Phylogenetic Taxonomy of the Cercosaurini (Squamata: Gymnophthalmidae), with New Genera for Species of Neusticurus and Proctoporus
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Modeling and Partitioning the Nucleotide Evolutionary Process for Phylogenetic and Comparative Genomic Inference
University of Central Florida STARS Electronic Theses and Dissertations, 2004-2019 2007 Modeling And Partitioning The Nucleotide Evolutionary Process For Phylogenetic And Comparative Genomic Inference Todd Castoe University of Central Florida Part of the Biology Commons Find similar works at: https://stars.library.ucf.edu/etd University of Central Florida Libraries http://library.ucf.edu This Doctoral Dissertation (Open Access) is brought to you for free and open access by STARS. It has been accepted for inclusion in Electronic Theses and Dissertations, 2004-2019 by an authorized administrator of STARS. For more information, please contact [email protected]. STARS Citation Castoe, Todd, "Modeling And Partitioning The Nucleotide Evolutionary Process For Phylogenetic And Comparative Genomic Inference" (2007). Electronic Theses and Dissertations, 2004-2019. 3111. https://stars.library.ucf.edu/etd/3111 MODELING AND PARTITIONING THE NUCLEOTIDE EVOLUTIONARY PROCESS FOR PHYLOGENETIC AND COMPARATIVE GENOMIC INFERENCE by TODD A. CASTOE B.S. SUNY – College of Environmental Science and Forestry, 1999 M.S. The University of Texas at Arlington, 2001 A dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy in Biomolecular Sciences in the Burnett College of Biomedical Sciences at the University of Central Florida Orlando, Florida Spring Term 2007 Major Professor: Christopher L. Parkinson © 2007 Todd A. Castoe ii ABSTRACT The transformation of genomic data into functionally relevant information about the composition of biological systems hinges critically on the field of computational genome biology, at the core of which lies comparative genomics. The aim of comparative genomics is to extract meaningful functional information from the differences and similarities observed across genomes of different organisms. -
Anfibios Y Reptiles 1 Keiner Meza-Tilvez1,2, Adolfo Mulet-Paso1,2 & Ronald Zambrano-Cantillo1 1Universidad De Cartagena & 2Fauna Silvestre Fundación
Fauna del Jardín Botánico “Guillermo Piñeres” de Cartagena, Turbaco, COLOMBIA Anfibios y Reptiles 1 Keiner Meza-Tilvez1,2, Adolfo Mulet-Paso1,2 & Ronald Zambrano-Cantillo1 1 2 Universidad de Cartagena & Fauna Silvestre Fundación Fotos: Adolfo Mulet Paso (AMP) – Hugo Claessen (HC) – Jairo H. Maldonado (JHM) – Jesús Torres Meza (JTM) – José Luis Pérez-González (JPG) – Jose Luna (JL) – Keiner Meza-Tilvez (KMT) – Luis Alberto Rueda Solano (LRS) – Mauricio Rivera Correa (MRC) – Juan Salvador Mendoza (JSM). © Jardín Botánico de Cartagena “Guillermo Piñeres” [[email protected]] Macho = (M), Hembra = (H) y Juvenil = (Juv.) [fieldguides.fieldmuseum.org] [1097] versión 1 12/2018 1 Rhinella horribilis 2 Rhinella humboldti 3 Dendrobates truncatus 4 Boana pugnax BUFONIDAE (foto KMT) BUFONIDAE (foto KMT) DENDROBATIDAE (foto KMT) HYLIDAE (foto KMT) 5 Boana xerophylla 6 Dendropsophus microcephalus 7 Scarthyla vigilans 8 Scinax rostratus HYLIDAE (foto LRS) HYLIDAE (foto KMT) HYLIDAE (foto KMT) HYLIDAE (foto KMT) 9 Scinax ruber 10 Trachycephalus typhonius 11 Engystomops pustulosus 12 Leptodactylus fragilis HYLIDAE (foto KMT) HYLIDAE (foto KMT) LEPTODACTYLIDAE (foto KMT) LEPTODACTYLIDAE (foto LRS) 13 Leptodactylus insularum 14 Pleurodema brachyops 15 Elachistocleis pearsei 16 Agalychnis callidryas LEPTODACTYLIDAE (foto AMP) LEPTODACTYLIDAE (foto KMT) MICROHYLIDAE (foto MRC) PHYLLOMEDUSIDAE (foto HC) 17 Phyllomedusa venusta 18 Basiliscus basiliscus (M) 19 Basiliscus basiliscus (Juv.) 20 Anolis auratus PHYLLOMEDUSIDAE (foto AMP) CORYTOPHANIDAE (foto KMT) CORYTOPHANIDAE (foto AMP) DACTYLOIDAE (foto AMP) Fauna del Jardín Botánico “Guillermo Piñeres” de Cartagena, Turbaco, COLOMBIA Anfibios y Reptiles 2 Keiner Meza-Tilvez1,2, Adolfo Mulet-Paso1,2 & Ronald Zambrano-Cantillo1 1 2 Universidad de Cartagena & Fauna Silvestre Fundación Fotos: Adolfo Mulet Paso (AMP) – Hugo Claessen (HC) – Jairo H. -
