Atropoides Picadoi Agkistrodon Bilineatus
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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. -
Other Contributions
Other Contributions NATURE NOTES Amphibia: Caudata Ambystoma ordinarium. Predation by a Black-necked Gartersnake (Thamnophis cyrtopsis). The Michoacán Stream Salamander (Ambystoma ordinarium) is a facultatively paedomorphic ambystomatid species. Paedomorphic adults and larvae are found in montane streams, while metamorphic adults are terrestrial, remaining near natal streams (Ruiz-Martínez et al., 2014). Streams inhabited by this species are immersed in pine, pine-oak, and fir for- ests in the central part of the Trans-Mexican Volcanic Belt (Luna-Vega et al., 2007). All known localities where A. ordinarium has been recorded are situated between the vicinity of Lake Patzcuaro in the north-central portion of the state of Michoacan and Tianguistenco in the western part of the state of México (Ruiz-Martínez et al., 2014). This species is considered Endangered by the IUCN (IUCN, 2015), is protected by the government of Mexico, under the category Pr (special protection) (AmphibiaWeb; accessed 1April 2016), and Wilson et al. (2013) scored it at the upper end of the medium vulnerability level. Data available on the life history and biology of A. ordinarium is restricted to the species description (Taylor, 1940), distribution (Shaffer, 1984; Anderson and Worthington, 1971), diet composition (Alvarado-Díaz et al., 2002), phylogeny (Weisrock et al., 2006) and the effect of habitat quality on diet diversity (Ruiz-Martínez et al., 2014). We did not find predation records on this species in the literature, and in this note we present information on a predation attack on an adult neotenic A. ordinarium by a Thamnophis cyrtopsis. On 13 July 2010 at 1300 h, while conducting an ecological study of A. -
Xenosaurus Tzacualtipantecus. the Zacualtipán Knob-Scaled Lizard Is Endemic to the Sierra Madre Oriental of Eastern Mexico
Xenosaurus tzacualtipantecus. The Zacualtipán knob-scaled lizard is endemic to the Sierra Madre Oriental of eastern Mexico. This medium-large lizard (female holotype measures 188 mm in total length) is known only from the vicinity of the type locality in eastern Hidalgo, at an elevation of 1,900 m in pine-oak forest, and a nearby locality at 2,000 m in northern Veracruz (Woolrich- Piña and Smith 2012). Xenosaurus tzacualtipantecus is thought to belong to the northern clade of the genus, which also contains X. newmanorum and X. platyceps (Bhullar 2011). As with its congeners, X. tzacualtipantecus is an inhabitant of crevices in limestone rocks. This species consumes beetles and lepidopteran larvae and gives birth to living young. The habitat of this lizard in the vicinity of the type locality is being deforested, and people in nearby towns have created an open garbage dump in this area. We determined its EVS as 17, in the middle of the high vulnerability category (see text for explanation), and its status by the IUCN and SEMAR- NAT presently are undetermined. This newly described endemic species is one of nine known species in the monogeneric family Xenosauridae, which is endemic to northern Mesoamerica (Mexico from Tamaulipas to Chiapas and into the montane portions of Alta Verapaz, Guatemala). All but one of these nine species is endemic to Mexico. Photo by Christian Berriozabal-Islas. amphibian-reptile-conservation.org 01 June 2013 | Volume 7 | Number 1 | e61 Copyright: © 2013 Wilson et al. This is an open-access article distributed under the terms of the Creative Com- mons Attribution–NonCommercial–NoDerivs 3.0 Unported License, which permits unrestricted use for non-com- Amphibian & Reptile Conservation 7(1): 1–47. -
Historia Natural De Golfito VERDE NATIONAL PARK • José Sancho En El Inbioparque • Árboles De Costa Rica, Vol
