The Postcranial Skeleton of the Family Limnoscelidae and Its Taxonomic Implications for Understanding Basal Amniotes
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Distributions of Extinction Times from Fossil Ages and Tree Topologies: the Example of Some Mid-Permian Synapsid Extinctions Gilles Didier, Michel Laurin
Distributions of extinction times from fossil ages and tree topologies: the example of some mid-Permian synapsid extinctions Gilles Didier, Michel Laurin To cite this version: Gilles Didier, Michel Laurin. Distributions of extinction times from fossil ages and tree topologies: the example of some mid-Permian synapsid extinctions. 2021. hal-03258099v2 HAL Id: hal-03258099 https://hal.archives-ouvertes.fr/hal-03258099v2 Preprint submitted on 20 Sep 2021 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Distributions of extinction times from fossil ages and tree topologies: the example of some mid-Permian synapsid extinctions Gilles Didier1 and Michel Laurin2 1 IMAG, Univ Montpellier, CNRS, Montpellier, France 2 CR2P (\Centre de Pal´eontologie { Paris"; UMR 7207), CNRS/MNHN/SU, Mus´eumNational d'Histoire Naturelle, Paris, France September 16, 2021 Abstract Given a phylogenetic tree that includes only extinct, or a mix of extinct and extant taxa, where at least some fossil data are available, we present a method to compute the distribution of the extinction time of a given set of taxa under the Fossilized-Birth-Death model. Our approach differs from the previous ones in that it takes into account (i) the possibility that the taxa or the clade considered may diversify before going extinct and (ii) the whole phylogenetic tree to estimate extinction times, whilst previous methods do not consider the diversification process and deal with each branch independently. -
Amphibians 1) Transition to Land A) Life on Terrestrial Earth Is a Major
Amphibians 1) Transition to land a) Life on terrestrial earth is a major theme for all non-fish vertebrates also known as Tetrapoda b) Of Tetrapoda there are two major groups Amphibians and amniotes c) The movement form water to land is one of the most complicated and dramatic events of the evolution of animals i) Land is physically hazardous for an animal that evolved in water, is made mostly of water, and all cellular activities occur in water. ii) Plants, snails, and many arthropods made the transition before vertebrates, which provided a plentiful food source. iii) With the transition to land, vertebrates had to adapt every organ system. d) Oxygen on land i) Atmospheric air contains 20 times more oxygen than water and diffuses more rapidly through air than water. ii) By the Devonian period (400+ million years ago) fish had diversified greatly. Some of these adaptations became useful for a terrestrial life (1) Fish had evolved an air sack within their body called a swim bladder. This would allow a space for gas exchange between an organism and air (a) These early fishes were most likely freshwater. Freshwater systems are more likely to evaporate or deoxygenate compares to salt water habitats. So having a vascularized swim bladder or lung would be beneficial. (b) To this day scientist still debate heavily on whether the swim bladder evolved for buoyancy control or lung first. (2) Fish also had evolved external nares for chemoreception. In a terrestrial environment these nares can be used to draw in air to the swim bladder/lung (3) Both of these structures show great examples of evolution utilizing existing structures to turn into something new and more adapted e) However both of the characteristics are shared among fishes and tetrapods, the big shift came in the bone structure of the limbs. -
Reptiles A. Cladistics 1. Many Groups of Organisms
Reptiles A. Cladistics 1. Many groups of organisms are “polyphyletic” a. This means that the group combines 2 or more lineages - example=fish 2. Cladistics follows only pure lineages going back in time - example Osteichthys B. Reptile Classifiecation - looks like a polyphyletic group 1. Dry skin - no loss of water through skin like amphibians 2. Aminotic egg - an egg that can survive on dry land - in contrast with the amphibian egg C. Mammals and Birds are derived from different lineages of reptiles (We will see below) D. Stem Reptiles 1. Different lineages based on the temporal region of their skulls - number of holes (or bars) a. These holes are necessary to accommodate large jaw muscles b. Anapsid Skull - no holes in temporal - jaws can move fast, but with little force 1. Muscles that move the jaw are small 2. There is no good paleotological evidence for the transition between amphibians and reptiles - no