Zootaxa,Type Specimens of "Insectivoran
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An R Package for Visualizing Bayesian Phylogenetic Analyses from Revbayes
bioRxiv preprint doi: https://doi.org/10.1101/2021.05.10.443470; this version posted May 11, 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 The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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-NC-ND 4.0 International license. RevGadgets: an R Package for visualizing Bayesian phylogenetic analyses from RevBayes Carrie M. Tribble1, 2, 3, ∗, William A. Freyman4, Michael J. Landis5, Jun Ying Lim6, Joelle¨ Barido-Sottani7, Bjørn Tore Kopperud8, 9, Sebastian Hohna¨ 8, 9, and Michael R. May1, 2 1Department of Integrative Biology University of California, Berkeley, CA 94709, USA 2University Herbarium, University of California, Berkeley, CA 94709, USA 3Current address: School of Life Sciences, University of Hawai‘i at M¯anoa,Honolulu, HI, 96822, USA 423andMe, Inc., Sunnyvale, CA, 94086, USA 5Department of Biology, Washington University in St. Louis, MO 63130, USA 6School of Biological Sciences, Nanyang Technological University, Singapore 639798 7Department of Ecology, Evolution and Organismal Biology, Iowa State University, Ames, IA 50011, USA 8GeoBio-Center, Ludwig-Maximilians-Universit¨atM¨unchen,80333 Munich, Germany 9Department of Earth and Environmental Sciences, Paleontology & Geobiology, Ludwig-Maximilians-Universit¨atM¨unchen,80333 Munich, Germany ∗E-mail: [email protected] Summary 1. Statistical phylogenetic methods are the foundation for a wide range of evolutionary and epidemiological stud- ies. However, as these methods grow increasingly complex, users often encounter significant challenges with summarizing, visualizing, and communicating their key results. 2. We present RevGadgets, an R package for creating publication-quality figures from the results of a large variety of phylogenetic analyses performed in RevBayes (and other phylogenetic software packages). -
Mammals of Jordan
© Biologiezentrum Linz/Austria; download unter www.biologiezentrum.at Mammals of Jordan Z. AMR, M. ABU BAKER & L. RIFAI Abstract: A total of 78 species of mammals belonging to seven orders (Insectivora, Chiroptera, Carni- vora, Hyracoidea, Artiodactyla, Lagomorpha and Rodentia) have been recorded from Jordan. Bats and rodents represent the highest diversity of recorded species. Notes on systematics and ecology for the re- corded species were given. Key words: Mammals, Jordan, ecology, systematics, zoogeography, arid environment. Introduction In this account we list the surviving mammals of Jordan, including some reintro- The mammalian diversity of Jordan is duced species. remarkable considering its location at the meeting point of three different faunal ele- Table 1: Summary to the mammalian taxa occurring ments; the African, Oriental and Palaearc- in Jordan tic. This diversity is a combination of these Order No. of Families No. of Species elements in addition to the occurrence of Insectivora 2 5 few endemic forms. Jordan's location result- Chiroptera 8 24 ed in a huge faunal diversity compared to Carnivora 5 16 the surrounding countries. It shelters a huge Hyracoidea >1 1 assembly of mammals of different zoogeo- Artiodactyla 2 5 graphical affinities. Most remarkably, Jordan Lagomorpha 1 1 represents biogeographic boundaries for the Rodentia 7 26 extreme distribution limit of several African Total 26 78 (e.g. Procavia capensis and Rousettus aegypti- acus) and Palaearctic mammals (e. g. Eri- Order Insectivora naceus concolor, Sciurus anomalus, Apodemus Order Insectivora contains the most mystacinus, Lutra lutra and Meles meles). primitive placental mammals. A pointed snout and a small brain case characterises Our knowledge on the diversity and members of this order. -
