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Evolutionary History of the Porpoises
bioRxiv preprint doi: https://doi.org/10.1101/851469; this version posted November 22, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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 Evolutionary history of the porpoises (Phocoenidae) across the 2 speciation continuum: a mitogenome phylogeographic perspective 3 4 Yacine Ben Chehida1, Julie Thumloup1, Cassie Schumacher2, Timothy Harkins2, Alex 5 Aguilar3, Asunción Borrell3, Marisa Ferreira4, Lorenzo Rojas-Bracho5, Kelly M. Roberston6, 6 Barbara L. Taylor6, Gísli A. Víkingsson7, Arthur Weyna8, Jonathan Romiguier8, Phillip A. 7 Morin6, Michael C. Fontaine1,9* 8 9 1 Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, PO Box 11103 CC, 10 Groningen, The Netherlands 11 2 Swift Biosciences, 674 S. Wagner Rd., Suite 100, Ann Arbor, MI 48103, USA 12 3 IRBIO and Department of Evolutive Biology, Ecology and Environmental Sciences, Faculty of Biology, 13 University of Barcelona, Diagonal 643, 08071 Barcelona, Spain 14 4 MATB-Sociedade Portuguesa de Vida Selvagem, Estação de Campo de Quiaios, Apartado EC Quiaios, 3080- 15 530 Figueira da Foz, Portugal & CPRAM-Ecomare, Estrada do Porto de Pesca Costeira, 3830-565 Gafanha da 16 Nazaré, Portugal 17 5 Instituto Nacional de Ecología, Centro de Investigación Científica y de Educación Superior de Ensenada, 18 Carretera Ensenada-Tijuana 3918, Fraccionamiento Zona Playitas, Ensenada, BC 22860, Mexico 19 6 Southwest Fisheries Science Center, National Marine Fisheries Service, NOAA, 8901 La Jolla Shores Dr., La 20 Jolla, California 92037, USA 21 7 Marine and Freshwater Research Institute, PO Box 1390, 121 Reykjavik, Iceland 22 8 Institut des Sciences de l’Évolution (Université de Montpellier, CNRS UMR 5554), Montpellier, France 23 9 Laboratoire MIVEGEC (Université de Montpellier, UMR CNRS 5290, IRD 229), Centre IRD de Montpellier, 24 Montpellier, France 25 26 *Corresponding author: Michael C. -
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A new marine vertebrate assemblage from the Late Neogene Purisima Formation in Central California, part II: Pinnipeds and Cetaceans Robert W. BOESSENECKER Department of Geology, University of Otago, 360 Leith Walk, P.O. Box 56, Dunedin, 9054 (New Zealand) and Department of Earth Sciences, Montana State University 200 Traphagen Hall, Bozeman, MT, 59715 (USA) and University of California Museum of Paleontology 1101 Valley Life Sciences Building, Berkeley, CA, 94720 (USA) [email protected] Boessenecker R. W. 2013. — A new marine vertebrate assemblage from the Late Neogene Purisima Formation in Central California, part II: Pinnipeds and Cetaceans. Geodiversitas 35 (4): 815-940. http://dx.doi.org/g2013n4a5 ABSTRACT e newly discovered Upper Miocene to Upper Pliocene San Gregorio assem- blage of the Purisima Formation in Central California has yielded a diverse collection of 34 marine vertebrate taxa, including eight sharks, two bony fish, three marine birds (described in a previous study), and 21 marine mammals. Pinnipeds include the walrus Dusignathus sp., cf. D. seftoni, the fur seal Cal- lorhinus sp., cf. C. gilmorei, and indeterminate otariid bones. Baleen whales include dwarf mysticetes (Herpetocetus bramblei Whitmore & Barnes, 2008, Herpetocetus sp.), two right whales (cf. Eubalaena sp. 1, cf. Eubalaena sp. 2), at least three balaenopterids (“Balaenoptera” cortesi “var.” portisi Sacco, 1890, cf. Balaenoptera, Balaenopteridae gen. et sp. indet.) and a new species of rorqual (Balaenoptera bertae n. sp.) that exhibits a number of derived features that place it within the genus Balaenoptera. is new species of Balaenoptera is relatively small (estimated 61 cm bizygomatic width) and exhibits a comparatively nar- row vertex, an obliquely (but precipitously) sloping frontal adjacent to vertex, anteriorly directed and short zygomatic processes, and squamosal creases. -
Cetacea: Phocoenidae) from the Upper Part of the Horokaoshirarika Formation (Lower Pliocene), Numata Town, Hokkaido, Japan, and Its Phylogenetic Position