Historia natural de Golfi to Costa Rica Jorge Lobo Federico Bolaños Editores científicos 508.728 H673b Historia natural de Golfito – Costa Rica / Editado por Jorge Lobo Segura y Federico Bolaños Vives.- Santo Domingo de Heredia, Costa Rica: Instituto Nacional de Biodiversidad, INBio, 2005 264 p.; ils.; 15x 22,8 cm Incluye fotografías a color ISBN 9968-927-07-4 1. Ciencias naturales. 2. Conservación de los recursos naturales. 3. Biodiversidad (Golfito – Costa Rica). I. Lobo Segura, Jorge, Ed. científico. II. Bolaños Vives, Federico, Ed. científico. III Título Esta publicación se hizo gracias a la colaboración financiera del proyecto Desarrollo del conocimiento y uso sostenible de la biodiversidad en Costa Rica, del Gobierno de los Países Bajos. Gerente editorial: Fabio Rojas Carballo Editora: Diana Ávila Solera Diseño y diagramación: Esteban Ocampo Cubero Revisión científica: Jorge Lobo, Federico Bolaños Primera edición 2005 © Instituto Nacional de Biodiversidad (INBio) Hecho el depósito de ley. Reservados todos los derechos. Prohibida la reproducción total o parcial de este libro. Hecho en Costa Rica por la Editorial INBio Contenido Agradecimientos . 7 Prefacio . 9 Lista de autores participantes . 11 Introducción . 13 Características geográficas de la región de Golfito . 19 Historia de la región de Golfo Dulce . 25 Ecosistemas acuáticos Plancton . 45 Manglares . 55 Los ríos de la cuenca del Golfo Dulce . 67 Diversidad, ecología e importancia de los insectos acuáticos . 81 Plantas Aspectos generales del bosque del Refugio Nacional de Vida Silvestre Golfito . 97 La estructura vertical del bosque de Golfito . 107 Las platanillas del Refugio Nacional de Vida Silvestre Golfito . 119 Insectos Los machos de la libélula Hetaerina en Golfito: ¿por qué pelean tanto? . -
Historia Natural Y Cultural De La Región Del Golfo Dulce, Costa Rica
Natural and Cultural History of the Golfo Dulce Region, Costa Rica Historia natural y cultural de la región del Golfo Dulce, Costa Rica Anton WEISSENHOFER , Werner HUBER , Veronika MAYER , Susanne PAMPERL , Anton WEBER , Gerhard AUBRECHT (scientific editors) Impressum Katalog / Publication: Stapfia 88 , Zugleich Kataloge der Oberösterreichischen Landesmuseen N.S. 80 ISSN: 0252-192X ISBN: 978-3-85474-195-4 Erscheinungsdatum / Date of deliVerY: 9. Oktober 2008 Medieninhaber und Herausgeber / CopYright: Land Oberösterreich, Oberösterreichische Landesmuseen, Museumstr.14, A-4020 LinZ Direktion: Mag. Dr. Peter Assmann Leitung BiologieZentrum: Dr. Gerhard Aubrecht Url: http://WWW.biologieZentrum.at E-Mail: [email protected] In Kooperation mit dem Verein Zur Förderung der Tropenstation La Gamba (WWW.lagamba.at). Wissenschaftliche Redaktion / Scientific editors: Anton Weissenhofer, Werner Huber, Veronika MaYer, Susanne Pamperl, Anton Weber, Gerhard Aubrecht Redaktionsassistent / Assistant editor: FritZ Gusenleitner LaYout, Druckorganisation / LaYout, printing organisation: EVa Rührnößl Druck / Printing: Plöchl-Druck, Werndlstraße 2, 4240 Freistadt, Austria Bestellung / Ordering: http://WWW.biologieZentrum.at/biophp/de/stapfia.php oder / or [email protected] Das Werk einschließlich aller seiner Teile ist urheberrechtlich geschütZt. Jede VerWertung außerhalb der en - gen GrenZen des UrheberrechtsgesetZes ist ohne Zustimmung des Medieninhabers unZulässig und strafbar. Das gilt insbesondere für VerVielfältigungen, ÜbersetZungen, MikroVerfilmungen soWie die Einspeicherung und Verarbeitung in elektronischen SYstemen. Für den Inhalt der Abhandlungen sind die Verfasser Verant - Wortlich. Schriftentausch erWünscht! All rights reserVed. No part of this publication maY be reproduced or transmitted in anY form or bY anY me - ans Without prior permission from the publisher. We are interested in an eXchange of publications. Umschlagfoto / CoVer: Blattschneiderameisen. Photo: AleXander Schneider. -
Real-Time DNA Barcoding in a Remote Rainforest Using Nanopore Sequencing