Zootaxa, Checklist of Helminth Parasites of Soricomorpha
Zootaxa 1969: 36–58 (2009) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2009 · Magnolia Press ISSN 1175-5334 (online edition) Checklist of helminth parasites of Soricomorpha (= Insectivora) of North America north of Mexico JOHN M. KINSELLA1 & VASYL V. TKACH2 1HelmWest Laboratory, 2108 Hilda Avenue, Missoula, Montana 59801, USA. E-mail: [email protected] 2Department of Biology, University of North Dakota, Grand Forks, North Dakota 58202, USA. E-mail: [email protected] Abstract A parasite-host and a host-parasite checklist of helminths found in Soricomorpha (= Insectivora) of North America north of Mexico are presented. The parasite-host checklist includes a total of 114 species of helminth parasites reported in the literature from 28 species of insectivores, totaling 349 records. These include 97 species from shrews (9 trematodes, 34 cestodes, 50 nematodes, 4 acanthocephalans) and 23 species from moles (3 trematodes, 4 cestodes, 10 nematodes, 6 acanthocephalans). Each helminth species is listed under its most current accepted taxon, with all known synonyms, dis- tribution by state/province, and references for each geographic location. The following new combinations are proposed: Lineolepis pribilofensis (Olson, 1969) n. comb. for Hymenolepis pribilofensis Olson, 1969; Monocercus soricis (Nei- land, 1953) n. comb. for Molluscotaenia soricis (Neiland, 1953) Spasskii & Andreiko, 1971; and Eucoleus blarinae (Ogren, 1953) n. comb. for Capillaria blarinae Ogren, 1953. The state of knowledge of helminths of insectivores in North America is briefly discussed. Key words: helminths; Soricomorpha; Insectivora; shrews; moles; North America Introduction Shrews and moles have traditionally been classified in the order Insectivora, but more recently have been placed in the order Soricomorpha (Wilson & Reeder 2005). -
Zootaxa, a New Species of Crocidura (Soricomorpha: Soricidae) From
Zootaxa 2345: 60–68 (2010) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ Article ZOOTAXA Copyright © 2010 · Magnolia Press ISSN 1175-5334 (online edition) A new species of Crocidura (Soricomorpha: Soricidae) from southern Vietnam and north-eastern Cambodia PAULINA D. JENKINS1, ALEXEI V. ABRAMOV2,4, VIATCHESLAV V. ROZHNOV3,4 & ANNETTE OLSSON5 1The Natural History Museum, Cromwell Road, London SW7 5BD, UK. E-mail: [email protected] 2Zoological Institute, Russian Academy of Sciences, Universitetskaya nab., 1, Saint-Petersburg, 199034, Russia. E-mail: [email protected] 3A.N. Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences, Leninskii pr., 33, Moscow, 119071, Russia. E-mail: [email protected] 4Joint Vietnam-Russian Tropical Research and Technological Centre, Nguyen Van Huyen, Nghia Do, Cau Giay, Hanoi, Vietnam. E-mail: [email protected] 5Conservation International – Cambodia Programme, P.O. Box 1356, Phnom Penh, Cambodia. E-mail: [email protected] Abstract Knowledge of the Soricidae occurring in Vietnam has recently expanded with the discovery of several species previously unknown to science. Here we describe a new species of white-toothed shrew belonging to the genus Crocidura from lowland areas in southern Vietnam and from a river valley in north-eastern Cambodia. This small to medium sized species is diagnosed on the basis of external features, cranial proportions and morphology of the last upper and lower molars. Comparisons are made with other species of Crocidura known to occur in Vietnam and the biogeography of the regions where the new species has been found, is briefly discussed. Key words: white-toothed shrew, Vietnam, Cambodia Introduction Knowledge of the soricid fauna of South-East Asia and particularly that of Vietnam is still poorly understood, while that of Cambodia is virtually unknown (Jenkins, 1982; Heaney & Timm, 1983; Jenkins & Smith, 1995; Motokawa et al., 2005; Jenkins et al., 2009). -
