Bishop Museum Occasional Papers
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The Impact of Anchored Phylogenomics and Taxon Sampling on Phylogenetic Inference in Narrow-Mouthed Frogs (Anura, Microhylidae)
Cladistics Cladistics (2015) 1–28 10.1111/cla.12118 The impact of anchored phylogenomics and taxon sampling on phylogenetic inference in narrow-mouthed frogs (Anura, Microhylidae) Pedro L.V. Pelosoa,b,*, Darrel R. Frosta, Stephen J. Richardsc, Miguel T. Rodriguesd, Stephen Donnellane, Masafumi Matsuif, Cristopher J. Raxworthya, S.D. Bijug, Emily Moriarty Lemmonh, Alan R. Lemmoni and Ward C. Wheelerj aDivision of Vertebrate Zoology (Herpetology), American Museum of Natural History, Central Park West at 79th Street, New York, NY 10024, USA; bRichard Gilder Graduate School, American Museum of Natural History, Central Park West at 79th Street, New York, NY 10024, USA; cHerpetology Department, South Australian Museum, North Terrace, Adelaide, SA 5000, Australia; dDepartamento de Zoologia, Instituto de Biociencias,^ Universidade de Sao~ Paulo, Rua do Matao,~ Trav. 14, n 321, Cidade Universitaria, Caixa Postal 11461, CEP 05422-970, Sao~ Paulo, Sao~ Paulo, Brazil; eCentre for Evolutionary Biology and Biodiversity, The University of Adelaide, Adelaide, SA 5005, Australia; fGraduate School of Human and Environmental Studies, Kyoto University, Sakyo-ku, Kyoto 606-8501, Japan; gSystematics Lab, Department of Environmental Studies, University of Delhi, Delhi 110 007, India; hDepartment of Biological Science, Florida State University, Tallahassee, FL 32306, USA; iDepartment of Scientific Computing, Florida State University, Dirac Science Library, Tallahassee, FL 32306-4120, USA; jDivision of Invertebrate Zoology, American Museum of Natural History, Central Park West at 79th Street, New York, NY 10024, USA Accepted 4 February 2015 Abstract Despite considerable progress in unravelling the phylogenetic relationships of microhylid frogs, relationships among subfami- lies remain largely unstable and many genera are not demonstrably monophyletic. -
View Preprint
A peer-reviewed version of this preprint was published in PeerJ on 30 March 2017. View the peer-reviewed version (peerj.com/articles/3077), which is the preferred citable publication unless you specifically need to cite this preprint. Oliver PM, Iannella A, Richards SJ, Lee MSY. 2017. Mountain colonisation, miniaturisation and ecological evolution in a radiation of direct-developing New Guinea Frogs (Choerophryne, Microhylidae) PeerJ 5:e3077 https://doi.org/10.7717/peerj.3077 Mountain colonisation, miniaturisation and ecological evolution in a radiation of direct developing New Guinea Frogs (Choerophryne, Microhylidae) Paul M Oliver Corresp., 1 , Amy Iannella 2 , Stephen J Richards 3 , Michael S.Y Lee 3, 4 1 Division of Ecology and Evolution, Research School of Biology & Centre for Biodiversity Analysis, Australian National University, Canberra, Australian Capital Territory, Australia 2 School of Biological Sciences, The University of Adelaide, Adelaide, South Australia, Australia 3 South Australian Museum, Adelaide, South Australia, Australia 4 School of Biological Sciences, Flinders University, Adelaide, South Australia, Australia Corresponding Author: Paul M Oliver Email address: [email protected] Aims. Mountain ranges in the tropics are characterised by high levels of localised endemism, often-aberrant evolutionary trajectories, and some of the world’s most diverse regional biotas. Here we investigate the evolution of montane endemism, ecology and body size in a clade of direct-developing frogs (Choerophryne, Microhylidae) from New Guinea. Methods. Phylogenetic relationships were estimated from a mitochondrial molecular dataset using Bayesian and maximum likelihood approaches. Ancestral state reconstruction was used to infer the evolution of elevational distribution, ecology (indexed by male calling height), and body size, and phylogenetically corrected regression was employed to examine the relationships between these three traits. -
Anura:Microhylidae