bioRxiv preprint doi: https://doi.org/10.1101/189159; this version posted September 15, 2017. 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 Real-time DNA barcoding in a remote rainforest using nanopore sequencing 2 3 Aaron Pomerantz1,*, Nicolás Peñafiel2, Alejandro Arteaga3, Lucas Bustamante3, Frank Pichardo3, 4 Luis A. Coloma4, César L. Barrio-Amorós5, David Salazar-Valenzuela2, Stefan Prost 1,6,* 5 6 1 Department of Integrative Biology, University of California, Berkeley, CA, USA 7 2 Centro de Investigación de la Biodiversidad y Cambio Climático (BioCamb) e Ingeniería en 8 Biodiversidad y Recursos Genéticos, Facultad de Ciencias de Medio Ambiente, Universidad 9 Tecnológica Indoamérica, Machala y Sabanilla, Quito, Ecuador 10 3 Tropical Herping, Quito, Ecuador 11 4 Centro Jambatu de Investigación y Conservación de Anfibios, Fundación Otonga, Quito, 12 Ecuador 13 5 Doc Frog Expeditions, Uvita, Costa Rica 14 6 Program for Conservation Genomics, Department of Biology, Stanford University, Stanford, CA, 15 USA 16 17 * Corresponding authors: [email protected] (A. Pomerantz) and 18 [email protected] (S. Prost) 19 20 Abstract 21 Advancements in portable scientific instruments provide promising avenues to expedite 22 field work in order to understand the diverse array of organisms that inhabit our planet. 23 Here we tested the feasibility for in situ molecular analyses of endemic fauna using a 24 portable laboratory fitting within a single backpack, in one of the world’s most imperiled 25 biodiversity hotspots: the Ecuadorian Chocó rainforest. -
Venom Characterization of the Three Species of Ophryacus and Proteomic Profiling of O. Sphenophrys Unveils Sphenotoxin, a Novel
Journal of Proteomics xxx (xxxx) xxx–xxx Contents lists available at ScienceDirect Journal of Proteomics journal homepage: www.elsevier.com/locate/jprot Venom characterization of the three species of Ophryacus and proteomic profiling of O. sphenophrys unveils Sphenotoxin, a novel Crotoxin-like heterodimeric β-neurotoxin Edgar Neri-Castroa,b, Bruno Lomontec, Mariel Valdésa,d, Roberto Ponce-Lópeza, Melisa Bénard-Vallea, Miguel Borjae, Jason L. Stricklandf, Jason M. Jonesg, Christoph Grünwaldg, ⁎ Fernando Zamudioa, Alejandro Alagóna, a Instituto de Biotecnología, Universidad Nacional Autónoma de México, Av. Universidad 2001, Colonia Chamilpa, Cuernavaca, Morelos 62210, México b Programa de Doctorado en Ciencias Biomédicas UNAM, México. c Instituto Clodomiro Picado, Facultad de Microbiología, Universidad de Costa Rica, San José 11501, Costa Rica d Laboratorio de Genética, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, 07738, México e Facultad de Ciencias Biológicas, Universidad Juárez del Estado de Durango, Av. Universidad s/n. Fracc. Filadelfia, Gómez Palacio C.P. 35010, México. f Department of Biology, University of Central Florida, 4000 Central Florida Blvd, Orlando, FL 32816, USA. g Herp.mx A.C., Villa del Álvarez, Colima, México ABSTRACT Venoms of the three species of Ophryacus (O. sphenophrys, O. smaragdinus, and O. undulatus), a viperid genus endemic to Mexico, were analyzed for the first time in the present work. The three venoms lacked procoagulant activity on human plasma, but induced hemorrhage and were highly lethal to mice. These venoms also displayed proteolytic and phospholipase A2 activities in vitro. The venom of O. sphenophrys was the most lethal and caused hind-limb paralysis in mice. Proteomic profiling of O. -
New Observations on Diet of the South American Two-Striped Forest-Pitviper Bothrops Bilineatus Smaragdinus (Hoge, 1966)
CORE Metadata, citation and similar papers at core.ac.uk Provided by Servicio de Difusión de la Creación Intelectual Nota Cuad. herpetol. 33(1): 29-31 (2019) New observations on diet of the South American two-striped forest-pitviper Bothrops bilineatus smaragdinus (Hoge, 1966) Pablo J. Venegas1, Juan C. Chávez-Arribasplata1, Eduardo Almora1, Pablo Grilli2, Vilma Duran1 1 Centro de Ornitología y Biodiversidad (CORBIDI). Calle Santa Rita 105, Urb. Los Huertos de San Antonio, Surco, Lima 33, Perú. 2 Cátedra de Ecología General y Recursos Naturales, Universidad Nacional Arturo Jauretche. Av. Calchaquí 6299, Florencio Varela (CP 1888) Provincia de Buenos Aires, Argentina. Recibida: 14 Noviembre 2017 ABSTRACT Revisada: 28 Febrero 2018 The arboreal, nocturnal and widely distributed snake Bothrops bilineatus smaragdinus (Squamata, Aceptada: 29 Enero 2019 Viperidae) is known as a generalist whose diet items have rarely been identified to species level. Editor Asociado: J. Goldberg In this work we report three new items for its diet: an adult frog Dendropsophus marmoratus (Anura, Hylidae), an adult lizard Thecadactylus solimoensis (Squamata, Phyllodactylidae), and an adult bat Carollia brevicauda (Chiroptera, Phyllostomidae), the latter being the first record doi: 10.31017/CdH.2019.