Palaeontologia Electronica palaeo-electronica.org A new skull of the fossil porpoise Numataphocoena yamashitai (Cetacea: Phocoenidae) from the upper part of the Horokaoshirarika Formation (lower Pliocene), Numata Town, Hokkaido, Japan, and its phylogenetic position Yoshihiro Tanaka and Hiroto Ichishima ABSTRACT An early Pliocene porpoise, Numataphocoena yamashitai from Hokkaido, Japan, is known from the holotype, a fairly well-preserved skeleton with an incomplete skull and a referred earbone. A new skull referred to Numataphocoena yamashitai found from almost the same locality as the holotype is interesting because it expands knowl- edge of skull morphology and improves the diagnosis of this taxon. Numataphocoena yamashitai differs from other phocoenids in having the characteristic feature in the maxilla associated with the posterior dorsal infraorbital foramen, narrower and sharper anterior part of the internal acoustic meatus, and a robust anterior process of the peri- otic. A new cladistic analysis places Numataphocoena yamashitai adjacent to Haboro- phocoena toyoshimai and Haborophocoena minutus, among a clade of early branching phocoenids, all of which are chronologically and geographically close to each other. The new skull is probably a younger individual because it is about 80% the size of that of the holotype and it shows closed but unfused sutures. Our description of this specimen helps to understand the intraspecies variation of the extinct species Numataphocoena yamashitai. Yoshihiro Tanaka. Numata Fossil Museum, 2-7-49, Minami 1, Numata Town, Hokkaido, 078-2225 Japan, [email protected] and Hokkaido University Museum, Kita 10, Nishi 8, Kita-ku, Sapporo, Hokkaido 060-0810 Japan Hiroto Ichishima. Fukui Prefectural Dinosaur Museum, Terao 51-11, Muroko, Katsuyama, Fukui 911-8601, Japan, [email protected] Key words: skull; Phocoenidae; phylogeny; maxillary terrace; ontogeny; intraspecies variation Submission: 22 March 2016 Acceptance: 20 October 2016 Tanaka, Yoshihiro and Ichishima, Hiroto. -
Evolution of River Dolphins Healy Hamilton1*, Susana Caballero2, Allen G
doi 10.1098/rspb.2000.1385 Evolution of river dolphins Healy Hamilton1*, Susana Caballero2, Allen G. Collins1 and Robert L. Brownell Jr3 1Museum of Paleontology and Department of Integrative Biology, University of California, Berkeley, CA 94720, USA 2Fundacio¨ nYubarta, Carrara 24F oeste, no 3-110, Cali, Colombia 3Southwest Fisheries Science Center, PO Box 271, LaJolla, CA 92038, USA The world’s river dolphins (Inia, Pontoporia, Lipotes and Platanista) are among the least known and most endangered of all cetaceans. The four extant genera inhabit geographically disjunct river systems and exhibit highly modi¢ed morphologies, leading many cetologists to regard river dolphins as an unnatural group. Numerous arrangements have been proposed for their phylogenetic relationships to one another and to other odontocete cetaceans. These alternative views strongly a¡ect the biogeographical and evolu- tionary implications raised by the important, although limited, fossil record of river dolphins. We present a hypothesis of river dolphin relationships based on phylogenetic analysis of three mitochondrial genes for 29 cetacean species, concluding that the four genera represent three separate, ancient branches in odonto- cete evolution. Our molecular phylogeny corresponds well with the ¢rst fossil appearances of the primary lineages of modern odontocetes. Integrating relevant events in Tertiary palaeoceanography, we develop a scenario for river dolphin evolution during the globally high sea levels of the Middle Miocene. We suggest that ancestors of the four extant river dolphin lineages colonized the shallow epicontinental seas that inun- dated the Amazon, Parana¨ , Yangtze and Indo-Gangetic river basins, subsequently remaining in these extensive waterways during their transition to freshwater with the Late Neogene trend of sea-level lowering. -
From the Late Miocene-Early Pliocene (Hemphillian) of California
Bull. Fla. Mus. Nat. Hist. (2005) 45(4): 379-411 379 NEW SKELETAL MATERIAL OF THALASSOLEON (OTARIIDAE: PINNIPEDIA) FROM THE LATE MIOCENE-EARLY PLIOCENE (HEMPHILLIAN) OF CALIFORNIA Thomas A. Deméré1 and Annalisa Berta2 New crania, dentitions, and postcrania of the fossil otariid Thalassoleon mexicanus are described from the latest Miocene–early Pliocene Capistrano Formation of southern California. Previous morphological evidence for age variation and sexual dimorphism in this taxon is confirmed. Analysis of the dentition and postcrania of Thalassoleon mexicanus provides evidence of adaptations for pierce feeding, ambulatory terrestrial locomotion, and forelimb swimming in this basal otariid pinniped. Cladistic analysis supports recognition of Thalassoleon as monophyletic and distinct from other basal otariids (i.e., Pithanotaria, Hydrarctos, and Callorhinus). Re-evaluation of the status of Thalassoleon supports recognition of two