THE PHYLOGENY OF THE PAPUAN SUBFAIÏILY ASTEROPHRYINAE (ANURA: MICROHYLIDAE) by THO¡1IAS CHARLES BURTON, 8.4., B.Sc. (Hons)MeIb. Department of Zoology University of Adelaide A thesis submitted to the UniVersity of Adelaide for the degree of Doctor of PhilosoPhY JT'NE 1.9 8 3 To ChwLø SUMMARY THE PHYLOGENY OF THE PAPUAN SUBFAMILY ASTEROPHRYINAE (nruunR : MI cRoHyt-rrRE) The Asterophryinae is a subfamily of terrestrial and fossorial microhylid frogs restricted to the Papuan Sub- Region. It comprises 43 named species and subspecies in seven genera. A second microhylid subfamily, the Sphenophryninae, also occurs in the Papuan Sub-Region, and its relationship to the Asterophryinae is contentious- In this study I undertake a phylogenetic analysis of the Asterophryinae based on the results of an examination of the myology, osteology and external morphology of members of all of the genera, and also of members of the Sphenophryninae, other microhylid. subfamilies and the Ranoidea, which serve as out-groups at different levels of analysis. The Asterophryinae and Sphenophryninae form a monophyletic group (sensu Hennig, 19661 supported by two autapomorphies: (a) direct embryonic development within the egg capsule; and (b) fusion and enlargement of the palatine and prevomer. The monophyly of the Asterophryinae is supported by three autapomorphies: (a) posterior adherence of the tongue and its division into anterior and posterior sections; (b) fusion of elements of the mandible and displacement of the mentomeckelians from the anterior margin of the mandible; and (c) loss of a dorsal el-ement J-aa of the M. intermandíbuLaris. The monophyly of the Sphenophryninae is supported by only one character of dubious value: procoely of the vertebral column. -
Final Frontier: Newly Discovered Species of New Guinea
REPORT 2011 Conservation Climate Change Sustainability Final Frontier: Newly discovered species of New Guinea (1998 - 2008) WWF Western Melanesia Programme Office Author: Christian Thompson (the green room) www.greenroomenvironmental.com, with contributions from Neil Stronach, Eric Verheij, Ted Mamu (WWF Western Melanesia), Susanne Schmitt and Mark Wright (WWF-UK), Design: Torva Thompson (the green room) Front cover photo: Varanus macraei © Lutz Obelgonner. This page: The low water in a river exposes the dry basin, at the end of the dry season in East Sepik province, Papua New Guinea. © Text 2011 WWF WWF is one of the world’s largest and most experienced independent conservation organisations, with over 5 million supporters and a global Network active in more than 100 countries. WWF’s mission is to stop the degradation of the planet’s natural environment and to build a future in which humans live in harmony with nature, by conserving the world’s biological diversity, ensuring that the use of renewable natural resources is sustainable, and promoting the reduction of pollution and wasteful consumption. © Brent Stirton / Getty images / WWF-UK © Brent Stirton / Getty Images / WWF-UK Closed-canopy rainforest in New Guinea. New Guinea is home to one of the world’s last unspoilt rainforests. This report FOREWORD: shows, it’s a place where remarkable new species are still being discovered today. As well as wildlife, New Guinea’s forests support the livelihoods of several hundred A VITAL YEAR indigenous cultures, and are vital to the country’s development. But they’re under FOR FORESTS threat. This year has been designated the International Year of Forests, and WWF is redoubling its efforts to protect forests for generations to come – in New Guinea, and all over the world. -
Eleutherodactylus Ridens (Pygmy Rainfrog) Predation Tobias Eisenberg
Sacred Heart University DigitalCommons@SHU Biology Faculty Publications Biology 9-2007 Eleutherodactylus ridens (Pygmy Rainfrog) Predation Tobias Eisenberg Twan Leenders Sacred Heart University Follow this and additional works at: https://digitalcommons.sacredheart.edu/bio_fac Part of the Population Biology Commons, and the Zoology Commons Recommended Citation Eisenberg, T. & Leenders, T. (2007). Eleutherodactylus ridens (Pygmy Rainfrog) predation. Herpetological Review, 38(3), 323. This Article is brought to you for free and open access by the Biology at DigitalCommons@SHU. It has been accepted for inclusion in Biology Faculty Publications by an authorized administrator of DigitalCommons@SHU. For more information, please contact [email protected], [email protected]. SSAR Officers (2007) HERPETOLOGICAL REVIEW President The Quarterly News-Journal of the Society for the Study of Amphibians and Reptiles ROY MCDIARMID USGS Patuxent Wildlife Research Center Editor Managing Editor National Museum of Natural History ROBERT W. HANSEN THOMAS F. TYNING Washington, DC 20560, USA 16333 Deer Path Lane Berkshire Community College Clovis, California 93619-9735, USA 1350 West Street President-elect [email protected] Pittsfield, Massachusetts 01201, USA BRIAN CROTHER [email