 are extinct, leaving 448 extant families; of these, about 43% have no fossil record. See also: Actinopterygii (/content/actinopterygii/009100); Osteichthyes (/content/osteichthyes/478500) Fig. 1 Cladogram showing the relationships of the extant teleosts with the other extant actinopterygians. (J. S. Nelson, Fishes of the World, 4th ed., Wiley, New York, 2006) 1 of 9 10/7/2015 1:07 PM Teleostei - AccessScience from McGraw-Hill Education http://www.accessscience.com/content/teleostei/680400 Morphology Much of the evidence for teleost monophyly (evolving from a common ancestral form) and relationships comes from the caudal skeleton and concomitant acquisition of a homocercal tail (upper and lower lobes of the caudal fin are symmetrical). This type of tail primitively results from an ontogenetic fusion of centra (bodies of vertebrae) and the possession of paired bracing bones located bilaterally along the dorsal region of the caudal skeleton, derived ontogenetically from the neural arches (uroneurals) of the ural (tail) centra. -
Origin, Evolution and Homologies of the Weberian Apparatus: a New Insight
Int. J. Morphol., 27(2):333-354, 2009. Origin, Evolution and Homologies of the Weberian Apparatus: A New Insight Origen, Evolución y Homologías del Aparato Weberiano: Un Nuevo Acercamiento Rui Diogo DIOGO, R. Origin, evolution and homologies of the Weberian apparatus: a new insight. Int. J. Morphol., 27(2):333-354, 2009. SUMMARY: The Weberian apparatus is essentially a mechanical device improving audition, consisting of a double chain of ossicles joining the air bladder to the inner ear. Despite being one of the most notable complex systems of teleost fishes and the subject of several comparative, developmental and functional studies, there is still much controversy concerning the origin, evolution and homologies of the structures forming this apparatus. In this paper I provide a new insight on these topics, which takes into account the results of recent works on comparative anatomy, paleontology, and ontogeny as well as of a recent extensive phylogenetic analysis including not only numerous otophysan and non-otophysan extant otocephalans but also ostariophysan fossils such as †Chanoides macropoma, †Clupavus maroccanus, †Santanichthys diasii, †Lusitanichthys characiformis, †Sorbininardus apuliensis and †Tischlingerichthys viohli. According to the evidence now available, the Weberian apparatus of otophysans seems to be the outcome of a functional integration of features acquired in basal otocephalans and in basal ostariophysans, which were very likely not directly related with the functioning of this apparatus, and of features acquired in the nodes leading to the Otophysi and to the clade including the four extant otophysan orders, which could well have been the result of a selection directly related to the functioning of the apparatus. -
Fish, Various Invertebrates
Zambezi Basin Wetlands Volume II : Chapters 7 - 11 - Contents i Back to links page CONTENTS VOLUME II Technical Reviews Page CHAPTER 7 : FRESHWATER FISHES .............................. 393 7.1 Introduction .................................................................... 393 7.2 The origin and zoogeography of Zambezian fishes ....... 393 7.3 Ichthyological regions of the Zambezi .......................... 404 7.4 Threats to biodiversity ................................................... 416 7.5 Wetlands of special interest .......................................... 432 7.6 Conservation and future directions ............................... 440 7.7 References ..................................................................... 443 TABLE 7.2: The fishes of the Zambezi River system .............. 449 APPENDIX 7.1 : Zambezi Delta Survey .................................. 461 CHAPTER 8 : FRESHWATER MOLLUSCS ................... 487 8.1 Introduction ................................................................. 487 8.2 Literature review ......................................................... 488 8.3 The Zambezi River basin ............................................ 489 8.4 The Molluscan fauna .................................................. 491 8.5 Biogeography ............................................................... 508 8.6 Biomphalaria, Bulinis and Schistosomiasis ................ 515 8.7 Conservation ................................................................ 516 8.8 Further investigations ................................................. -
W IWB E37 African Water 1.Pdf
The mention or omission of specific companies, their products or brand names does not imply any endorsement or judgement by the Food and Agriculture Oganization of the United Nations. The designations employed and the presentation of material in this information product do not imply the expression of any opinion whatsoever on the part of the Food and Agriculture Organization of the United Nations concerning the legal or development status of any country, territory, city or area or of its authorities, or concerning the delimitation of its frontiers or boundaries. ISBN 978-92-5-105631-8 All rights reserved. Reproduction and dissemination of material in this information product for educational or other non-commercial purposes are authorized without any prior written permission from the copyright holders provided the source is fully acknowledged. Reproduction of material in this information product for resale or other commercial purposes is prohibited without written permission of the copyright holders. Applications for such permission should be addressed to: Chief Electronic Publishing Policy and Support Branch. Communication Division FAO, Viale delle Terme di Caracalla, 00153 Rome, Italy or by e-mail to [email protected] © FAO 2007 iii Preparation of this document This study is an update of an earlier project led by the Aquatic Resource Management for Local Community Development Programme (ALCOM) entitled the “Southern African Development Community Water Resource Database” (SADC-WRD). Compared with the earlier study, made for SADC, this one is considerably more refined and sophisticated. Perhaps the most significant advances are the vast amount of spatial data and the provision of simplified and advanced custom-made data management and analytical tool-sets that have been integrated within a single geographic information system (GIS) interface. -
Family-Cyprinidae-Gobioninae-PDF
SUBFAMILY Gobioninae Bleeker, 1863 - gudgeons [=Gobiones, Gobiobotinae, Armatogobionina, Sarcochilichthyna, Pseudogobioninae] GENUS Abbottina Jordan & Fowler, 1903 - gudgeons, abbottinas [=Pseudogobiops] Species Abbottina binhi Nguyen, in Nguyen & Ngo, 2001 - Cao Bang abbottina Species Abbottina liaoningensis Qin, in Lui & Qin et al., 1987 - Yingkou abbottina Species Abbottina obtusirostris (Wu & Wang, 1931) - Chengtu abbottina Species Abbottina rivularis (Basilewsky, 1855) - North Chinese abbottina [=lalinensis, psegma, sinensis] GENUS Acanthogobio Herzenstein, 1892 - gudgeons Species Acanthogobio guentheri Herzenstein, 1892 - Sinin gudgeon GENUS Belligobio Jordan & Hubbs, 1925 - gudgeons [=Hemibarboides] Species Belligobio nummifer (Boulenger, 1901) - Ningpo gudgeon [=tientaiensis] Species Belligobio pengxianensis Luo et al., 1977 - Sichuan gudgeon GENUS Biwia Jordan & Fowler, 1903 - gudgeons, biwas Species Biwia springeri (Banarescu & Nalbant, 1973) - Springer's gudgeon Species Biwia tama Oshima, 1957 - tama gudgeon Species Biwia yodoensis Kawase & Hosoya, 2010 - Yodo gudgeon Species Biwia zezera (Ishikawa, 1895) - Biwa gudgeon GENUS Coreius Jordan & Starks, 1905 - gudgeons [=Coripareius] Species Coreius cetopsis (Kner, 1867) - cetopsis gudgeon Species Coreius guichenoti (Sauvage & Dabry de Thiersant, 1874) - largemouth bronze gudgeon [=platygnathus, zeni] Species Coreius heterodon (Bleeker, 1865) - bronze gudgeon [=rathbuni, styani] Species Coreius septentrionalis (Nichols, 1925) - Chinese bronze gudgeon [=longibarbus] GENUS Coreoleuciscus -
Celestial Pearl Danio", a New Genus and Species of Colourful Minute Cyprinid Fish from Myanmar (Pisces: Cypriniformes)
THE RAFFLES BULLETIN OF ZOOLOGY 2007 55(1): 131-140 Date of Publication: 28 Feb.2007 © National University of Singapore THE "CELESTIAL PEARL DANIO", A NEW GENUS AND SPECIES OF COLOURFUL MINUTE CYPRINID FISH FROM MYANMAR (PISCES: CYPRINIFORMES) Tyson R. Roberts Research Associate, Smithsonian Tropical Research Institute Email: [email protected] ABSTRACT. - Celestichthys margaritatus, a new genus and species of Danioinae, is described from a rapidly developing locality in the Salween basin about 70-80 km northeast of Inle Lake in northern Myanmar. Males and females are strikingly colouful. It is apparently most closely related to two danioins endemic to Inle, Microrasbora rubescens and "Microrasbora" erythromicron. The latter species may be congeneric with the new species. The new genus is identified as a danioin by specializations on its lower jaw and its numerous anal fin rays. The colouration, while highly distinctive, seems also to be characteristically danioin. The danioin notch (Roberts, 1986; Fang, 2003) is reduced or absent, but the danioin mandibular flap and bony knob (defined herein) are present. The anal fin has iiiSVz-lOV: rays. In addition to its distinctive body spots and barred fins the new fish is distinguished from other species of danioins by the following combination of characters: snout and mouth extremely short; premaxillary with an elongate and very slender ascending process; mandible foreshortened; body deep, with rounded dorsal and anal fins; modal vertebral count 15+16=31; caudal fin moderately rather than deeply forked; principal caudal fin rays 9/8; scales vertically ovoid; and pharyngeal teeth conical, in three rows KEY WORDS. - Hopong; principal caudal fin rays; danioin mandibular notch, knob, and pad; captive breeding. -
The AQUATIC DESIGN CENTRE
The AQUATIC DESIGN CENTRE ltd 26 Zennor Road Trade Park, Balham, SW12 0PS Ph: 020 7580 6764 [email protected] PLEASE CALL TO CHECK AVAILABILITY ON DAY Complete Freshwater Livestock (2019) Livebearers Common Name In Stock Y/N Limia melanogaster Y Poecilia latipinna Dalmatian Molly Y Poecilia latipinna Silver Lyre Tail Molly Y Poecilia reticulata Male Guppy Asst Colours Y Poecilia reticulata Red Cap, Cobra, Elephant Ear Guppy Y Poecilia reticulata Female Guppy Y Poecilia sphenops Molly: Black, Canary, Silver, Marble. y Poecilia velifera Sailfin Molly Y Poecilia wingei Endler's Guppy Y Xiphophorus hellerii Swordtail: Pineapple,Red, Green, Black, Lyre Y Xiphophorus hellerii Kohaku Swordtail, Koi, HiFin Xiphophorus maculatus Platy: wagtail,blue,red, sunset, variatus Y Tetras Common Name Aphyocarax paraguayemsis White Tip Tetra Aphyocharax anisitsi Bloodfin Tetra Y Arnoldichthys spilopterus Red Eye Tetra Y Axelrodia riesei Ruby Tetra Bathyaethiops greeni Red Back Congo Tetra Y Boehlkea fredcochui Blue King Tetra Copella meinkeni Spotted Splashing Tetra Crenuchus spilurus Sailfin Characin y Gymnocorymbus ternetzi Black Widow Tetra Y Hasemania nana Silver Tipped Tetra y Hemigrammus erythrozonus Glowlight Tetra y Hemigrammus ocelifer Beacon Tetra y Hemigrammus pulcher Pretty Tetra y Hemigrammus rhodostomus Diamond Back Rummy Nose y Hemigrammus rhodostomus Rummy nose Tetra y Hemigrammus rubrostriatus Hemigrammus vorderwimkieri Platinum Tetra y Hyphessobrycon amandae Ember Tetra y Hyphessobrycon amapaensis Amapa Tetra Y Hyphessobrycon bentosi -
Behavioral Response to Alarm Pheromone in the Miniature Fish
University of Utah UNDERGRADUATE RESEARCH JOURNAL BEHAVIORAL RESPONSE TO ALARM PHEROMONE IN THE MINIATURE FISH, DANIONELLA TRANSLUCIDA Jacob Bedke (Adam Douglass, Ariadne Penalva) Department of Neurobiology and Anatomy I. Introduction Pheromones are chemicals produced by an organism that act as a communication signal from an organism to its conspecifics, members of the same species. While pheromones are most often described and associated within the context of sexual interaction (Darwin, 1889; Gomez- Diaz & Benton, 2013), there are also other situations in which certain pheromones may be exchanged (Chung-Davidson & Huertas, 2010; Morgan, 2008; Yew & Chung, 2015). One such event is when an organism is endangered or threatened by a predator or an environment. During such an event, the organism will release an alarm pheromone that communicates the potential danger to conspecifics to elicit behaviors associated with fear, anxiety, or aggression, depending on the species (Mathis & Smith, 1992; Mizunami, 2010; Vandermoten et. al, 2012). Such a pheromone may be evolutionary advantageous in an altruistic sense as it would allow one organism to alert its kin that are receptive to the pheromone so that they can modify their behavior in a way that may increase their likelihood of survival in the midst of such a threat. Ostiophysari, a superorder of fish including Danio rerio (zebrafish) and minnows, are known to produce and react to an alarm pheromone. Karl von Frisch (1938), a well-known scientist known for his work in honey bee communication, was the first to document this pheromone in minnows, and he gave it the name “schrekstoff” (Stensmyr & Maderspacher, 2012). He noted an acute behavior change in the minnows when he accidentally exposed them to the pheromone when he damaged the skin of a member of the minnow colony, and further research has determined the presence of this alarm pheromone to be present in the skin of fishes (Pfieffer, 1977). -
Resolving Cypriniformes Relationships Using an Anchored Enrichment Approach Carla C
Stout et al. BMC Evolutionary Biology (2016) 16:244 DOI 10.1186/s12862-016-0819-5 RESEARCH ARTICLE Open Access Resolving Cypriniformes relationships using an anchored enrichment approach Carla C. Stout1*†, Milton Tan1†, Alan R. Lemmon2, Emily Moriarty Lemmon3 and Jonathan W. Armbruster1 Abstract Background: Cypriniformes (minnows, carps, loaches, and suckers) is the largest group of freshwater fishes in the world (~4300 described species). Despite much attention, previous attempts to elucidate relationships using molecular and morphological characters have been incongruent. In this study we present the first phylogenomic analysis using anchored hybrid enrichment for 172 taxa to represent the order (plus three out-group taxa), which is the largest dataset for the order to date (219 loci, 315,288 bp, average locus length of 1011 bp). Results: Concatenation analysis establishes a robust tree with 97 % of nodes at 100 % bootstrap support. Species tree analysis was highly congruent with the concatenation analysis with only two major differences: monophyly of Cobitoidei and placement of Danionidae. Conclusions: Most major clades obtained in prior molecular studies were validated as monophyletic, and we provide robust resolution for the relationships among these clades for the first time. These relationships can be used as a framework for addressing a variety of evolutionary questions (e.g. phylogeography, polyploidization, diversification, trait evolution, comparative genomics) for which Cypriniformes is ideally suited. Keywords: Fish, High-throughput -
Supporting Information
Supporting Information Clarke et al. 10.1073/pnas.1607237113 Major Axes of Shape Variation and Their Anatomical a comparison: the crown teleost vs. stem teleost comparison on Correlates molecular timescales. Here, the larger SL dataset delivers a All relative warp axes that individually account for >5% of the majority of trees where crown teleosts possess significantly variation across the species sampled are displayed in Table S3. higher rates than stem teleosts, whereas the CS and pruned SL Morphospaces derived from the first three axes, containing all datasets find this result in a large minority (Fig. S3). 398 Mesozoic neopterygian species in our shape dataset, are Overall, these results suggest that choice of size metric is presented in Fig. S1. Images of sampled fossil specimens are also relatively unimportant for our dataset, and that the overall size included in Fig. S1 to illustrate the anatomical correlates of and taxonomic samplings of the dataset are more likely to in- shape axes. The positions of major neopterygian clades in mor- fluence subsequent results, despite those factors having a rela- phospace are indicated by different colors in Fig. S2. Major tively small influence here. Nevertheless, choice of metric may be teleost clades are presented in Fig. S2A and major holostean important for other datasets (e.g., different groups of organisms clades in Fig. S2B. or datasets of other biological/nonbiological structures), because RW1 captures 42.53% of the variance, reflecting changes from it is possible to envisage scenarios where the choice of size metric slender-bodied taxa to deep-bodied taxa (Fig. S1 and Table S3). -
A Complex Genetic Architecture in Zebrafish Relatives Danio
bioRxiv preprint doi: https://doi.org/10.1101/2021.01.21.427615; this version posted January 21, 2021. 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 4.0 International license. A complex genetic architecture in zebrafish relatives Danio quagga and D. kyathit underlies development of stripes and spots Braedan M. McCluskey*, Susumu Uji†, Joseph L. Mancusi*, John H. Postlethwait‡, David M. Parichy*§ * Department of Biology, University of Virginia, Charlottesville, VA, 22904 † Japan Fisheries Research and Education Agency, 422-1 Nakatsuhamaura Minami-ise, Watarai Mie 516-0193 JAPAN ‡ Institute of Neuroscience, University of Oregon, Eugene, OR 97401 § Department of Cell Biology, University of Virginia, Charlottesville, VA, 22903 RAD-seq data is available through the National Center for Biotechnology Information Short Read Archive (PRJNA__######__). Quantitative trait information and genotypes are available at https:// zenodo.org/record/__######__. Stripe and spot QTL in Danio Key words: Pigmentation, Complex traits, QTL mapping, Natural genetic variation, Evolution, Zebrafish Corresponding author: David M. Parichy Department of Biology and Department of Cell Biology University of Virginia 485 McCormick Road P.O. Box 400328 Charlottesville, VA 22904 (434) 982-6162 [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/2021.01.21.427615; this version posted January 21, 2021. 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.