fossil intermediates a. Fossil amphibians have lots of dermal bones in skull b. Amphibians have no temporal openings in skull 1. (Aside) both fossil amphibians and primitive reptiles have a parietal “eye” that senses light and dark (“third” eye in middle of head) c. Reptile skull is higher than amphibian to accomodate larger jaw muscles d. Of the modern reptiles only turtles are anapsids 2. Diapsid Skull - has holes in the temporal region a. Diapsid reptiles gave rise to lizards and snakes - they have a diapsid skull 1. Also Tuatara, crocodiles, dinosaurs and pterydactyls Reptiles b. One group of diapsids also had a pre-orbital hole in the skull in front of eye - this hole is still preserved in the birds - this anatomy suggests strongly that the birds are derived from the diapsid reptiles 3. -
Morphology, Phylogeny, and Evolution of Diadectidae (Cotylosauria: Diadectomorpha)
Morphology, Phylogeny, and Evolution of Diadectidae (Cotylosauria: Diadectomorpha) by Richard Kissel A thesis submitted in conformity with the requirements for the degree of doctor of philosophy Graduate Department of Ecology & Evolutionary Biology University of Toronto © Copyright by Richard Kissel 2010 Morphology, Phylogeny, and Evolution of Diadectidae (Cotylosauria: Diadectomorpha) Richard Kissel Doctor of Philosophy Graduate Department of Ecology & Evolutionary Biology University of Toronto 2010 Abstract Based on dental, cranial, and postcranial anatomy, members of the Permo-Carboniferous clade Diadectidae are generally regarded as the earliest tetrapods capable of processing high-fiber plant material; presented here is a review of diadectid morphology, phylogeny, taxonomy, and paleozoogeography. Phylogenetic analyses support the monophyly of Diadectidae within Diadectomorpha, the sister-group to Amniota, with Limnoscelis as the sister-taxon to Tseajaia + Diadectidae. Analysis of diadectid interrelationships of all known taxa for which adequate specimens and information are known—the first of its kind conducted—positions Ambedus pusillus as the sister-taxon to all other forms, with Diadectes sanmiguelensis, Orobates pabsti, Desmatodon hesperis, Diadectes absitus, and (Diadectes sideropelicus + Diadectes tenuitectes + Diasparactus zenos) representing progressively more derived taxa in a series of nested clades. In light of these results, it is recommended herein that the species Diadectes sanmiguelensis be referred to the new genus -
Distributions of Extinction Times from Fossil Ages and Tree Topologies: the Example of Some Mid-Permian Synapsid Extinctions
bioRxiv preprint doi: https://doi.org/10.1101/2021.06.11.448028; this version posted June 11, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Distributions of extinction times from fossil ages and tree topologies: the example of some mid-Permian synapsid extinctions Gilles Didier1 and Michel Laurin2 1IMAG, Univ Montpellier, CNRS, Montpellier, France 2CR2P (“Centre de Recherches sur la Paléobiodiversité et les Paléoenvironnements”; UMR 7207), CNRS/MNHN/UPMC, Sorbonne Université, Muséum National d’Histoire Naturelle, Paris, France June 11, 2021 Abstract Given a phylogenetic tree of extinct and extant taxa with fossils where the only temporal infor- mation stands in the fossil ages, we devise a method to compute the distribution of the extinction time of a given set of taxa under the Fossilized-Birth-Death model. Our approach differs from the previous ones in that it takes into account the possibility that the taxa or the clade considered may diversify before going extinct, whilst previous methods just rely on the fossil recovery rate to estimate confidence intervals. We assess and compare our new approach with a standard previous one using simulated data. Results show that our method provides more accurate confidence intervals. This new approach is applied to the study of the extinction time of three Permo-Carboniferous synapsid taxa (Ophiacodontidae, Edaphosauridae, and Sphenacodontidae) that are thought to have disappeared toward the end of the Cisuralian, or possibly shortly thereafter. The timing of extinctions of these three taxa and of their component lineages supports the idea that a biological crisis occurred in the late Kungurian/early Roadian. -
The Global Distribution of Tetrapods Reveals a Need for Targeted Reptile