A New Computing Environment for Modeling Species Distribution
EXPLORATORY RESEARCH RECOGNIZED WORLDWIDE Botany, ecology, zoology, plant and animal genetics. In these and other sub-areas of Biological Sciences, Brazilian scientists contributed with results recognized worldwide. FAPESP,São Paulo Research Foundation, is one of the main Brazilian agencies for the promotion of research.The foundation supports the training of human resources and the consolidation and expansion of research in the state of São Paulo. Thematic Projects are research projects that aim at world class results, usually gathering multidisciplinary teams around a major theme. Because of their exploratory nature, the projects can have a duration of up to five years. SCIENTIFIC OPPORTUNITIES IN SÃO PAULO,BRAZIL Brazil is one of the four main emerging nations. More than ten thousand doctorate level scientists are formed yearly and the country ranks 13th in the number of scientific papers published. The State of São Paulo, with 40 million people and 34% of Brazil’s GNP responds for 52% of the science created in Brazil.The state hosts important universities like the University of São Paulo (USP) and the State University of Campinas (Unicamp), the growing São Paulo State University (UNESP), Federal University of São Paulo (UNIFESP), Federal University of ABC (ABC is a metropolitan region in São Paulo), Federal University of São Carlos, the Aeronautics Technology Institute (ITA) and the National Space Research Institute (INPE). Universities in the state of São Paulo have strong graduate programs: the University of São Paulo forms two thousand doctorates every year, the State University of Campinas forms eight hundred and the University of the State of São Paulo six hundred. -
Zootaxa, Herpetological Results of the 2002 Expedition to Sarisarinama, A
ZOOTAXA 1942 Herpetological results of the 2002 expedition to Sarisariñama, a tepui in Venezuelan Guayana, with the description of five new species CESAR L. BARRIO-AMOROS & CHARLES BREWER-CARIAS Magnolia Press Auckland, New Zealand Cesar L. Barrio-Amoros & Charles Brewer-Carias Herpetological results of the 2002 expedition to Sarisariñama, a tepui in Venezuelan Guayana, with the description of five new species (Zootaxa 1942) 68 pp.; 30 cm. 26 Nov. 2008 ISBN 978-1-86977-269-7 (paperback) ISBN 978-1-86977-270-3 (Online edition) FIRST PUBLISHED IN 2008 BY Magnolia Press P.O. Box 41-383 Auckland 1346 New Zealand e-mail: [email protected] http://www.mapress.com/zootaxa/ © 2008 Magnolia Press All rights reserved. No part of this publication may be reproduced, stored, transmitted or disseminated, in any form, or by any means, without prior written permission from the publisher, to whom all requests to reproduce copyright material should be directed in writing. This authorization does not extend to any other kind of copying, by any means, in any form, and for any purpose other than private research use. ISSN 1175-5326 (Print edition) ISSN 1175-5334 (Online edition) 2 · Zootaxa 1942 © 2008 Magnolia Press BARRIO-AMORÓS & BREWER-CARÍAS Zootaxa 1942: 1–68 (2008) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ ZOOTAXA Copyright © 2008 · Magnolia Press ISSN 1175-5334 (online edition) Herpetological results of the 2002 expedition to Sarisariñama, a tepui in Venezuelan Guayana, with the description of five new species CÉSAR L. BARRIO-AMORÓS1 & CHARLES BREWER-CARÍAS2 1Fundación AndígenA, Apartado Postal 210, 5101-A Mérida, Venezuela. -