species, Thalassoleon mexicanus and Thalassoleon macnallyae, distributed in the eastern North Pacific. Recognition of a third species, Thalassoleon inouei from the western North Pacific, is questioned. Key Words: Otariidae; pinniped; systematics; anatomy; Miocene; California INTRODUCTION perate, with a very limited number of recovered speci- Otariid pinnipeds are a conspicuous element of the ex- mens available for study. The earliest otariid, tant marine mammal assemblage of the world’s oceans. Pithanotaria starri Kellogg 1925, is known from the Members of this group inhabit the North and South Pa- early late Miocene (Tortonian Stage equivalent) and is cific Ocean, as well as portions of the southern Indian based on a few poorly preserved fossils from Califor- and Atlantic oceans and nearly the entire Southern nia. The holotype is an impression in diatomite of a Ocean. -
MHI Insular False Killer Whale Species Status Assessment
Recovery Status Review Pacific Islands for the Regional Office Protected Resources Main Hawaiian Islands Insular False Killer Whale Distinct Population Segment August 2020 (Version 1.0) Cover photo by Robin Baird, Cascadia Research Collective. RECOVERY STATUS REVIEW | Main Hawaiian Islands Insular False Killer Whale DPS Page ii Contents EXECUTIVE SUMMARY ........................................................................................................... v LIST OF FIGURES .................................................................................................................. viii LIST OF TABLES ..................................................................................................................... ix LIST OF BOXES ....................................................................................................................... ix LIST OF TERMS, ABBREVIATIONS, AND ACRONYMS ................................................................. x 1 INTRODUCTION ..................................................................................................... 1–1 1.1 History of the Main Hawaiian Islands Insular False Killer Whale ESA Listing and Recovery Planning ..................................................................................................... 1–1 1.2 Distinct Population Segment Overview ..................................................................... 1–2 1.3 Approach to the Recovery Status Review ................................................................. 1–2 2 SPECIES INFORMATION -
Global Review of the Conservation Status of Monodontid Stocks
Global Review of the Conservation Status of Monodontid Stocks the International Whaling Commis- the EEZ of each country). The JCNB Preface sion (IWC). Among its 89 member makes recommendations on the con- countries are four of the five mon- servation and management of these odontid range states (Canada being shared stocks to the appropriate au- Two modern species of toothed the sole non-member). thorities of both countries. whales, the narwhal, Monodon monoc- The Scientific Committee of the The North Atlantic Marine Mammal eros, and the beluga or white whale, IWC has on two occasions reviewed the Commission (NAMMCO) was estab- Delphinapterus leucas, comprise the world’s stocks of belugas and narwhals lished in 1992 by the Faroe Islands, family Monodontidae. Both are en- (both species in 1992, IWC, 1993; only Greenland, Iceland, and Norway to co- demic to the Arctic and, in the case of belugas in 1999, IWC, 2000). These re- operate in the management and con- belugas, also certain portions of the views identified 29 stocks of belugas servation of all marine mammals in sub-Arctic. While the narwhal’s range and 3 regional stocks of narwhals. Be- the area. NAAMCO regularly reviews is centered in high-latitude waters con- luga stocks were considered in detail, the status of the stocks of narwhals nected to the North Atlantic Ocean and available information on range, and belugas within its remit. (eastern Canada, Greenland, Svalbard, abundance, trends in abundance, hunt- The NAMMCO Scientific Commit- and Franz Josef Land), the beluga’s ing removals, threats, and legal status tee’s Working Group on the Popula- distribution is nearly circumpolar, with were reviewed and summarized. -
Phylogeny of All Major Groups of Cetaceans Based on DNA Sequences from Three Mitochondrial Genes