(2017-031) of predation of a Chiropteran by this species. Key Words: Anurophagy; Carollia brevicauda; Dendropsophus marmoratus; Diet; Thecadactylus solimoensis; Saurophagy. The venomous snake, Bothrops bilineatus smarag- marmoratus (Laurenti, 1768) at 1.4 m above the dinus (Hoge, 1966), is widely distributed across the ground on a branch at Cashiriari (11°51’53.4” S; western side of the Amazon basin, encompassing 72°46’45.4” W, 588 m a.s.l.), La Convención, Cusco Amazonian Colombia and southern Venezuela, department, Peru. -
Xenosaurus Tzacualtipantecus. the Zacualtipán Knob-Scaled Lizard Is Endemic to the Sierra Madre Oriental of Eastern Mexico
Xenosaurus tzacualtipantecus. The Zacualtipán knob-scaled lizard is endemic to the Sierra Madre Oriental of eastern Mexico. This medium-large lizard (female holotype measures 188 mm in total length) is known only from the vicinity of the type locality in eastern Hidalgo, at an elevation of 1,900 m in pine-oak forest, and a nearby locality at 2,000 m in northern Veracruz (Woolrich- Piña and Smith 2012). Xenosaurus tzacualtipantecus is thought to belong to the northern clade of the genus, which also contains X. newmanorum and X. platyceps (Bhullar 2011). As with its congeners, X. tzacualtipantecus is an inhabitant of crevices in limestone rocks. This species consumes beetles and lepidopteran larvae and gives birth to living young. The habitat of this lizard in the vicinity of the type locality is being deforested, and people in nearby towns have created an open garbage dump in this area. We determined its EVS as 17, in the middle of the high vulnerability category (see text for explanation), and its status by the IUCN and SEMAR- NAT presently are undetermined. This newly described endemic species is one of nine known species in the monogeneric family Xenosauridae, which is endemic to northern Mesoamerica (Mexico from Tamaulipas to Chiapas and into the montane portions of Alta Verapaz, Guatemala). All but one of these nine species is endemic to Mexico. Photo by Christian Berriozabal-Islas. Amphib. Reptile Conserv. | http://redlist-ARC.org 01 June 2013 | Volume 7 | Number 1 | e61 Copyright: © 2013 Wilson et al. This is an open-access article distributed under the terms of the Creative Com- mons Attribution–NonCommercial–NoDerivs 3.0 Unported License, which permits unrestricted use for non-com- Amphibian & Reptile Conservation 7(1): 1–47. -
Crocodylus Moreletii
ANFIBIOS Y REPTILES: DIVERSIDAD E HISTORIA NATURAL VOLUMEN 03 NÚMERO 02 NOVIEMBRE 2020 ISSN: 2594-2158 Es un publicación de la CONSEJO DIRECTIVO 2019-2021 COMITÉ EDITORIAL Presidente Editor-en-Jefe Dr. Hibraim Adán Pérez Mendoza Dra. Leticia M. Ochoa Ochoa Universidad Nacional Autónoma de México Senior Editors Vicepresidente Dr. Marcio Martins (Artigos em português) Dr. Óscar A. Flores Villela Dr. Sean M. Rovito (English papers) Universidad Nacional Autónoma de México Editores asociados Secretario Dr. Uri Omar García Vázquez Dra. Ana Bertha Gatica Colima Dr. Armando H. Escobedo-Galván Universidad Autónoma de Ciudad Juárez Dr. Oscar A. Flores Villela Dra. Irene Goyenechea Mayer Goyenechea Tesorero Dr. Rafael Lara Rezéndiz Dra. Anny Peralta García Dr. Norberto Martínez Méndez Conservación de Fauna del Noroeste Dra. Nancy R. Mejía Domínguez Dr. Jorge E. Morales Mavil Vocal Norte Dr. Hibraim A. Pérez Mendoza Dr. Juan Miguel Borja Jiménez Dr. Jacobo Reyes Velasco Universidad Juárez del Estado de Durango Dr. César A. Ríos Muñoz Dr. Marco A. Suárez Atilano Vocal Centro Dra. Ireri Suazo Ortuño M. en C. Ricardo Figueroa Huitrón Dr. Julián Velasco Vinasco Universidad Nacional Autónoma de México M. en C. Marco Antonio López Luna Dr. Adrián García Rodríguez Vocal Sur M. en C. Marco Antonio López Luna Universidad Juárez Autónoma de Tabasco English style corrector PhD candidate Brett Butler Diseño editorial Lic. Andrea Vargas Fernández M. en A. Rafael de Villa Magallón http://herpetologia.fciencias.unam.mx/index.php/revista NOTAS CIENTÍFICAS SKIN TEXTURE CHANGE IN DIASPORUS HYLAEFORMIS (ANURA: ELEUTHERODACTYLIDAE) ..................... 95 CONTENIDO Juan G. Abarca-Alvarado NOTES OF DIET IN HIGHLAND SNAKES RHADINAEA EDITORIAL CALLIGASTER AND RHADINELLA GODMANI (SQUAMATA:DIPSADIDAE) FROM COSTA RICA ..... -
