Molecular Phylogeny of Neotropical Rock Frogs Reveals a Long History of T Vicariant Diversification in the Atlantic Forest ⁎ Ariadne F
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Amphibians of Santa Teresa, Brazil: the Hotspot Further Evaluated
A peer-reviewed open-access journal ZooKeys 857: 139–162 (2019)Amphibians of Santa Teresa, Brazil: the hotspot further evaluated 139 doi: 10.3897/zookeys.857.30302 RESEARCH ARTICLE http://zookeys.pensoft.net Launched to accelerate biodiversity research Amphibians of Santa Teresa, Brazil: the hotspot further evaluated Rodrigo Barbosa Ferreira1,2, Alexander Tamanini Mônico1,3, Emanuel Teixeira da Silva4,5, Fernanda Cristina Ferreira Lirio1, Cássio Zocca1,3, Marcio Marques Mageski1, João Filipe Riva Tonini6,7, Karen H. Beard2, Charles Duca1, Thiago Silva-Soares3 1Programa de Pós-Graduação em Ecologia de Ecossistemas, Universidade Vila Velha, Campus Boa Vista, 29102-920, Vila Velha, ES, Brazil 2 Department of Wildland Resources and the Ecology Center, Utah State University, Logan, UT, USA 3Instituto Nacional da Mata Atlântica/Museu de Biologia Prof. Mello Leitão, 29650-000, Santa Teresa, ES, Brazil 4 Laboratório de Herpetologia, Departamento de Zoologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Avenida Antônio Carlos, 6627, Pampulha, Belo Horizonte, MG, Brazil 5 Centro de Estudos em Biologia, Centro Universitário de Caratinga, Avenida Niterói, s/n, Bairro Nossa Senhora das Graças, 35300-000, Caratinga, MG, Brazil 6 Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford St, Cambridge, MA, USA 7 Museum of Comparative Zoology, Harvard University, 26 Oxford St, Cambridge, MA, USA Corresponding author: Rodrigo Barbosa Ferreira ([email protected]) Academic editor: A. Crottini | Received 4 October 2018 | Accepted 20 April 2019 | Published 25 June 2019 http://zoobank.org/1923497F-457B-43BA-A852-5B58BEB42CC1 Citation: Ferreira RB, Mônico AT, da Silva ET, Lirio FCF, Zocca C, Mageski MM, Tonini JFR, Beard KH, Duca C, Silva-Soares T (2019) Amphibians of Santa Teresa, Brazil: the hotspot further evaluated. -
Synchrotron Microtomography Applied to the Volumetric Analysis of Internal Structures of Thoropa Miliaris Tadpoles G
www.nature.com/scientificreports OPEN Synchrotron microtomography applied to the volumetric analysis of internal structures of Thoropa miliaris tadpoles G. Fidalgo1*, K. Paiva1, G. Mendes1, R. Barcellos1, G. Colaço2, G. Sena1, A. Pickler1, C. L. Mota1, G. Tromba3, L. P. Nogueira4, D. Braz5, H. R. Silva2, M. V. Colaço1 & R. C. Barroso1 Amphibians are models for studying applied ecological issues such as habitat loss, pollution, disease, and global climate change due to their sensitivity and vulnerability to changes in the environment. Developmental series of amphibians are informative about their biology, and X-ray based 3D reconstruction holds promise for quantifying morphological changes during growth—some with a direct impact on the possibility of an experimental investigation on several of the ecological topics listed above. However, 3D resolution and discrimination of their soft tissues have been difcult with traditional X-ray computed tomography, without time-consuming contrast staining. Tomographic data were initially performed (pre-processing and reconstruction) using the open- source software tool SYRMEP Tomo Project. Data processing and analysis of the reconstructed tomography volumes were conducted using the segmentation semi-automatic settings of the software Avizo Fire 8, which provide information about each investigated tissues, organs or bone elements. Hence, volumetric analyses were carried out to quantify the development of structures in diferent tadpole developmental stages. Our work shows that synchrotron X-ray microtomography using phase-contrast mode resolves the edges of the internal tissues (as well as overall tadpole morphology), facilitating the segmentation of the investigated tissues. Reconstruction algorithms and segmentation software played an important role in the qualitative and quantitative analysis of each target structure of the Thoropa miliaris tadpole at diferent stages of development, providing information on volume, shape and length. -