1 The global distribution of tetrapods reveals a need for targeted reptile 2 conservation 3 4 Uri Roll#1,2, Anat Feldman#3, Maria Novosolov#3, Allen Allison4, Aaron M. Bauer5, Rodolphe 5 Bernard6, Monika Böhm7, Fernando Castro-Herrera8, Laurent Chirio9, Ben Collen10, Guarino R. 6 Colli11, Lital Dabool12 Indraneil Das13, Tiffany M. Doan14, Lee L. Grismer15, Marinus 7 Hoogmoed16, Yuval Itescu3, Fred Kraus17, Matthew LeBreton18, Amir Lewin3, Marcio Martins19, 8 Erez Maza3, Danny Meirte20, Zoltán T. Nagy21, Cristiano de C. Nogueira19, Olivier S.G. 9 Pauwels22, Daniel Pincheira-Donoso23, Gary Powney24, Roberto Sindaco25, Oliver Tallowin3, 10 Omar Torres-Carvajal26, Jean-François Trape27, Enav Vidan3, Peter Uetz28, Philipp Wagner5,29, 11 Yuezhao Wang30, C David L Orme6, Richard Grenyer✝1 and Shai Meiri✝*3 12 13 # Contributed equally to the paper 14 ✝ Contributed equally to the paper 15 * Corresponding author 16 17 Affiliations: 18 1 School of Geography and the Environment, University of Oxford, Oxford, OX13QY, UK. 19 2 Mitrani Department of Desert Ecology, The Jacob Blaustein Institutes for Desert Research, 20 Ben-Gurion University, Midreshet Ben-Gurion 8499000, Israel. (Current address) 21 3 Department of Zoology, Tel-Aviv University, Tel-Aviv 6997801, Israel. 22 4 Hawaii Biological Survey, 4 Bishop Museum, Honolulu, HI 96817, USA. 23 5 Department of Biology, Villanova University, Villanova, PA 19085, USA. 24 6 Department of Life Sciences, Imperial College London, Silwood Park Campus Silwood Park, 25 Ascot, Berkshire, SL5 7PY, UK 26 7 Institute of Zoology, Zoological Society of London, London NW1 4RY, UK. 27 8 School of Basic Sciences, Physiology Sciences Department, Universidad del Valle, Colombia. -
Early Tetrapod Relationships Revisited
Biol. Rev. (2003), 78, pp. 251–345. f Cambridge Philosophical Society 251 DOI: 10.1017/S1464793102006103 Printed in the United Kingdom Early tetrapod relationships revisited MARCELLO RUTA1*, MICHAEL I. COATES1 and DONALD L. J. QUICKE2 1 The Department of Organismal Biology and Anatomy, The University of Chicago, 1027 East 57th Street, Chicago, IL 60637-1508, USA ([email protected]; [email protected]) 2 Department of Biology, Imperial College at Silwood Park, Ascot, Berkshire SL57PY, UK and Department of Entomology, The Natural History Museum, Cromwell Road, London SW75BD, UK ([email protected]) (Received 29 November 2001; revised 28 August 2002; accepted 2 September 2002) ABSTRACT In an attempt to investigate differences between the most widely discussed hypotheses of early tetrapod relation- ships, we assembled a new data matrix including 90 taxa coded for 319 cranial and postcranial characters. We have incorporated, where possible, original observations of numerous taxa spread throughout the major tetrapod clades. A stem-based (total-group) definition of Tetrapoda is preferred over apomorphy- and node-based (crown-group) definitions. This definition is operational, since it is based on a formal character analysis. A PAUP* search using a recently implemented version of the parsimony ratchet method yields 64 shortest trees. Differ- ences between these trees concern: (1) the internal relationships of aı¨stopods, the three selected species of which form a trichotomy; (2) the internal relationships of embolomeres, with Archeria -
Marine Reptiles Arne R
Virginia Commonwealth University VCU Scholars Compass Study of Biological Complexity Publications Center for the Study of Biological Complexity 2011 Marine Reptiles Arne R. Rasmessen The Royal Danish Academy of Fine Arts John D. Murphy Field Museum of Natural History Medy Ompi Sam Ratulangi University J. Whitfield iG bbons University of Georgia Peter Uetz Virginia Commonwealth University, [email protected] Follow this and additional works at: http://scholarscompass.vcu.edu/csbc_pubs Part of the Life Sciences Commons Copyright: © 2011 Rasmussen et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Downloaded from http://scholarscompass.vcu.edu/csbc_pubs/20 This Article is brought to you for free and open access by the Center for the Study of Biological Complexity at VCU Scholars Compass. It has been accepted for inclusion in Study of Biological Complexity Publications by an authorized administrator of VCU Scholars Compass. For more information, please contact [email protected]. Review Marine Reptiles Arne Redsted Rasmussen1, John C. Murphy2, Medy Ompi3, J. Whitfield Gibbons4, Peter Uetz5* 1 School of Conservation, The Royal Danish Academy of Fine Arts, Copenhagen, Denmark, 2 Division of Amphibians and Reptiles, Field Museum of Natural History, Chicago, Illinois, United States of America, 3 Marine Biology Laboratory, Faculty of Fisheries and Marine Sciences, Sam Ratulangi University, Manado, North Sulawesi, Indonesia, 4 Savannah River Ecology Lab, University of Georgia, Aiken, South Carolina, United States of America, 5 Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond, Virginia, United States of America Of the more than 12,000 species and subspecies of extant Caribbean, although some species occasionally travel as far north reptiles, about 100 have re-entered the ocean. -