Phylogeny of All Major Groups of Cetaceans Based on DNA Sequences from Three Mitochondrial Genes Michel C. Milinkovitch,* Axe1 Meyer) and Jeffrey R. Powell * *Department of Biology, Yale University and +Department of Ecology and Evolution, State University of New York at Stony Brook Traditionally, living cetaceans (order Cetacea) are classified into two highly distinct suborders: the echolocating toothed whales, Odontoceti, and the filter-feeding baleen whales, Mysticeti. A molecular phylogeny based on 1,352 base pairs of two mitochondrial ribosomal gene segments and the mitochondrial cytochrome b gene for all major groups of cetaceans contradicts this long-accepted taxonomic subdivision. One group of toothed whales, the sperm whales, is more closely related to the morphologically highly divergent baleen whales than to other odontocetes. This finding suggests that the suborder Odontoceti constitutes an unnatural grouping and challenges the conventional scenario of a long, independent evolutionary history of odontocetes and mysticetes. The superfamily Delphinoidea (dolphins, porpoises, and white whales) appears to be monophyletic; the Amazon River dolphin, Inia geofiensis, is its sister species. This river dolphin is genetically more divergent from the morphologically similar marine dolphins than the sperm whales are from the morphologically dissimilar baleen whales. The phylogenetic relationships among the three families of Delphinoidea remain uncertain, and we suggest that the two cladogenetic events that generated these three clades occurred within a very short period of time. Among the baleen whales, the bowhead is basal, and the gray whale is the sister species to the rorquals (family Balaenopteridae). The phylogenetic position of beaked whales (Ziphioidea) remains weakly supported by molecular data. -
Marine Mammal Taxonomy
Marine Mammal Taxonomy Kingdom: Animalia (Animals) Phylum: Chordata (Animals with notochords) Subphylum: Vertebrata (Vertebrates) Class: Mammalia (Mammals) Order: Cetacea (Cetaceans) Suborder: Mysticeti (Baleen Whales) Family: Balaenidae (Right Whales) Balaena mysticetus Bowhead whale Eubalaena australis Southern right whale Eubalaena glacialis North Atlantic right whale Eubalaena japonica North Pacific right whale Family: Neobalaenidae (Pygmy Right Whale) Caperea marginata Pygmy right whale Family: Eschrichtiidae (Grey Whale) Eschrichtius robustus Grey whale Family: Balaenopteridae (Rorquals) Balaenoptera acutorostrata Minke whale Balaenoptera bonaerensis Arctic Minke whale Balaenoptera borealis Sei whale Balaenoptera edeni Byrde’s whale Balaenoptera musculus Blue whale Balaenoptera physalus Fin whale Megaptera novaeangliae Humpback whale Order: Cetacea (Cetaceans) Suborder: Odontoceti (Toothed Whales) Family: Physeteridae (Sperm Whale) Physeter macrocephalus Sperm whale Family: Kogiidae (Pygmy and Dwarf Sperm Whales) Kogia breviceps Pygmy sperm whale Kogia sima Dwarf sperm whale DOLPHIN R ESEARCH C ENTER , 58901 Overseas Hwy, Grassy Key, FL 33050 (305) 289 -1121 www.dolphins.org Family: Platanistidae (South Asian River Dolphin) Platanista gangetica gangetica South Asian river dolphin (also known as Ganges and Indus river dolphins) Family: Iniidae (Amazon River Dolphin) Inia geoffrensis Amazon river dolphin (boto) Family: Lipotidae (Chinese River Dolphin) Lipotes vexillifer Chinese river dolphin (baiji) Family: Pontoporiidae (Franciscana) -
Molecular Systematics of South American Dolphins Sotalia: Sister
Available online at www.sciencedirect.com Molecular Phylogenetics and Evolution 46 (2008) 252–268 www.elsevier.com/locate/ympev Molecular systematics of South American dolphins Sotalia: Sister taxa determination and phylogenetic relationships, with insights into a multi-locus phylogeny of the Delphinidae Susana Caballero a,*, Jennifer Jackson a,g, Antonio A. Mignucci-Giannoni b, He´ctor Barrios-Garrido c, Sandra Beltra´n-Pedreros d, Marı´a G. Montiel-Villalobos e, Kelly M. Robertson f, C. Scott Baker a,g a Laboratory of Molecular Ecology and Evolution, School of Biological Sciences, The University of Auckland, Private Bag 92019, Auckland, New Zealand b Red Cariben˜a de Varamientos, Caribbean Stranding Network, PO Box 361715, San Juan 00936-1715, Puerto Rico c Laboratorio de Ecologı´a General, Facultad Experimental de Ciencias. Universidad del Zulia, Av. Universidad con prolongacio´n Av. 5 de Julio. Sector Grano de Oro, Maracaibo, Venezuela d Laboratorio de Zoologia, Colecao Zoologica Paulo Burheim, Centro Universitario Luterano de Manaus, Manaus, Brazil e Laboratorio de Ecologı´a y Gene´tica de Poblaciones, Centro de Ecologı´a, Instituto Venezolano de Investigaciones Cientı´ficas (IVIC), San Antonio de