Molecular Phylogeny of Mobatviruses (Hantaviridae) in Myanmar and Vietnam
viruses Article Molecular Phylogeny of Mobatviruses (Hantaviridae) in Myanmar and Vietnam Satoru Arai 1, Fuka Kikuchi 1,2, Saw Bawm 3 , Nguyễn Trường Sơn 4,5, Kyaw San Lin 6, Vương Tân Tú 4,5, Keita Aoki 1,7, Kimiyuki Tsuchiya 8, Keiko Tanaka-Taya 1, Shigeru Morikawa 9, Kazunori Oishi 1 and Richard Yanagihara 10,* 1 Infectious Disease Surveillance Center, National Institute of Infectious Diseases, Tokyo 162-8640, Japan; [email protected] (S.A.); [email protected] (F.K.); [email protected] (K.A.); [email protected] (K.T.-T.); [email protected] (K.O.) 2 Department of Chemistry, Faculty of Science, Tokyo University of Science, Tokyo 162-8601, Japan 3 Department of Pharmacology and Parasitology, University of Veterinary Science, Yezin, Nay Pyi Taw 15013, Myanmar; [email protected] 4 Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology, Hanoi, Vietnam; [email protected] (N.T.S.); [email protected] (V.T.T.) 5 Graduate University of Science and Technology, Vietnam Academy of Science and Technology, Hanoi, Vietnam 6 Department of Aquaculture and Aquatic Disease, University of Veterinary Science, Yezin, Nay Pyi Taw 15013, Myanmar; [email protected] 7 Department of Liberal Arts, Faculty of Science, Tokyo University of Science, Tokyo 162-8601, Japan 8 Laboratory of Bioresources, Applied Biology Co., Ltd., Tokyo 107-0062, Japan; [email protected] 9 Department of Veterinary Science, National Institute of Infectious Diseases, Tokyo 162-8640, Japan; [email protected] 10 Pacific Center for Emerging Infectious Diseases Research, John A. -
When Beremendiin Shrews Disappeared in East Asia, Or How We Can Estimate Fossil Redeposition
Historical Biology An International Journal of Paleobiology ISSN: (Print) (Online) Journal homepage: https://www.tandfonline.com/loi/ghbi20 When beremendiin shrews disappeared in East Asia, or how we can estimate fossil redeposition Leonid L. Voyta , Valeriya E. Omelko , Mikhail P. Tiunov & Maria A. Vinokurova To cite this article: Leonid L. Voyta , Valeriya E. Omelko , Mikhail P. Tiunov & Maria A. Vinokurova (2020): When beremendiin shrews disappeared in East Asia, or how we can estimate fossil redeposition, Historical Biology, DOI: 10.1080/08912963.2020.1822354 To link to this article: https://doi.org/10.1080/08912963.2020.1822354 Published online: 22 Sep 2020. Submit your article to this journal View related articles View Crossmark data Full Terms & Conditions of access and use can be found at https://www.tandfonline.com/action/journalInformation?journalCode=ghbi20 HISTORICAL BIOLOGY https://doi.org/10.1080/08912963.2020.1822354 ARTICLE When beremendiin shrews disappeared in East Asia, or how we can estimate fossil redeposition Leonid L. Voyta a, Valeriya E. Omelko b, Mikhail P. Tiunovb and Maria A. Vinokurova b aLaboratory of Theriology, Zoological Institute, Russian Academy of Sciences, Saint Petersburg, Russia; bFederal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of Russian Academy of Sciences, Vladivostok, Russia ABSTRACT ARTICLE HISTORY The current paper first time describes a small Beremendia from the late Pleistocene deposits in the Received 24 July 2020 Koridornaya Cave locality (Russian Far East), which associated with the extinct Beremendia minor. The Accepted 8 September 2020 paper is the first attempt to use a comparative analytical method to evaluate a possible case of redeposition KEYWORDS of fossil remains of this shrew. -
Multiannual Dynamics of Shrew (Mammalia, Soricomorpha, Soricidae) Communities in the Republic of Moldova
Muzeul Olteniei Craiova. Oltenia. Studii úi comunicări. ùtiinĠele Naturii. Tom. 27, No. 2/2011 ISSN 1454-6914 MULTIANNUAL DYNAMICS OF SHREW (MAMMALIA, SORICOMORPHA, SORICIDAE) COMMUNITIES IN THE REPUBLIC OF MOLDOVA NISTREANU Victoria Abstract. The paper is based on the existing bibliographical data, on the collection of vertebrate animals of the Institute of Zoology of AùM and on personal studies performed in the last years on the whole territory of Moldova. During the last 50 years considerable modification of shrew communities in various types of ecosystems on the whole territory of Moldova were registered. The most well adapted species is the common shrew, being dominant in the majority of the studied periods. The bicolour shrew, which was a rare, endangered species, introduced in the Red Book of Moldova, 2nd edition, became one of the most common among shrews in the last few years, while the Mediterranean water shrew that was one of the most abundant in the past century, at present became very rare, because of the pollution and transformation of wet and water habitats. The pygmy shrew is wide spread in various types of ecosystems, but its abundance is always below 25%. The lesser shrew is the most synanthropic species among shrews, its frequency in urban and rural area reaching 80%. The shrew species are good ecological indicators. Further measures on the protection of natural and water habitats must be taken. Keywords: shrew, dynamics, natural and anthropogenic ecosystems. Rezumat. Dinamica multianuală a comunităĠilor de chiĠcani (Mammalia, Soricomorpha, Soricidae) în Republica Moldova. Articolul are la bază datele bibliografice existente, colecĠia de vertebrate terestre a Institutului de Zooogie al AùM úi cercetările personale ale autorului efectuate pe tot teritoriul Moldovei în ultimii ani. -
Life History Account for Townsend's Mole
California Wildlife Habitat Relationships System California Department of Fish and Wildlife California Interagency Wildlife Task Group TOWNSEND'S MOLE Scapanus townsendii Family: TALPIDAE Order: INSECTIVORA Class: MAMMALIA M016 Written by: G. Hoefler, J. Harris Reviewed by: H. Shellhammer Edited by: S. Granholm DISTRIBUTION, ABUNDANCE, AND SEASONALITY Townsend's mole is found along the North Coast in Del Norte and Humboldt cos., from the Oregon border south through about two-thirds of Humboldt Co. Optimum habitats are annual grassland, wet meadow, and early seral stages of redwood, Douglas-fir, mixed conifer, and montane hardwood-conifer forests. Townsend's mole in California mainly is a species of lowland river bottoms. SPECIFIC HABITAT REQUIREMENTS Feeding: Earthworms comprise 55-86% of the diet, with the remainder insects, seeds, roots, leaves, slugs, snails, and small mammals (Wight 1928, Moore 1933, Pedersen 1963, Whitaker et al. 1979). Forages beneath the surface in light, base-rich soils. Cover: This mole is almost entirely subterranean, spending its time in underground burrow systems. Requires well-drained, friable soil for burrowing. Reproduction: Nests in a grass-lined cavity 15-20 cm (6-8 in) below the surface. Nests sometimes are placed under "fortresses" (large mounds of earth 75-125 cm (30-50 in) in diameter), or near the center of a cluster of several normal-sized mounds (Kuhn et al. 1966, Maser et al. 1981). Water: Water needs are met from the diet, especially from earthworms. Pattern: Prefers well-drained, friable soils. Avoids dense woods and thickets. Clearing, draining, and fertilizing of cropland and pasture may have increased numbers of Townsend's mole. -
Non-Flying Mammals of Mindanao Island, Philippines WEB VERSION 1 Lawrence R
Non-Flying Mammals of Mindanao Island, Philippines WEB VERSION 1 Lawrence R. Heaney, Nina R. Ingle, Jodi L. Sedlock, Blas R. Tabaranza Jr., Zoology Dept., The Field Museum, 1400 S. Lake Shore Drive, Chicago, IL 60605, USA Illustrations by J.L. Sedlock. Photos by: L.R. Heaney, N.R. Ingle, P.D. Heideman, M. Dagosto. Produced by: R.B. Foster, N.R. Ingle, M.R. Metz, with support from the Andrew Mellon Foundation, the MacArthur Foundation, and the Brown Fund of The Field Museum.© L. Heaney, N. Ingle, J. Sedlock, B. Tabaranza Jr.; Environ. & Conservation Programs, The Field Museum, Chicago, IL 60605, USA. [[email protected]] Rapid Color Guide #50 version 1.1 Macaca fascicularis Tarsius syrichta Paradoxurus hermaphroditus Viverra tangalunga CERCOPITHECIDAE TARSIIDAE VIVERRIDAE VIVERRIDAE Cynocephalus volans Urogale everetti Crocidura beatus Suncus murinus CYNOCEPHALIDAE TUPAIIDAE SORICIDAE SORICIDAE Podogymnura truei Batomys salomonseni Bullimus bagobus Crunomys suncoides ERICINACEIDAE MURIDAE MURIDAE MURIDAE Limnomys sibuanus Rattus everetti Rattus tanezumi Tarsomys apoensis MURIDAE MURIDAE MURIDAE MURIDAE Apomys insignis Rattus exulans Tarsomys apoensis, Tarsomys sp., Apomys hylocoetes Exilisciurus concinnus (Top) MURIDAE (Bottom) (Left to Right) MURIDAE (Top to Bottom) SCIURDAE These photos show most genera of non-flying mammals known from Mindanao. Not pictured here but easily identified are the Philippine Wild Pig (Sus philippensis, Suidae) and the Philippine Deer (Cervus mariannus, Cervidae). Rats and mice of the family Muridae are represented by 15 species, some very hard to tell apart. Many characters should be examined, such as body measurements and the structure of the feet, including the shape and size of pads and the fur on them; fur texture and color; and the number and location of nipples (on females). -
Solenodon Genome Reveals Convergent Evolution of Venom in Eulipotyphlan Mammals
Solenodon genome reveals convergent evolution of venom in eulipotyphlan mammals Nicholas R. Casewella,1, Daniel Petrasb,c, Daren C. Cardd,e,f, Vivek Suranseg, Alexis M. Mychajliwh,i,j, David Richardsk,l, Ivan Koludarovm, Laura-Oana Albulescua, Julien Slagboomn, Benjamin-Florian Hempelb, Neville M. Ngumk, Rosalind J. Kennerleyo, Jorge L. Broccap, Gareth Whiteleya, Robert A. Harrisona, Fiona M. S. Boltona, Jordan Debonoq, Freek J. Vonkr, Jessica Alföldis, Jeremy Johnsons, Elinor K. Karlssons,t, Kerstin Lindblad-Tohs,u, Ian R. Mellork, Roderich D. Süssmuthb, Bryan G. Fryq, Sanjaya Kuruppuv,w, Wayne C. Hodgsonv, Jeroen Kooln, Todd A. Castoed, Ian Barnesx, Kartik Sunagarg, Eivind A. B. Undheimy,z,aa, and Samuel T. Turveybb aCentre for Snakebite Research & Interventions, Liverpool School of Tropical Medicine, Pembroke Place, L3 5QA Liverpool, United Kingdom; bInstitut für Chemie, Technische Universität Berlin, 10623 Berlin, Germany; cCollaborative Mass Spectrometry Innovation Center, University of California, San Diego, La Jolla, CA 92093; dDepartment of Biology, University of Texas at Arlington, Arlington, TX 76010; eDepartment of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138; fMuseum of Comparative Zoology, Harvard University, Cambridge, MA 02138; gEvolutionary Venomics Lab, Centre for Ecological Sciences, Indian Institute of Science, 560012 Bangalore, India; hDepartment of Biology, Stanford University, Stanford, CA 94305; iDepartment of Rancho La Brea, Natural History Museum of Los Angeles County, Los Angeles, -
Endoparasites of the Long-Eared Hedgehog
Original Investigation / Özgün Araştırma 37 Endoparasites of the Long-Eared Hedgehog (Hemiechinus auritus) in Zabol District, Southeast Iran İran’ın Güneydoğusunda bulunan Zabol’da Uzun Kulaklı Kirpilerde (Hemiechinus Auritus) Görülen Endoparazitler Nafiseh Zolfaghari, Reza Nabavi University of Zabol, Veterinary Medicine, Zabol, Iran ABSTRACT Objective: The long-eared hedgehog (Hemiechinus auritus) is a nocturnal animal living in Central and Southeast Iran. However, there are few studies concerning endoparasites, some of which are zoonotic, of the hedgehogs in the north and northwest of Iran. The aim of the present study is to investigate endoparasites in long-eared hedgehogs, living in Zabol district, Southeast Iran. Materials and Methods: Stool and blood samples collected from 50 hedgehogs (35 males and 15 females) that were trapped alive were examined with Clayton-Lane flotation and Giemsa staining methods. Furthermore, 10 road-killed hedgehog carcasses were necropsied. The adult parasites were collected and identified under a light microscope. Results: Spirurida eggs in the stool samples and Anaplasma inclusion bodies in red blood cells were determined in 32% and 52% of the samples, respectively. Physaloptera clausa, Mathevotaenia erinacei, Nephridiacanthus major, and Moniliformis moniliformis were identified in the necropsy. Conclusion: To the best of our knowledge, ours is the first study concerning endoparasites of long-eared hedgehogs in Iran. Furthermore, M. erinacei was for the first time reported as a parasitic fauna in Iran.(Turkiye Parazitol Derg 2016; 40: 37-41) Keywords: Long-eared hedgehog, endoparasites, Zabol, Iran Received: 05.10.2015 Accepted: 24.12.2015 ÖZ Amaç: Uzun kulaklı kirpi (Hemiechinus auritus), İran’ın iç bölgelerinde ve güney doğusunda yaşayan noktürnal bir hayvandır. -
Risk of Importing Zoonotic Diseases Through Wildlife Trade, United States Boris I
Risk of Importing Zoonotic Diseases through Wildlife Trade, United States Boris I. Pavlin, Lisa M. Schloegel, and Peter Daszak The United States is the world’s largest wildlife import- vidual animals during 2000–2004 (5). Little disease sur- er, and imported wild animals represent a potential source veillance is conducted for imported animals; quarantine is of zoonotic pathogens. Using data on mammals imported required for only wild birds, primates, and some ungulates during 2000–2005, we assessed their potential to host 27 arriving in the United States, and mandatory testing exists selected risk zoonoses and created a risk assessment for only a few diseases (psittacosis, foot and mouth dis- that could inform policy making for wildlife importation and ease, Newcastle disease, avian infl uenza). Other animals zoonotic disease surveillance. A total of 246,772 mam- mals in 190 genera (68 families) were imported. The most are typically only screened for physical signs of disease, widespread agents of risk zoonoses were rabies virus (in and pathogen testing is delegated to either the US Depart- 78 genera of mammals), Bacillus anthracis (57), Mycobac- ment of Agriculture (for livestock) or the importer (6). terium tuberculosis complex (48), Echinococcus spp. (41), The process of preimport housing and importation often and Leptospira spp. (35). Genera capable of harboring the involves keeping animals at high density and in unnatural greatest number of risk zoonoses were Canis and Felis (14 groupings of species, providing opportunities for cross- each), Rattus (13), Equus (11), and Macaca and Lepus (10 species transmission and amplifi cation of known and un- each).