The IUCN Amphibians Initiative: a Record of the 2001-2008 Amphibian Assessment Efforts for the IUCN Red List
The IUCN Amphibians Initiative: A record of the 2001-2008 amphibian assessment efforts for the IUCN Red List Contents Introduction ..................................................................................................................................... 4 Amphibians on the IUCN Red List - Home Page ................................................................................ 5 Assessment process ......................................................................................................................... 6 Partners ................................................................................................................................................................. 6 The Central Coordinating Team ............................................................................................................................ 6 The IUCN/SSC – CI/CABS Biodiversity Assessment Unit........................................................................................ 6 An Introduction to Amphibians ................................................................................................................................. 7 Assessment methods ................................................................................................................................................ 7 1. Data Collection .................................................................................................................................................. 8 2. Data Review ................................................................................................................................................... -
Evaluating Methods for Phylogenomic Analyses, and a New Phylogeny for a Major Frog Clade
Molecular Phylogenetics and Evolution 119 (2018) 128–143 Contents lists available at ScienceDirect Molecular Phylogenetics and Evolution journal homepage: www.elsevier.com/locate/ympev Evaluating methods for phylogenomic analyses, and a new phylogeny for a MARK major frog clade (Hyloidea) based on 2214 loci ⁎ Jeffrey W. Streichera,b, , Elizabeth C. Millera, Pablo C. Guerreroc,d, Claudio Corread, Juan C. Ortizd, Andrew J. Crawforde, Marcio R. Pief, John J. Wiensa a Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 85721, USA b Department of Life Sciences, The Natural History Museum, London SW7 5BD, UK c Institute of Ecology and Biodiversity, Faculty of Sciences, University of Chile, 780-0024 Santiago, Chile d Facultad de Ciencias Naturales & Oceanográficas, Universidad de Concepción, Concepción, Chile e Department of Biological Sciences, Universidad de los Andes, A.A. 4976 Bogotá, Colombia f Departamento de Zoologia, Universidade Federal do Paraná, Curitiba, Paraná, Brazil ARTICLE INFO ABSTRACT Keywords: Phylogenomic approaches offer a wealth of data, but a bewildering diversity of methodological choices. These Amphibia choices can strongly affect the resulting topologies. Here, we explore two controversial approaches (binning Anura genes into “supergenes” and inclusion of only rapidly evolving sites), using new data from hyloid frogs. Hyloid Biogeography frogs encompass ∼53% of frog species, including true toads (Bufonidae), glassfrogs (Centrolenidae), poison Naive binning frogs (Dendrobatidae), and treefrogs (Hylidae). Many hyloid families are well-established, but relationships Phylogenomics among these families have remained difficult to resolve. We generated a dataset of ultraconserved elements Statistical binning (UCEs) for 50 ingroup species, including 18 of 19 hyloid families and up to 2214 loci spanning > 800,000 aligned base pairs. -
Minelli-Et-Al(Eds)