Bibliography and Scientific Name Index to Amphibians
lb BIBLIOGRAPHY AND SCIENTIFIC NAME INDEX TO AMPHIBIANS AND REPTILES IN THE PUBLICATIONS OF THE BIOLOGICAL SOCIETY OF WASHINGTON BULLETIN 1-8, 1918-1988 AND PROCEEDINGS 1-100, 1882-1987 fi pp ERNEST A. LINER Houma, Louisiana SMITHSONIAN HERPETOLOGICAL INFORMATION SERVICE NO. 92 1992 SMITHSONIAN HERPETOLOGICAL INFORMATION SERVICE The SHIS series publishes and distributes translations, bibliographies, indices, and similar items judged useful to individuals interested in the biology of amphibians and reptiles, but unlikely to be published in the normal technical journals. Single copies are distributed free to interested individuals. Libraries, herpetological associations, and research laboratories are invited to exchange their publications with the Division of Amphibians and Reptiles. We wish to encourage individuals to share their bibliographies, translations, etc. with other herpetologists through the SHIS series. If you have such items please contact George Zug for instructions on preparation and submission. Contributors receive 50 free copies. Please address all requests for copies and inquiries to George Zug, Division of Amphibians and Reptiles, National Museum of Natural History, Smithsonian Institution, Washington DC 20560 USA. Please include a self-addressed mailing label with requests. INTRODUCTION The present alphabetical listing by author (s) covers all papers bearing on herpetology that have appeared in Volume 1-100, 1882-1987, of the Proceedings of the Biological Society of Washington and the four numbers of the Bulletin series concerning reference to amphibians and reptiles. From Volume 1 through 82 (in part) , the articles were issued as separates with only the volume number, page numbers and year printed on each. Articles in Volume 82 (in part) through 89 were issued with volume number, article number, page numbers and year. -
Proctoporus Bolivianus Werner (Squamata: Gymnophthalmidae) with the Description of Three New Species and Resurrection of Proctoporus Lacertus Stejneger
AMERICAN MUSEUM NOVITATES Number 3786, 32 pp. October 30, 2013 A taxonomic revision of Proctoporus bolivianus Werner (Squamata: Gymnophthalmidae) with the description of three new species and resurrection of Proctoporus lacertus Stejneger NOEMÍ GOICOECHEA,1 JOSÉ M. PADIAL,2 JUAN CARLOS CHapaRRO,3 SANTIagO CasTROVIEJo-FiSHER,4, 5 AND IgnaCIO DE LA RIVA1 ABSTRACT The genus Proctoporus comprises seven montane species distributed across the Central Andes of Peru, Bolivia, and northern Argentina. Within this genus, the extensive morpho- logical variation observed in populations traditionally assigned to Proctoporus bolivianus suggested the presence of additional species. Using a combination of morphological character differences and a phylogenetic hypothesis based on mitochondrial (12S, 16S, and ND4) and nuclear (c-mos) DNA sequences, we find P. bolivianus to be composed of six distinct lineages. Among these, we name and describe herein Proctoporus carabaya, P. iridescens, and P. kiziri- ani and we resurrect the name Proctoporus lacertus. The remaining two lineages are also considered unnamed species and are referred herein as confirmed candidate species (CCS), which we refrain from naming due to lack of appropriate material. The new species named 1 Department of Biodiversity and Evolutionary Biology, Museo Nacional de Ciencias Naturales-CSIC, C/ José Gutiérrez Abascal 2, 28006 Madrid, Spain. 2 Section of Amphibians and Reptiles, Carnegie Museum of Natural History, 4400 Forbes Avenue, Pittsburgh, PA, 15213-4080. 3 Museo de Historia Natural, Universidad Nacional de San Antonio Abad del Cusco, Cusco, Peru. 4 Department of Herpetology, American Museum of Natural History, Central Park West at 79th Street, New York, NY, 10024-5192. 5 Laboratorio de Sistemática de Vertebrados, Pontifícia Universidade Católica do Rio Grande do Sul, Porto Alegre, RS, Brazil. -