A New Species of Arboreal Pitviper from the Atlantic Versant of Northern Central America
Rev. Biol. Trop., 48(4): 1001-1013, 2000 www.ucr.ac.cr www.ots.ac.cr www.ots.duke.edu A new species of arboreal pitviper from the Atlantic versant of northern Central America Jonathan A. Campbell1 and Eric N. Smith1 1 Department of Biology, The University of Texas at Arlington, Arlington, TX 76010, USA. Fax 817-272-2406. e- mail (JAC) [email protected], (ENS) [email protected] Received 9-II-2000. Corrected 14-VI-2000. Accepted 16-VI-2000. Abstract: A new species of green, prehensile-tailed pitviper of the genus Bothriechis is described from the Atlantic slopes of eastern Guatemala and western Honduras. This species appears to be most closely related to B. bicolor of the Pacific versant of Chiapas (Mexico) and Guatemala. Several other species of Bothriechis occur on the Atlantic versant of northern Central America, including two montane species, B. aurifer and B. marchi but, with one possible exception, these are not known to be sympatric with the new species and occur in differ- ent mountain ranges. The widespread B. schlegelii occurs up to at least 900 m on the Sierra de Caral, where the lowest elevation recorded for the new species is 885 m. Key words: Reptilia, Squamata, Viperidae, Pitvipers, Bothriechis, New species, Izabal, Guatemala, Honduras. Species of the arboreal pitviper genus pitvipers that are usually mostly greenish in Bothriechis range from the highlands immedi- color, have the middle preocular and suprala- ately east of the Isthmus of Tehuantepec to cunal coalesced into a single scale, and have western Panama, with one species extending an exceptionally short tail spine that is usual- into northern South America (Crother et al. -
Envenomation Caused by the Bite of the Snake Bothriechis Schlegelii. Report of Two Cases in Colombia
Case Reports 2017; 3(1) https://revistas.unal.edu.co/index.php/care/article/view/58625 ENVENOMATION CAUSED BY THE BITE OF THE SNAKE BOTHRIECHIS SCHLEGELII. REPORT OF TWO CASES IN COLOMBIA Palabras clave: Bothriechis schlegelii; Mordeduras de serpientes; Coagulación sanguínea; Colombia. Keywords: Bothriechis schlegelii; Snake bites; Blood coagulation; Colombia. Mario Galofre-Ruiz, MD, MSc Tox Centro de Información de Seguridad sobre Productos Químicos CISPROQUIM Consejo Colombiano de Seguridad Bogotá D.C. – Colombia Corresponding author [email protected] Phone number.: (057)3157261026 CASE REPORTS ABSTRACT brown and black), helps it mimic its surround- ings. It has prehensile tail, and from two to four The bite by snakes of the Bothriechis genus is small superciliar scales, in the way of “eye- common in certain areas of Colombia such as lashes”. It feeds on baby birds, lizards, frogs the Coffee-growing Region. Due to their arbo- and rodents, inhabits tropical forests and corn real habits and defensiveness, these snakes and coffee crops, at altitudes ranging from 0 usually bite farmers in their upper limbs and to 2600 m; the viper reaches the highest alti- face. In Colombia, the incidence of accidents tude in Colombia (2,3). caused by these snakes has not been accu- In the regions in which it inhabits, it is also rately estimated yet because of deficiencies in known as cabeza de candado, granadilla, ví- recording this type of cases, as well as of the bora de tierra fría, víbora de pestañas, ya- ignorance on this reptile by health personnel ruma, veinticuatro, guacamaya, víbora rayo, working in its area of influence.