ZOOTAXA 1950 Updating the Linnaean Heritage: Names as Tools for Thinking about Animals and Plants ALESSANDRO MINELLI, LUCIO BONATO & GIUSEPPE FUSCO (EDS) Magnolia Press Auckland, New Zealand ALESSANDRO MINELLI, LUCIO BONATO & GIUSEPPE FUSCO (EDS) Updating the Linnaean Heritage: Names as Tools for Thinking about Animals and Plants (Zootaxa 1950) 163 pp.; 30 cm. 5 Dec. 2008 ISBN 978-1-86977-297-0 (paperback) ISBN 978-1-86977-298-7 (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) Zootaxa 1950: 3–4 (2008) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ ZOOTAXA Copyright © 2008 · Magnolia Press ISSN 1175-5334 (online edition) Updating the Linnaean Heritage: Names as Tools for Thinking about Animals and Plants ALESSANDRO MINELLI FLS, LUCIO BONATO & GIUSEPPE FUSCO (EDS) Department of Biology, University of Padova, Via Ugo Bassi 58B, I 35131 Padova, Italy Email: [email protected], [email protected], [email protected] Table of contents 4 Preface ALESSANDRO MINELLI FLS, LUCIO BONATO, GIUSEPPE FUSCO (ITALY) 5 Actual usage of biological nomenclature and its implications for data integrators; a national, regional and global perspective CHARLES HUSSEY (UK), YDE DE JONG (THE NETHERLANDS), DAVID REMSEN (DENMARK) 9 The Linnean foundations of zoological and botanical nomenclature OTTO KRAUS (GERMANY) 21 Zoological vs. -
Check List and Authors
ISSN 1809-127X (online edition) www.checklist.org.br Journal of Species Lists and Distribution © 2009 Check List and Authors LISTS OF SPECIES Anurans in bromeliads, Parque Estadual da Serra do Brigadeiro, state of Minas Gerais, southeastern Brazil João Victor Andrade de Lacerda,* Breno de Assis, Diego José Santana, and Renato Neves Feio Universidade Federal de Viçosa, Departamento de Biologia Animal, Museu de Zoologia João Moojen. CEP 36570-000. Viçosa, MG, Brazil. * Corresponding author. E-mail: [email protected] Abstract: This study presents a list of anurans associated to bromeliads in Parque Estadual da Serra do Brigadeiro, state of Minas Gerais, southeastern Brazil. It also brings information regarding the type of association between these anurans and plants. We recorded eight species belonging to five genera and two families, Cycloramphidae and Hylidae. The most abundant species was Scinax gr. perpusillus, followed by Scinax aff. perereca, Dendropsophus minutus, Bokermannohyla circumdata, Hypsiboas faber, Thoropa miliaris, Hypsiboas polytaenius and Dendropsophus elegans. Most species observed occupying bromeliads uses these microhabitats only as diurnal shelter. Scinax gr. perpusillus was the only classified as bromeligenous, depending upon the plants to complete its reproductive cycle. Introduction shelter but its reproductive cycle is not dependent Most species of amphibians have nocturnal habits on the plant while the bromeligenous are strictly and reproduce in the warmer and wet season of dependent on the plant, where they spend the the year, avoiding exposure to diurnal higher entire life cycle. temperatures and lower atmospheric humidity (Duellman and Trueb 1994; Pombal Jr. 1997). This study presents a list of anurans associated to Anurans, in the course of their evolution, bromeliads in the central region of Parque colonized much diversified types of microhabitats Estadual da Serra do Brigadeiro, in (Pertel et al. -
New Populations of Two Threatened Species of Alsodes (Anura
Zoosyst. Evol. 94 (2) 2018, 349–358 | DOI 10.3897/zse.94.25189 New populations of two threatened species of Alsodes (Anura, Alsodidae) reveal the scarce biogeographic knowledge of the genus in the Andes of central Chile Claudio Correa1,*, Paulo Zepeda2, Nicolás Lagos3, Hugo Salinas4, R. Eduardo Palma2, Dayana Vásquez2,* 1 Departamento de Zoología, Facultad de Ciencias Naturales y Oceanográficas, Universidad de Concepción, Barrio Universitario S/N, Concepción, Chile 2 Departamento de Ecología, Facultad de Ciencias Biológicas, Pontificia Universidad Católica de Chile, Alameda 340, Santiago, Chile 3 Alianza Gato Andino, Jenner 152, B° La Quinta, Segunda Sección Villa Carlos Paz, Córdoba, Argentina 4 Ecodiversidad Consultores, Riñihue 1022, Puente Alto, Santiago, Chile http://zoobank.org/D9185A98-A5A3-4B0B-9010-E81BC732E6FA Corresponding author: Claudio Correa ([email protected]) Abstract Received 21 March 2018 High Andean environments of central Chile (32°–38°S) are inhabited by