Zootaxa,A New Petracola and Re-Description of P. Ventrimaculatus
Zootaxa 1700: 53–62 (2008) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ ZOOTAXA Copyright © 2008 · Magnolia Press ISSN 1175-5334 (online edition) A new Petracola and re-description of P. ventrimaculatus (Squamata: Gymnophthalmidae) DAVID KIZIRIAN1, 2, 3, 7, SARAH BAYEFSKY-ANAND1, 4, 6, 8, APRIL ERIKSSON5, MINH LE1, 10 & MAUREEN A. DONNELLY1, 3, 9 1Herpetology, American Museum of Natural History, 175 Central Park West, New York, NY 10024–5192, USA. 2Department of Ecology and Evolutionary Biology, University of California–Los Angeles, Los Angeles, CA 90095–1606, USA. 3Department of Biological Sciences, Florida International University, Miami, FL 33199, USA. 4Abraham Joshua Heschel High School, 20 West End Avenue, New York, NY 10023–7809, USA. 5Early Entrance Program, California State University–Los Angeles, Los Angeles, CA 90032, USA. 6Harvard University, 1092 Harvard Yard Mail Center, Cambridge, Massachusetts, 02138, USA. E-mail: [email protected], 8 [email protected], [email protected], [email protected] Abstract We describe Petracola waka sp. nov. and re-describe the poorly known P. ventrimaculatus, both high-Andean gymnoph- thalmids from northern Peru. The new species is diagnosed by gracile habitus, smooth dorsal scales, an anterior supercil- iary that extends onto the dorsum, absence of loreal, three genials, 36–49 transverse dorsal scale rows, 23–28 transverse ventral scale rows, 0–7 femoral pores, absence of subocular-labial fusion, and a color pattern consisting of dark spots or fine lines or bands on a pale brown background. Petracola waka is known from the middle Río Marañon and Cajamara- Cajabamba basin (Río Crisnejos drainage) from small isolated syngamic systems at 2650–2900 m and is parapatrically distributed with respect to P. -
Literature Cited in Lizards Natural History Database
Literature Cited in Lizards Natural History database Abdala, C. S., A. S. Quinteros, and R. E. Espinoza. 2008. Two new species of Liolaemus (Iguania: Liolaemidae) from the puna of northwestern Argentina. Herpetologica 64:458-471. Abdala, C. S., D. Baldo, R. A. Juárez, and R. E. Espinoza. 2016. The first parthenogenetic pleurodont Iguanian: a new all-female Liolaemus (Squamata: Liolaemidae) from western Argentina. Copeia 104:487-497. Abdala, C. S., J. C. Acosta, M. R. Cabrera, H. J. Villaviciencio, and J. Marinero. 2009. A new Andean Liolaemus of the L. montanus series (Squamata: Iguania: Liolaemidae) from western Argentina. South American Journal of Herpetology 4:91-102. Abdala, C. S., J. L. Acosta, J. C. Acosta, B. B. Alvarez, F. Arias, L. J. Avila, . S. M. Zalba. 2012. Categorización del estado de conservación de las lagartijas y anfisbenas de la República Argentina. Cuadernos de Herpetologia 26 (Suppl. 1):215-248. Abell, A. J. 1999. Male-female spacing patterns in the lizard, Sceloporus virgatus. Amphibia-Reptilia 20:185-194. Abts, M. L. 1987. Environment and variation in life history traits of the Chuckwalla, Sauromalus obesus. Ecological Monographs 57:215-232. Achaval, F., and A. Olmos. 2003. Anfibios y reptiles del Uruguay. Montevideo, Uruguay: Facultad de Ciencias. Achaval, F., and A. Olmos. 2007. Anfibio y reptiles del Uruguay, 3rd edn. Montevideo, Uruguay: Serie Fauna 1. Ackermann, T. 2006. Schreibers Glatkopfleguan Leiocephalus schreibersii. Munich, Germany: Natur und Tier. Ackley, J. W., P. J. Muelleman, R. E. Carter, R. W. Henderson, and R. Powell. 2009. A rapid assessment of herpetofaunal diversity in variously altered habitats on Dominica. -