los Altos, Carretera Panamericana km 11, Altos de Pipe, Estado Miranda, Venezuela f Tissue and DNA Archive, National Marine Fisheries Service, Southwest Fisheries Science Center, 8604 La Jolla Shores Drive, La Jolla, CA 92037-1508, USA g Marine Mammal Institute and Department of Fisheries and Wildlife, Hatfield Marine Science Center, Oregon State University, 2030 SE Marine Science Drive, Newport, OR 97365, USA Received 2 May 2007; revised 19 September 2007; accepted 17 October 2007 Available online 25 October 2007 Abstract The evolutionary relationships among members of the cetacean family Delphinidae, the dolphins, pilot whales and killer whales, are still not well understood. -
Review of Small Cetaceans. Distribution, Behaviour, Migration and Threats
Review of Small Cetaceans Distribution, Behaviour, Migration and Threats by Boris M. Culik Illustrations by Maurizio Wurtz, Artescienza Marine Mammal Action Plan / Regional Seas Reports and Studies no. 177 Published by United Nations Environment Programme (UNEP) and the Secretariat of the Convention on the Conservation of Migratory Species of Wild Animals (CMS). Review of Small Cetaceans. Distribution, Behaviour, Migration and Threats. 2004. Compiled for CMS by Boris M. Culik. Illustrations by Maurizio Wurtz, Artescienza. UNEP / CMS Secretariat, Bonn, Germany. 343 pages. Marine Mammal Action Plan / Regional Seas Reports and Studies no. 177 Produced by CMS Secretariat, Bonn, Germany in collaboration with UNEP Coordination team Marco Barbieri, Veronika Lenarz, Laura Meszaros, Hanneke Van Lavieren Editing Rüdiger Strempel Design Karina Waedt The author Boris M. Culik is associate Professor The drawings stem from Prof. Maurizio of Marine Zoology at the Leibnitz Institute of Wurtz, Dept. of Biology at Genova Univer- Marine Sciences at Kiel University (IFM-GEOMAR) sity and illustrator/artist at Artescienza. and works free-lance as a marine biologist. Contact address: Contact address: Prof. Dr. Boris Culik Prof. Maurizio Wurtz F3: Forschung / Fakten / Fantasie Dept. of Biology, Genova University Am Reff 1 Viale Benedetto XV, 5 24226 Heikendorf, Germany 16132 Genova, Italy Email: [email protected] Email: [email protected] www.fh3.de www.artescienza.org © 2004 United Nations Environment Programme (UNEP) / Convention on Migratory Species (CMS). This publication may be reproduced in whole or in part and in any form for educational or non-profit purposes without special permission from the copyright holder, provided acknowledgement of the source is made. -
Mitochondrial Genomics Reveals the Evolutionary History of The
www.nature.com/scientificreports OPEN Mitochondrial genomics reveals the evolutionary history of the porpoises (Phocoenidae) across the speciation continuum Yacine Ben Chehida 1, Julie Thumloup1, Cassie Schumacher2, Timothy Harkins2, Alex Aguilar 3, Asunción Borrell 3, Marisa Ferreira 4,5, Lorenzo Rojas‑Bracho6, Kelly M. Robertson7, Barbara L. Taylor7, Gísli A. Víkingsson 8, Arthur Weyna9, Jonathan Romiguier9, Phillip A. Morin 7 & Michael C. Fontaine 1,10* Historical variation in food resources is expected to be a major driver of cetacean evolution, especially for the smallest species like porpoises. Despite major conservation issues among porpoise species (e.g., vaquita and fnless), their evolutionary history remains understudied. Here, we reconstructed their evolutionary history across the speciation continuum. Phylogenetic analyses of 63 mitochondrial genomes suggest that porpoises radiated during the deep environmental changes of the Pliocene. However, all intra-specifc subdivisions were shaped during the Quaternary glaciations. We observed analogous evolutionary patterns in both hemispheres associated with convergent evolution to coastal versus oceanic environments. This suggests that similar mechanisms are driving species diversifcation in northern (harbor and Dall’s) and southern species (spectacled and Burmeister’s). In contrast to previous studies, spectacled and Burmeister’s porpoises shared a more recent common ancestor than with the vaquita that diverged from southern species during the Pliocene. The low genetic diversity observed in the vaquita carried signatures of a very low population size since the last 5,000 years. Cryptic lineages within Dall’s, spectacled and Pacifc harbor porpoises suggest a richer evolutionary history than previously suspected. These results provide a new perspective on the mechanisms driving diversifcation in porpoises and an evolutionary framework for their conservation.