several endemic Accepted 1 June 2018 species of the genus Alsodes. Two of them, A. pehuenche and A. hugoi, have geographic Published 17 July 2018 distributions restricted to their type locality and surroundings. The Chilean government classifies A. pehuenche as Critically Endangered (like the IUCN) and A. hugoi as Vul- Academic editor: nerable. In this study we report 16 new localities of Alsodes, corresponding to first order Peter Bartsch streams, located in the Andes of Chile between 35°58’ and 36°32’S (1800–2470 m). In some of these sites, adults and juveniles morphologically similar to A. pehuenche and Key Words A. hugoi were observed, as well as specimens of Alsodes that could not be identified by their external morphology. -
Geography, Host Genetics, and Cross-Domain Microbial Networks Structure the Skin Microbiome of Fragmented Brazilian Atlantic
Geography, Host Genetics, and Cross-Domain Microbial Networks Structure the Skin Microbiome of Fragmented Brazilian Atlantic Forest Frog Populations Anat Belasen1, Maria Riolo1, Mariana L´ucioLyra2, Felipe Toledo3, and Tim James1 1University of Michigan 2Universidade Estadual Paulista Julio de Mesquita Filho - Campus de Rio Claro 3University of Campinas Institute of Biology May 6, 2020 Abstract The host-associated microbiome plays a significant role in health. However, the roles of factors such as host genetics and microbial interactions in determining microbiome diversity remain unclear. We examined these factors using amplicon-based sequencing of 175 Thoropa taophora frog skin swabs collected from a naturally fragmented landscape in southeastern Brazil. Specifically, we examined (1) the effects of geography and host genetics on microbiome diversity and structure; (2) the structure of microbial eukaryotic and bacterial co-occurrence networks; and (3) co-occurrence between microeukaryotes with bacterial OTUs known to affect growth of the fungal frog pathogen Batrachochytrium dendrobatidis (including anti-Bd bacteria commonly referred to as \antifungal"). Microbiome structure correlated with geographic distance, and microbiome diversity varied with both overall host genetic diversity and diversity at the frog MHC IIB immunity locus. Our network analysis showed the highest connectivity when both eukaryotes and bacteria were included, implying that ecological interactions occur among Domains. Lastly, anti-Bd bacteria did not demonstrate broad negative co-occurrence with fungal OTUs in the microbiome, indicating that these bacteria are unlikely to be broadly antifungal. Our findings emphasize the importance of considering both Domains in microbiome research, and suggest that probiotic strategies for amphibian disease management should be considered with caution. -
Data on Metabolic Rates Across Anurans
Table S3. Species of anurans and outgroups used for the phylogenetic inference and meta-analysis of the metabolic parameters in Anura. Data include accession numbers, metabolic measurements, and references of physiological data. VO2RES VO2RES VO2EX VO2EX (ml/h) Mass (ml/h) Mass (ml/h) Mass (ml/h) Mass Family Genus species 1216S 20°C (g) 25°C (g) 20°C (g) 25°C (g) Ref. Lepidosirenidae Lepidosiren paradoxa NC003342 -- -- -- -- -- -- -- -- Phasianidae Gallus gallus AP003319 -- -- -- -- -- -- -- -- Hominidae Homo sapiens AC000021 -- -- -- -- -- -- -- -- Typhlonectidae Typhlonectes natans NC002471 -- -- -- -- -- -- -- -- Caeciliidae Gegeneophis ramaswamii NC006301 -- -- -- -- -- -- -- -- Rhinatrematidae Rhinatrema bivittatum NC006303 -- -- -- -- -- -- -- -- Hynobiidae Hynobius formosanus NC008084 -- -- -- -- -- -- -- -- Plethodontidae Eurycea bislineata AY728217 -- -- -- -- -- -- -- -- Ambystomatidae Ambystoma mexicanum NC005797 -- -- -- -- -- -- -- -- Alytidae Alytes obstetricans * -- -- -- -- -- -- -- -- Alytidae Discoglossus galganoi NC006690 -- -- -- -- -- -- -- -- Alytidae Discoglossus pictus * 1.142 30.71 -- -- 8.166 30.70 -- -- (1) Arthroleptidae Arthroleptis variabilis DQ283081 -- -- -- -- -- -- -- -- Arthroleptidae Trichobatrachus robustus AY843773 -- -- -- -- -- -- -- -- Batrachophrynidae Caudiverbera caudiverbera DQ283439 -- -- -- -- -- -- -- -- (1) Bombinatoridae Bombina orientalis AY957562 0.149 2.62 0.340 3.79 1.230 2.60 -- -- (2) Brevicipitidae Callulina kreffti AY326068 -- -- -- -- -- -- -- -- Bufonidae Atelopus peruensis AY819329 -