protected] Department of Biological Sciences Southeastern Louisiana University Associate Editors Hammond, Louisiana 70402, USA ROBERT E. ESPINOZA CHRISTOPHER A. PHILLIPS DEANNA H. OLSON California State University, Northridge Illinois Natural History Survey USDA Forestry Science Lab Secretary MARION R. PREEST ROBERT N. REED MICHAEL S. GRACE R. BRENT THOMAS Joint Science Department USGS Fort Collins Science Center Florida Institute of Technology Emporia State University The Claremont Colleges Claremont, California 91711, USA EMILY N. TAYLOR GUNTHER KÖHLER MEREDITH J. MAHONEY California Polytechnic State University Forschungsinstitut und Illinois State Museum Naturmuseum Senckenberg Treasurer KIRSTEN E. -
1704632114.Full.Pdf
Phylogenomics reveals rapid, simultaneous PNAS PLUS diversification of three major clades of Gondwanan frogs at the Cretaceous–Paleogene boundary Yan-Jie Fenga, David C. Blackburnb, Dan Lianga, David M. Hillisc, David B. Waked,1, David C. Cannatellac,1, and Peng Zhanga,1 aState Key Laboratory of Biocontrol, College of Ecology and Evolution, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510006, China; bDepartment of Natural History, Florida Museum of Natural History, University of Florida, Gainesville, FL 32611; cDepartment of Integrative Biology and Biodiversity Collections, University of Texas, Austin, TX 78712; and dMuseum of Vertebrate Zoology and Department of Integrative Biology, University of California, Berkeley, CA 94720 Contributed by David B. Wake, June 2, 2017 (sent for review March 22, 2017; reviewed by S. Blair Hedges and Jonathan B. Losos) Frogs (Anura) are one of the most diverse groups of vertebrates The poor resolution for many nodes in anuran phylogeny is and comprise nearly 90% of living amphibian species. Their world- likely a result of the small number of molecular markers tra- wide distribution and diverse biology make them well-suited for ditionally used for these analyses. Previous large-scale studies assessing fundamental questions in evolution, ecology, and conser- used 6 genes (∼4,700 nt) (4), 5 genes (∼3,800 nt) (5), 12 genes vation. However, despite their scientific importance, the evolutionary (6) with ∼12,000 nt of GenBank data (but with ∼80% missing history and tempo of frog diversification remain poorly understood. data), and whole mitochondrial genomes (∼11,000 nt) (7). In By using a molecular dataset of unprecedented size, including 88-kb the larger datasets (e.g., ref. -
Systematics of the Carlia “Fusca” Lizards (Squamata: Scincidae) of New Guinea and Nearby Islands
Systematics of the Carlia “fusca” Lizards (Squamata: Scincidae) of New Guinea and Nearby Islands George R. Zug Bishop Museum Bulletin in Zoology 5 Bishop Museum Press Honolulu, 2004 Cover: Published by Bishop Museum Press 1525 Bernice Street Honolulu, Hawai‘i 96817-2704, USA Copyright ©2004 Bishop Museum All Rights Reserved Printed in the United States of America ISSN 0893-312X Zug — Carlia “fusca” Lizards from New Guinea and Nearby Islands v TABLE OF CONTENTS Acknowledgments ......................................................................................................................... vii Abstract ........................................................................................................................................ viii Introduction ................................................................................................................................... 1 Carlia: An Analysis for Species Relationships ........................................................................... 1 Characters and Taxa .................................................................................................................. 2 Phylogenetic Analysis................................................................................................................ 8 New Guinea Carlia “fusca” ....................................................................................................... 9 Materials and Methods................................................................................................................. -
(Amphibia: Anura) on New Guinea: a Mitochondrial Phylogeny Reveals Parallel Evolution of Morph