Redalyc.Comparative Studies of Supraocular Lepidosis in Squamata
Multequina ISSN: 0327-9375 [email protected] Instituto Argentino de Investigaciones de las Zonas Áridas Argentina Cei, José M. Comparative studies of supraocular lepidosis in squamata (reptilia) and its relationships with an evolutionary taxonomy Multequina, núm. 16, 2007, pp. 1-52 Instituto Argentino de Investigaciones de las Zonas Áridas Mendoza, Argentina Disponible en: http://www.redalyc.org/articulo.oa?id=42801601 Cómo citar el artículo Número completo Sistema de Información Científica Más información del artículo Red de Revistas Científicas de América Latina, el Caribe, España y Portugal Página de la revista en redalyc.org Proyecto académico sin fines de lucro, desarrollado bajo la iniciativa de acceso abierto ISSN 0327-9375 COMPARATIVE STUDIES OF SUPRAOCULAR LEPIDOSIS IN SQUAMATA (REPTILIA) AND ITS RELATIONSHIPS WITH AN EVOLUTIONARY TAXONOMY ESTUDIOS COMPARATIVOS DE LA LEPIDOSIS SUPRA-OCULAR EN SQUAMATA (REPTILIA) Y SU RELACIÓN CON LA TAXONOMÍA EVOLUCIONARIA JOSÉ M. CEI † las subfamilias Leiosaurinae y RESUMEN Enyaliinae. Siempre en Iguania Observaciones morfológicas Pleurodonta se evidencian ejemplos previas sobre un gran número de como los inconfundibles patrones de especies permiten establecer una escamas supraoculares de correspondencia entre la Opluridae, Leucocephalidae, peculiaridad de los patrones Polychrotidae, Tropiduridae. A nivel sistemáticos de las escamas específico la interdependencia en supraoculares de Squamata y la Iguanidae de los géneros Iguana, posición evolutiva de cada taxón Cercosaura, Brachylophus, -
Evolution of Limblessness
Evolution of Limblessness Evolution of Limblessness Early on in life, many people learn that lizards have four limbs whereas snakes have none. This dichotomy not only is inaccurate but also hides an exciting story of repeated evolution that is only now beginning to be understood. In fact, snakes represent only one of many natural evolutionary experiments in lizard limblessness. A similar story is also played out, though to a much smaller extent, in amphibians. The repeated evolution of snakelike tetrapods is one of the most striking examples of parallel evolution in animals. This entry discusses the evolution of limblessness in both reptiles and amphibians, with an emphasis on the living reptiles. Reptiles Based on current evidence (Wiens, Brandley, and Reeder 2006), an elongate, limb-reduced, snakelike morphology has evolved at least twenty-five times in squamates (the group containing lizards and snakes), with snakes representing only one such origin. These origins are scattered across the evolutionary tree of squamates, but they seem especially frequent in certain families. In particular, the skinks (Scincidae) contain at least half of all known origins of snakelike squamates. But many more origins within the skink family will likely be revealed as the branches of their evolutionary tree are fully resolved, given that many genera contain a range of body forms (from fully limbed to limbless) and may include multiple origins of snakelike morphology as yet unknown. These multiple origins of snakelike morphology are superficially similar in having reduced limbs and an elongate body form, but many are surprisingly different in their ecology and morphology. This multitude of snakelike lineages can be divided into two ecomorphs (a are surprisingly different in their ecology and morphology. -