Parasitism of Hylodes Phyllodes (Anura: Cycloramphidae) by Hannemania Sp
Parasitology, Harold W. Manter Laboratory of Faculty Publications from the Harold W. Manter Laboratory of Parasitology University of Nebraska - Lincoln Year 2007 PARASITISM OF HYLODES PHYLLODES (ANURA: CYCLORAMPHIDAE) BY HANNEMANIA SP. (ACARI: TROMBICULIDAE) IN AN AREA OF ATLANTIC FOREST, ILHA GRANDE, SOUTHEASTERN BRAZIL F. H. Hatano∗ Donald Gettingery M. Van Sluysz C. F. D. Rocha∗∗ ∗Universidade do Estado do Rio de Janeiro, [email protected] yUniversity of Central Arkansas, [email protected] zUniversidade do Estado do Rio de Janeiro ∗∗Universidade do Estado do Rio de Janeiro This paper is posted at DigitalCommons@University of Nebraska - Lincoln. http://digitalcommons.unl.edu/parasitologyfacpubs/687 PARASITISM OF HYLODES PHYLLODES (ANURA: CYCLORAMPHIDAE) BY HANNEMANIA SP. (ACARI: TROMBICULIDAE) IN AN AREA OF ATLANTIC FOREST, ILHA GRANDE, SOUTHEASTERN BRAZIL HATANO F.H.*, GETTINGER D.**, VAN SLUYS M.* & ROCHA C.F.D.* Summary: Résumé : PARASITISME D’HYLODES PHYLLODES (ANURA : CYCLORAMPHIDAE) We studied some parameters of the parasitism by the mite PAR HANNEMANIA SP. (ACARI : TROMBICULIDAE) DANS UNE ZONE DE LA Hannemania sp. on the endemic frog Hylodes phyllodes in the FORÊT ATLANTIQUE D’ILHA GRANDE, AU SUD-EST DU BRÉSIL Atlantic Forest of Ilha Grande (Rio de Janeiro State, Brazil). Nous avons étudié quelques paramètres du parasitisme par les Prevalence, mean abundance, mean intensity and total intensity of larves de l’acarien Hannemania sp. sur la grenouille Hylodes infestation, body regions infected, and host sexual differences in phyllodes dans la forêt atlantique d’Ilha Grande (État de Rio de parasitism rate of the larvae of Hannemania sp. on individuals of Janeiro, Brésil). Nous avons évalué la fréquence, l’abondance H. -
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. -
Carlos Henrique Luz Nunes De Almeida Phylogenetic
CARLOS HENRIQUE LUZ NUNES DE ALMEIDA PHYLOGENETIC RECONSTRUCTION BASED ON INTERNAL AND EXTERNAL MORPHOLOGY OF GENUS Thoropa COPE, 1865 (ANURA, CYCLORAMPHIDAE) RECONSTRUÇÃO FILOGENÉTICA COM BASE EM MORFOLOGIA INTERNA E EXTERNA DO GÊNERO Thoropa COPE, 1865 (ANURA, CYCLORAMPHIDAE) CAMPINAS 2015 i ii UNIVERSIDADE ESTADUAL DE CAMPINAS INSTITUTO DE BIOLOGIA CARLOS HENRIQUE LUZ NUNES DE ALMEIDA PHYLOGENETIC RECONSTRUCTION BASED ON INTERNAL AND EXTERNAL MORPHOLOGY OF GENUS Thoropa COPE, 1865 (ANURA, CYCLORAMPHIDAE) RECONSTRUÇÃO FILOGENÉTICA COM BASE EM MORFOLOGIA INTERNA E EXTERNA DO GÊNERO Thoropa COPE, 1865 (ANURA, CYCLORAMPHIDAE) Dissertation presented to the Biology Institute of Universidade Estadual de Campinas as part of the requirements for obtaining the Master title in Animal Biology in Animal Biodiversity Area Dissertação apresentada ao Instituto de Biologia da Universidade Estadual de Campinas como parte dos requisitos exigidos para a obtenção do título Mestre em Biologia Animal, na área de Biodiversidade Animal ORIENTADOR: PROF. DR. LUÍS FELIPE DE TOLEDO RAMOS PEREIRA CO-ORIENTADOR: PROF. DR. RENATO NEVES FEIO ESTE EXEMPLAR CORRESPONDE À VERSÃO FINAL DA DISSERTAÇÃO DEFENDIDA PELO ALUNO CARLOS HENRIQUE LUZ NUNES DE ALMEIDA, E ORIENTADA PELO PROF. DR. LUÍS FELIPE DE TOLEDO RAMOS PEREIRA. _____________________________________________________ CAMPINAS 2015 iii iv v vi RESUMO Os anfíbios da família Cycloramphidae são endêmicos da porção oriental do Brasil e alguns estão ameaçados ou em perigo de extinção. Apesar de ser uma família com poucos grupos taxonômicos, apenas três gêneros (Cycloramphus, Thoropa e Zachaenus), até o momento não há uma proposta filogenética para o gênero Thoropa que abranja todas as espécies. Então, propomos a reconstrução filogenética de Thoropa usando como grupo esterno, uma espécie do gênero Hylodes (Hylodidae), duas do gênero Cycloramphus e uma espécie do gênero Zachaenus.