Curriculum Vitae
CURRICULUM VITAE AMY C. HENRICI Collection Manager Section of Vertebrate Paleontology Carnegie Museum of Natural History 4400 Forbes Avenue Pittsburgh, Pennsylvania 15213-4080, USA Phone:(412)622-1915 Email: [email protected] BACKGROUND Birthdate: 24 September 1957. Birthplace: Pittsburgh. Citizenship: USA. EDUCATION B.A. 1979, Hiram College, Ohio (Biology) M.S. 1989, University of Pittsburgh, Pennsylvania (Geology) CAREER Carnegie Museum of Natural History (CMNH) Laboratory Technician, Section of Vertebrate Paleontology, 1979 Research Assistant, Section of Vertebrate Paleontology, 1980 Curatorial Assistant, Section of Vertebrate Paleontology, 1980-1984 Scientific Preparator, Section of Paleobotany, 1985-1986 Scientific Preparator, Section of Vertebrate Paleontology, 1985-2002 Acting Collection Manager/Scientific Preparator, 2003-2004 Collection Manager, 2005-present PALEONTOLOGICAL FIELD EXPERIENCE Late Pennsylvanian through Early Permian of Colorado, New Mexico and Utah (fish, amphibians and reptiles) Early Permian of Germany, Bromacker quarry (amphibians and reptiles) Triassic of New Mexico, Coelophysis quarry (Coelophysis and other reptiles) Upper Jurassic of Colorado (mammals and herps) Tertiary of Montana, Nevada, and Wyoming (mammals and herps) Pleistocene of West Virginia (mammals and herps) Lake sediment cores and lake sediment surface samples, Wyoming (pollen and seeds) PROFESSIONAL APPOINTMENTS Associate Editor, Society of Vertebrate Paleontology, 1998-2000. Research Associate in the Science Division, New Mexico Museum of Natural History and Science, 2007-present. PROFESSIONAL ASSOCIATIONS Society of Vertebrate Paleontology Paleontological Society LECTURES and TUTORIALS (Invited and public) 1994. Middle Eocene frogs from central Wyoming: ontogeny and taphonomy. California State University, San Bernardino 1994. Mechanical preparation of vertebrate fossils. California State University, San Bernardino 1994. Mechanical preparation of vertebrate fossils. University of Chicago 2001. -
Physical and Environmental Drivers of Paleozoic Tetrapod Dispersal Across Pangaea
ARTICLE https://doi.org/10.1038/s41467-018-07623-x OPEN Physical and environmental drivers of Paleozoic tetrapod dispersal across Pangaea Neil Brocklehurst1,2, Emma M. Dunne3, Daniel D. Cashmore3 &Jӧrg Frӧbisch2,4 The Carboniferous and Permian were crucial intervals in the establishment of terrestrial ecosystems, which occurred alongside substantial environmental and climate changes throughout the globe, as well as the final assembly of the supercontinent of Pangaea. The fl 1234567890():,; in uence of these changes on tetrapod biogeography is highly contentious, with some authors suggesting a cosmopolitan fauna resulting from a lack of barriers, and some iden- tifying provincialism. Here we carry out a detailed historical biogeographic analysis of late Paleozoic tetrapods to study the patterns of dispersal and vicariance. A likelihood-based approach to infer ancestral areas is combined with stochastic mapping to assess rates of vicariance and dispersal. Both the late Carboniferous and the end-Guadalupian are char- acterised by a decrease in dispersal and a vicariance peak in amniotes and amphibians. The first of these shifts is attributed to orogenic activity, the second to increasing climate heterogeneity. 1 Department of Earth Sciences, University of Oxford, South Parks Road, Oxford OX1 3AN, UK. 2 Museum für Naturkunde, Leibniz-Institut für Evolutions- und Biodiversitätsforschung, Invalidenstraße 43, 10115 Berlin, Germany. 3 School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham B15 2TT, UK. 4 Institut -
Tracing the Evolution of Amniote Chromosomes
Chromosoma (2014) 123:201–216 DOI 10.1007/s00412-014-0456-y REVIEW Tracing the evolution of amniote chromosomes Janine E. Deakin & Tariq Ezaz Received: 20 December 2013 /Revised: 3 March 2014 /Accepted: 4 March 2014 /Published online: 25 March 2014 # The Author(s) 2014. This article is published with open access at Springerlink.com Abstract A great deal of diversity in chromosome number birds and non-avian reptiles presents an opportunity to study and arrangement is observed across the amniote phylogeny. chromosome evolution to determine the timing and types of Understanding how this diversity is generated is important for events that shaped the chromosomes of extant amniote spe- determining the role of chromosomal rearrangements in gen- cies. This involves comparing chromosomes of different spe- erating phenotypic variation and speciation. