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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 The copyright holder for this preprint (which was not certified by peer review) is the author/funder.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 The copyright holder for this preprint (which was not certified by peer review) is the author/funder.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. -
§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, -
1 Exon Probe Sets and Bioinformatics Pipelines for All Levels of Fish Phylogenomics
bioRxiv preprint doi: https://doi.org/10.1101/2020.02.18.949735; this version posted February 19, 2020. 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. 1 Exon probe sets and bioinformatics pipelines for all levels of fish phylogenomics 2 3 Lily C. Hughes1,2,3,*, Guillermo Ortí1,3, Hadeel Saad1, Chenhong Li4, William T. White5, Carole 4 C. Baldwin3, Keith A. Crandall1,2, Dahiana Arcila3,6,7, and Ricardo Betancur-R.7 5 6 1 Department of Biological Sciences, George Washington University, Washington, D.C., U.S.A. 7 2 Computational Biology Institute, Milken Institute of Public Health, George Washington 8 University, Washington, D.C., U.S.A. 9 3 Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian 10 Institution, Washington, D.C., U.S.A. 11 4 College of Fisheries and Life Sciences, Shanghai Ocean University, Shanghai, China 12 5 CSIRO Australian National Fish Collection, National Research Collections of Australia, 13 Hobart, TAS, Australia 14 6 Sam Noble Oklahoma Museum of Natural History, Norman, O.K., U.S.A. 15 7 Department of Biology, University of Oklahoma, Norman, O.K., U.S.A. 16 17 *Corresponding author: Lily C. Hughes, [email protected]. 18 Current address: Department of Organismal Biology and Anatomy, University of Chicago, 19 Chicago, IL. 20 21 Keywords: Actinopterygii, Protein coding, Systematics, Phylogenetics, Evolution, Target 22 capture 23 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.02.18.949735; this version posted February 19, 2020. -
The Coincidence of Ecological Opportunity with Hybridization Explains Rapid Adaptive Radiation in Lake Mweru Cichlid fishes
ARTICLE https://doi.org/10.1038/s41467-019-13278-z OPEN The coincidence of ecological opportunity with hybridization explains rapid adaptive radiation in Lake Mweru cichlid fishes Joana I. Meier 1,2,3,4, Rike B. Stelkens 1,2,5, Domino A. Joyce 6, Salome Mwaiko 1,2, Numel Phiri7, Ulrich K. Schliewen8, Oliver M. Selz 1,2, Catherine E. Wagner 1,2,9, Cyprian Katongo7 & Ole Seehausen 1,2* 1234567890():,; The process of adaptive radiation was classically hypothesized to require isolation of a lineage from its source (no gene flow) and from related species (no competition). Alternatively, hybridization between species may generate genetic variation that facilitates adaptive radiation. Here we study haplochromine cichlid assemblages in two African Great Lakes to test these hypotheses. Greater biotic isolation (fewer lineages) predicts fewer constraints by competition and hence more ecological opportunity in Lake Bangweulu, whereas opportunity for hybridization predicts increased genetic potential in Lake Mweru. In Lake Bangweulu, we find no evidence for hybridization but also no adaptive radiation. We show that the Bangweulu lineages also colonized Lake Mweru, where they hybridized with Congolese lineages and then underwent multiple adaptive radiations that are strikingly complementary in ecology and morphology. Our data suggest that the presence of several related lineages does not necessarily prevent adaptive radiation, although it constrains the trajectories of morphological diversification. It might instead facilitate adaptive radiation when hybridization generates genetic variation, without which radiation may start much later, progress more slowly or never occur. 1 Division of Aquatic Ecology & Evolution, Institute of Ecology and Evolution,UniversityofBern,Baltzerstr.6,CH-3012Bern,Switzerland.2 Department of Fish Ecology and Evolution, Centre of Ecology, Evolution and Biogeochemistry (CEEB), Eawag Swiss Federal Institute of Aquatic Science and Technology, Seestrasse 79, CH-6047 Kastanienbaum, Switzerland. -
Seehausen, O.; Pierotti, MER; Groothuis
University of Groningen Male-male competition and speciation Dijkstra, P. D.; Seehausen, O.; Pierotti, M. E. R.; Groothuis, Ton Published in: Journal of Evolutionary Biology DOI: 10.1111/j.1420-9101.2006.01266.x IMPORTANT NOTE: You are advised to consult the publisher's version (publisher's PDF) if you wish to cite from it. Please check the document version below. Document Version Publisher's PDF, also known as Version of record Publication date: 2007 Link to publication in University of Groningen/UMCG research database Citation for published version (APA): Dijkstra, P. D., Seehausen, O., Pierotti, M. E. R., & Groothuis, T. G. G. (2007). Male-male competition and speciation: aggression bias towards differently coloured rivals varies between stages of speciation in a Lake Victoria cichlid species complex. Journal of Evolutionary Biology, 20(2), 496-502. DOI: 10.1111/j.1420-9101.2006.01266.x Copyright Other than for strictly personal use, it is not permitted to download or to forward/distribute the text or part of it without the consent of the author(s) and/or copyright holder(s), unless the work is under an open content license (like Creative Commons). Take-down policy If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately and investigate your claim. Downloaded from the University of Groningen/UMCG research database (Pure): http://www.rug.nl/research/portal. For technical reasons the number of authors shown on this cover page is limited to 10 maximum. Download date: 10-02-2018 doi: 10.1111/j.1420-9101.2006.01266.x Male–male competition and speciation: aggression bias towards differently coloured rivals varies between stages of speciation in a Lake Victoria cichlid species complex P. -
Bar, Stripe and Spot Development in Sand-Dwelling Cichlids from Lake Malawi
Hendrick et al. EvoDevo (2019) 10:18 https://doi.org/10.1186/s13227-019-0132-7 EvoDevo RESEARCH Open Access Bar, stripe and spot development in sand-dwelling cichlids from Lake Malawi Laura A. Hendrick1, Grace A. Carter1, Erin H. Hilbrands1, Brian P. Heubel1, Thomas F. Schilling2 and Pierre Le Pabic1* Abstract Background: Melanic patterns such as horizontal stripes, vertical bars and spots are common among teleost fshes and often serve roles in camoufage or mimicry. Extensive research in the zebrafsh model has shown that the devel- opment of horizontal stripes depends on complex cellular interactions between melanophores, xanthophores and iri- dophores. Little is known about the development of horizontal stripes in other teleosts, and even less is known about bar or spot development. Here, we compare chromatophore composition and development of stripes, bars and spots in two cichlid species of sand-dwellers from Lake Malawi—Copadichromis azureus and Dimidiochromis compressiceps. Results: (1) In D. compressiceps, stripes are made of dense melanophores underlaid by xanthophores and overlaid by iridophores. Melanophores and xanthophores are either loose or absent in interstripes, and iridophores are dense. In C. azureus, spots and bars are composed of a chromatophore arrangement similar to that of stripes but are separated by interbars where density of melanophores and xanthophores is only slightly lower than in stripes and iridophore density appears slightly greater. (2) Stripe, bar and spot chromatophores appear in the skin at metamorphosis. Stripe melanophores directly diferentiate along horizontal myosepta into the adult pattern. In contrast, bar number and position are dynamic throughout development. As body length increases, new bars appear between old ones or by splitting of old ones through new melanophore appearance, not migration. -
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CICHLIFORMES: Cichlidae (part 3) · 1 The ETYFish Project © Christopher Scharpf and Kenneth J. Lazara COMMENTS: v. 6.0 - 30 April 2021 Order CICHLIFORMES (part 3 of 8) Family CICHLIDAE Cichlids (part 3 of 7) Subfamily Pseudocrenilabrinae African Cichlids (Haplochromis through Konia) Haplochromis Hilgendorf 1888 haplo-, simple, proposed as a subgenus of Chromis with unnotched teeth (i.e., flattened and obliquely truncated teeth of H. obliquidens); Chromis, a name dating to Aristotle, possibly derived from chroemo (to neigh), referring to a drum (Sciaenidae) and its ability to make noise, later expanded to embrace cichlids, damselfishes, dottybacks and wrasses (all perch-like fishes once thought to be related), then beginning to be used in the names of African cichlid genera following Chromis (now Oreochromis) mossambicus Peters 1852 Haplochromis acidens Greenwood 1967 acies, sharp edge or point; dens, teeth, referring to its sharp, needle-like teeth Haplochromis adolphifrederici (Boulenger 1914) in honor explorer Adolf Friederich (1873-1969), Duke of Mecklenburg, leader of the Deutsche Zentral-Afrika Expedition (1907-1908), during which type was collected Haplochromis aelocephalus Greenwood 1959 aiolos, shifting, changing, variable; cephalus, head, referring to wide range of variation in head shape Haplochromis aeneocolor Greenwood 1973 aeneus, brazen, referring to “brassy appearance” or coloration of adult males, a possible double entendre (per Erwin Schraml) referring to both “dull bronze” color exhibited by some specimens and to what -
Shared Resource Management on the Zambezi/Chobe Systems
Shared Resource Management on the Zambezi/Chobe Systems in Northeast Namibia: Current Practices and Future Opportunities River fisheries study: February 2002–February 2003 Tor F. Næsje*, Rita Strand*, Clinton Hay**, John Purvis***, Eva B. Thorstad*, James Abbott****, Nande Nickanor** * Norwegian Institute for Nature Research, Tungasletta 2, NO-7485 Trondheim, Norway ** Ministry of Fisheries and Marine Resources, Private Bag 2116, Mariental, Namibia *** Ministry of Fisheries and Marine Resources, Private Bag 13355, Windhoek, Namibia/Namibia Nature Foundation, Post Office Box 245, Windhoek, Namibia. **** Department of Geography, University of Western Ontario, London, Ontario N6A 5C2, Canada Table of contents 1. INTRODUCTION ............................................................................................................3 1.1 Background.......................................................................................................3 1.2 Objectives of the river survey ............................................................................3 1.3 Objectives of this report ....................................................................................4 1.4 Linkages to other research components.............................................................4 2. METHODS ....................................................................................................................4 2.1 Subsistence fisheries .........................................................................................6 2.2 Access data storage...........................................................................................6 -
Jlb Smith Institute of Ichthyology
ISSN 0075-2088 J.L.B. SMITH INSTITUTE OF ICHTHYOLOGY GRAHAMSTOWN, SOUTH AFRICA SPECIAL PUBLICATION No. 56 SCIENTIFIC AND COMMON NAMES OF SOUTHERN AFRICAN FRESHWATER FISHES by Paul H. Skelton November 1993 SERIAL PUBLICATIONS o f THE J.L.B. SMITH INSTITUTE OF ICHTHYOLOGY The Institute publishes original research on the systematics, zoogeography, ecology, biology and conservation of fishes. Manuscripts on ancillary subjects (aquaculture, fishery biology, historical ichthyology and archaeology pertaining to fishes) will be considered subject to the availability of publication funds. Two series are produced at irregular intervals: the Special Publication series and the Ichthyological Bulletin series. Acceptance of manuscripts for publication is subject to the approval of reviewers from outside the Institute. Priority is given to papers by staff of the Institute, but manuscripts from outside the Institute will be considered if they are pertinent to the work of the Institute. Colour illustrations can be printed at the expense of the author. Publications of the Institute are available by subscription or in exchange for publi cations of other institutions. Lists of the Institute’s publications are available from the Publications Secretary at the address below. INSTRUCTIONS TO AUTHORS Manuscripts shorter than 30 pages will generally be published in the Special Publications series; longer papers will be considered for the Ichthyological Bulletin series. Please follow the layout and format of a recent Bulletin or Special Publication. Manuscripts must be submitted in duplicate to the Editor, J.L.B. Smith Institute of Ichthyology, Private Bag 1015, Grahamstown 6140, South Africa. The typescript must be double-spaced throughout with 25 mm margins all round. -
Invasive Alien Species in Southern Africa
GISP Global Invasive Species Programme Ministry of Tourism, Environment United States Government and Natural Resources Republic of Zambia Invasive Alien Species in Southern Africa National Reports & Directory of Resources Edited by Ian A.W. Macdonald, Jamie K. Reaser, Chris Bright, Laurie E. Neville, Geoffrey W. Howard, Sean J. Murphy, and Guy Preston 1 This report is a product of a workshop entitled Prevention and Management of Invasive Alien Species: Forging Cooperation throughout Southern Africa, held by the Global Invasive Species Programme (GISP) in Lusaka, Zambia on 10-12 June 2002. It was sponsored by the U.S. Department of State, Bureau of Oceans and International Environmental Affairs (OESI) grant S-LMAQM-00-H-0167. In-kind assistance was provided by the U.S. Environmental Protection Agency. Administrative and logistical assistance was provided by the Zambian Ministry of Tourism, Environment and Natural Resources, the U.S. Embassy in Lusaka, Zambia, the Scientific Committee on Problems of the Environment (SCOPE), and the National Fish and Wildlife Foundation (NFWF), as well as all Steering Committee members. The Smithsonian Institution National Museum of Natural History and National Botanical Institute, South Africa kindly provided support during report production. The editors thank Dr Phoebe Barnard of the GISP Secretariat for her very extensive work to finalize the report. The workshop was co-chaired by the Governments of the Republic of Zambia and the United States of America, and by the Global Invasive Species Programme. Members of the Steering Committee included: Mr Lubinda Aongola (Ministry of Tourism, Environment and Natural Resources, Zambia), Mr Troy Fitrell (U.S. -
Indian and Madagascan Cichlids
FAMILY Cichlidae Bonaparte, 1835 - cichlids SUBFAMILY Etroplinae Kullander, 1998 - Indian and Madagascan cichlids [=Etroplinae H] GENUS Etroplus Cuvier, in Cuvier & Valenciennes, 1830 - cichlids [=Chaetolabrus, Microgaster] Species Etroplus canarensis Day, 1877 - Canara pearlspot Species Etroplus suratensis (Bloch, 1790) - green chromide [=caris, meleagris] GENUS Paretroplus Bleeker, 1868 - cichlids [=Lamena] Species Paretroplus dambabe Sparks, 2002 - dambabe cichlid Species Paretroplus damii Bleeker, 1868 - damba Species Paretroplus gymnopreopercularis Sparks, 2008 - Sparks' cichlid Species Paretroplus kieneri Arnoult, 1960 - kotsovato Species Paretroplus lamenabe Sparks, 2008 - big red cichlid Species Paretroplus loisellei Sparks & Schelly, 2011 - Loiselle's cichlid Species Paretroplus maculatus Kiener & Mauge, 1966 - damba mipentina Species Paretroplus maromandia Sparks & Reinthal, 1999 - maromandia cichlid Species Paretroplus menarambo Allgayer, 1996 - pinstripe damba Species Paretroplus nourissati (Allgayer, 1998) - lamena Species Paretroplus petiti Pellegrin, 1929 - kotso Species Paretroplus polyactis Bleeker, 1878 - Bleeker's paretroplus Species Paretroplus tsimoly Stiassny et al., 2001 - tsimoly cichlid GENUS Pseudetroplus Bleeker, in G, 1862 - cichlids Species Pseudetroplus maculatus (Bloch, 1795) - orange chromide [=coruchi] SUBFAMILY Ptychochrominae Sparks, 2004 - Malagasy cichlids [=Ptychochrominae S2002] GENUS Katria Stiassny & Sparks, 2006 - cichlids Species Katria katria (Reinthal & Stiassny, 1997) - Katria cichlid GENUS -
The Complexity of Alternative Splicing of Hagoromo Mrnas Is Increased in an Explosively Speciated Lineage in East African Cichlids
The complexity of alternative splicing of hagoromo mRNAs is increased in an explosively speciated lineage in East African cichlids Yohey Terai*, Naoko Morikawa*, Koichi Kawakami†, and Norihiro Okada*‡§ *Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta-cho, Midori-ku, Yokohama 226-8501, Japan; †Department of Developmental Genetics, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan; and ‡Division of Cell Fusion, National Institute of Basic Biology, 38 Nishigonaka, Myodaiji, Okazaki 444-8585 Aichi, Japan Edited by Tomoko Ohta, National Institute of Genetics, Mishima, Japan, and approved August 29, 2003 (received for review May 12, 2003) The adaptive radiation of cichlid fishes in the lakes of East Africa other fish, including cichlids. With insertional mutagenesis, the is a prime example of speciation. The choice of cichlid mates on the zebrafish gene hagoromo (hag) was shown to be responsible for basis of a variety of coloration represents a potential basis for pigment pattern formation (17). Recently, we cloned a cichlid speciation that led to adaptive radiation. Here, we characterize the homolog of hag and showed a correlation between the morpho- cichlid homolog of the zebrafish hagoromo (hag) gene that was logical diversity of the Great Lakes lineage and the evolutionary recently cloned and characterized from a pigmentation mutant. rate of amino acid sequence changes in the hag gene (18). Here Although only one hag mRNA was reported in zebrafish, cichlids we show a correlation between the explosive speciation of express nine different hag mRNAs resulting from alternative splic- cichlids and the complexity of alternative splicing variants of this ing.