Lizard Diversity in Response to Human-Induced Disturbance in Andean Ecuador
Lizard diversity in response to human-induced disturbance in Andean Ecuador BRYONY A. TOLHURST1, , VANESSA AGUIRRE PEÑAFIEL2, PAOLA MAFLA-ENDARA2, MAUREEN J. BERG¹ , MIKA R. PECK³, AND SIMON T. MADDOCK 4 5 1 Behaviour Biodiversity Ecology and Conservation (BBEC) Research Group, University of Brighton, Cockcroft Building, Lewes Road, Brighton, Sussex, BN2 4GJ, UK. Corresponding author. Email: [email protected] ² Escuela de Ciencias Biológicas, Pontificia Universidad Católica del Ecuador, Quito, Ecuador. ³ School of Life Sciences, University of Sussex, Brighton, UK. 4 Department of Genetics, Evolution & Environment, University College London, UK. 5 Department of Life Sciences, Natural History Museum, London, UK. Abstract. The cloud-forests of the Western Ecuadorean Andes are highly diverse and under threat from anthropogenic habitat disturbance. Reptiles are sensitive to habitat change and are therefore useful indicators of ecosystem state, although effects vary. Overall diversity has been shown to be highest in old-growth (primary) forest however recent studies suggest that older secondary forests can recover to near pre-disturbance levels. We systematically surveyed leaf-litter lizard diversity along a gradient of disturbance in a montane cloud-forest fragment whilst controlling for the potentially confounding effect of elevation. We deployed 21 pitfall trap-lines equally between primary forest, secondary forest of mid-age (18-30 years), and agroforestry, between three altitudinal bands, for ten days each, over a period of three years. 1 We investigated diversity patterns using Chao 1 and 2 indices (estimated richness), effective species number (ESN), relative abundance of individual species, relative abundance of pooled species, and observed species richness. We also conducted an opportunistic inventory of reptile species. -
<I>Alopoglossus Atriventris
HERPETOLOGICAL JOURNAL 17: 269–272, 2007 digenean Mesocoelium monas in Prionodactylus Short Note eigenmanni, also from Brazil. The purpose of this paper is to present an initial helminth list for Alopoglossus angulatus and A. atriventris. Parasite communities of two Nineteen Alopoglossus angulatus (mean snout–vent length [SVL] = 42.1±13.4 mm, range 24–60 mm) and 16 A. lizard species, Alopoglossus atriventris (SVL = 36.9±9.2 mm, range 21–48 mm) were angulatus and Alopoglossus borrowed from the herpetology collection of the Sam No- ble Oklahoma Museum of Natural History (OMNH) and atriventris, from Brazil and examined for helminths. Stomachs from these lizards had previously been removed and were not available for this Ecuador study. Collection localities are as follows. Alopoglossus angulatus: 14 (OMNH 36931–36944) from Acre state, Bra- Stephen R. Goldberg1, Charles R. zil 1996; one (OMNH 37125) from Amazonas state, Brazil Bursey2 & Laurie J. Vitt3 1997; one (OMNH 37337) from Rondônia state, Brazil 1998; three (OMNH 36440–36442) from Sucumbíos prov- 1Department of Biology, Whittier College, California, USA ince, Ecuador 1994. Alopoglossus atriventris: eight 2Department of Biology, Pennsylvania State University, USA (OMNH 36945–36952) from Acre state, Brazil 1996; four 3Sam Noble Oklahoma Museum of Natural History and (OMNH 37126–37129) from Amazonas state, Brazil 1997; Zoology Department, University of Oklahoma, USA two (OMNH 37637–37638) from Amazonas state, Brazil 1998; two (OMNH 36438–36439) from Sucumbíos prov- Alopoglossus angulatus and A. atriventris from Brazil ince, Ecuador 1994. These lizards had originally been fixed and Ecuador were examined for endoparasites. in 10% formalin and stored in 70% ethanol.