Available online at www.sciencedirect.com Molecular Phylogenetics and Evolution 47 (2008) 353–365 www.elsevier.com/locate/ympev The radiation of microhylid frogs (Amphibia: Anura) on New Guinea: A mitochondrial phylogeny reveals parallel evolution of morphological and life history traits and disproves the current morphology-based classification Frank Ko¨hler *, Rainer Gu¨nther Museum fu¨r Naturkunde, Humboldt-Universita¨t, Invalidenstr. 43, D-10115 Berlin, Germany Received 17 August 2007; revised 24 October 2007; accepted 22 November 2007 Available online 14 January 2008 Abstract Microhylidae account for the majority of frog species on New Guinea and have evolved an extraordinarily wide range of ecological, behavioural, and morphological traits. Several species are known for their unique paternal care behaviour, which includes guarding of clutches in some and additional froglet transport in other species. We sampled 48 out of 215 New Guinean microhylid species and all but two (Mantophryne and Pherohapsis) of 18 New Guinean genera and analysed a concatenated data set of partial sequences of the mito- chondrial genes 12S and 16S, which comprises 1220 aligned nucleotide positions, in order to infer the phylogenetic relationships within this diverse group of frogs. The trees do provide resolution at shallow, but not at deep branches. Monophyly is rejected for the genera Callulops, Liophryne, Austrochaperina, Copiula, and Cophixalus as currently recognized. Six clades are well supported: (1) Hylophorbus and Callulops cf. robustus, (2) its sister taxon comprising Xenorhina, Asterophrys turpicola, and Callulops except for C. cf. robustus, (3) Liophryne rhododactyla, L. dentata, Oxydactyla crassa, and Sphenophryne cornuta, (4) Copiula and Austrochaperina, (5) Barygenys exsul, Cophixalus spp., and Oreophryne, (6) Cophixalus sphagnicola, Albericus laurini, and Choerophryne. -
Mountain Colonisation, Miniaturisation and Ecological Evolution in a Radiation of Direct-Developing New Guinea Frogs (Choerophryne, Microhylidae)
Mountain colonisation, miniaturisation and ecological evolution in a radiation of direct-developing New Guinea Frogs (Choerophryne, Microhylidae) Paul M. Oliver1, Amy Iannella2, Stephen J. Richards3 and Michael S.Y. Lee3,4 1 Division of Ecology and Evolution, Research School of Biology & Centre for Biodiversity Analysis, Australian National University, Canberra, Australian Capital Territory, Australia 2 School of Biological Sciences, The University of Adelaide, Adelaide, South Australia, Australia 3 South Australian Museum, Adelaide, South Australia, Australia 4 School of Biological Sciences, Flinders University, Adelaide, South Australia, Australia ABSTRACT Aims. Mountain ranges in the tropics are characterised by high levels of localised en- demism, often-aberrant evolutionary trajectories, and some of the world's most diverse regional biotas. Here we investigate the evolution of montane endemism, ecology and body size in a clade of direct-developing frogs (Choerophryne, Microhylidae) from New Guinea. Methods. Phylogenetic relationships were estimated from a mitochondrial molecular dataset using Bayesian and maximum likelihood approaches. Ancestral state recon- struction was used to infer the evolution of elevational distribution, ecology (indexed by male calling height), and body size, and phylogenetically corrected regression was employed to examine the relationships between these three traits. Results. We obtained strong support for a monophyletic lineage comprising the majority of taxa sampled. Within this clade we identified one -
Platymantis from Western New Guinea (Amphibia, Anura)
65 (1): 101 – 116 © Senckenberg Gesellschaft für Naturforschung, 2015. 4.5.2015 Description of two new taxa of the ceratobatrachid genus Platymantis from western New Guinea (Amphibia, Anura) Rainer Günther Museum für Naturkunde Berlin, Leibniz-Institut für Evolutions- und Biodiversitätsforschung, Invalidenstraße 43, 10115 Berlin, Germany; rainer.guenther(at)mfn-berlin.de Accepted 20.iii.2015. Published online at www.senckenberg.de / vertebrate-zoology on 4.v.2015. Abstract Two new taxa of the ceratobatrachid genus Platymantis are described from western New Guinea on the basis of bioacoustic, morphologi- cal, ecological and biochemical studies. One of these, described as new species, is known only from in the Fakfak Mountains (Bomberai Peninsula) and the other, described as new subspecies, from Yapen Island. Their nearest relatives appear to be P. batantae ZWEIFEL, 1969, and P. cryptotis GÜNTHER, 1999 respectively. Besides data on the new taxa, some morphological, bioacoustic and molecular data are given for P. papuensis MEYER, 1875 from the type locality Biak Island. Kurzfassung Auf der Basis eigener Aufsammlungen im Westen Neuguineas in den Jahren 1999-2008 werden zwei neue Taxa des Genus Platymantis, Familie Ceratobatrachidae, beschrieben. Bioakustische, morphologische, ökologische und biochemische Untersuchungen weisen darauf hin, dass eine unbeschriebene Art im Fakfak-Gebirge (Bomberai Halbinsel) vorkommt und ein weiteres neues Taxon, das als Unterart deklariert wird, auf der Insel Yapen lebt. Nach den Paarungsrufen zu urteilen, dürfte die nächste Verwandte des ersten Taxons Platymantis batantae ZWEIFEL, 1969 sein, und vom zweiten Taxon dürfte es Platymantis cryptotis GÜNTHER, 1999 sein. Neben Daten zu den neuen Taxa werden auch morphologische, bioakustische und molekulare Befunde zu Platymantis papuensis MEYER, 1875 von der Typuslokalität Biak mitgeteilt. -
21022 MBE HCV Assessment Report 23Aug12.Docx NBPOL – Milne Bay Estate High Conservation Value Assessment | 3
New Britain Palm Oil Limited – Milne Bay Estate High Conservation Value Assessment HCV Assessor: Guy Michael Williams T: +61404344402 E: [email protected] NBPOL – Milne Bay Estate High Conservation Value Assessment | 2 ! Summary This report presents findings and recommendations of a High Conservation Values, biodiversity and social land use assessment of the palm oil estate plantation area in Milne Bay Estate (owned by New Britain Palm Oil Limited) in order to demonstrate a commitment to the standards of the Roundtable on Sustainable Palm Oil (RSPO), with a particular focus on Principle 5, Criterion 5.2: That the status of rare threatened or endangered species and high conservation value habitats, if any, that exist in the plantation area or that could be affected by plantation of mill management, shall be identified and their conservation taken into account in management plans and operations. One of the key provisions within the Roundtable on Sustainable Palm Oil is to reconcile palm production with the conservation of important ecological and social landscapes (Persey et al 2011); in other words, there is a requirement to identify, maintain and enhance High Conservation Values that may be affected by palm oil cultivation. A High Conservation Value (HCV) includes biological, ecological, social or cultural values which are considered to be of outstanding significance or critical importance at a national, regional or global scale. As defined by the ProForest HCV Toolkit, the RSPO Principles and Criteria, and the HCV Resource Network Charter, the five categories of HCV that need to be considered are presented in Box 1. It is these values that need to be protected. -
First Record of the Microhylid Frog Genus Cophixalus from Western Papua, Indonesia, with Descriptions of Two New Species (Anura: Microhylidae)
ZOBODAT - www.zobodat.at Zoologisch-Botanische Datenbank/Zoological-Botanical Database Digitale Literatur/Digital Literature Zeitschrift/Journal: Herpetozoa Jahr/Year: 2003 Band/Volume: 16_1_2 Autor(en)/Author(s): Günther Rainer Artikel/Article: First record of the microphylid frog genus Cophixalus from western Papua, Indonesia, with description of two new species 3-21 ©Österreichische Gesellschaft für Herpetologie e.V., Wien, Austria, download unter www.biologiezentrum.at HERPETOZOA16(l/2):3-21 3 Wien, 30. Juli 2003 First record of the microhylid frog genus Cophixalus from western Papua, Indonesia, with descriptions of two new species (Anura: Microhylidae) Erster Nachweis der Microhyliden-Gattung Cophixalus aus West-Papua, Indonesien, einschließlich der Beschreibung von zwei neuen Arten (Anura: Microhylidae) RAINER GÜNTHER KURZFASSUNG Von 31 validen Arten der Gattung Cophixalus leben 17 auf Neuguinea und benachbarten Inseln. Nur eine davon, C. biroi, wurde bisher auch im östlichen Teil von Papua (früher Irian Jaya) nachgewiesen. Bei Exkursionen des Verfassers in den Westen von Papua in den Jahren 2000 und 2002 wurden dort erstmalig Vertreter dieser Gattung gefunden. Es handelt sich dabei um zwei neue Arten, die hier beschrieben werden. Die mit einer Kopf- Rumpf-Länge von 26-28 mm (Männchen) größere Art kommt auf der Insel Yapen im Nordosten der Cenderawasih Bay vor. Sie ist offensichtlich näher mit C. biroi verwandt. Fehlende dunkle Streifen an den Kopfseiten und am Vorderkörper sowie Rufe von ein bis zwei Minuten Dauer und mit schnell aufeinander folgenden Silben im zwei- ten Teil der Rufe (Silbenwiederholungsrate 8 pro Sekunde) grenzen die neue Art jedoch deutlich von C. biroi (Silbenwiederholungsrate < l/s) ab. Die zweite neue Art wurde im Fakfak-Gebirge auf der Bomberai-Halbinsel (Hals des Vogelkop) angetrof- fen.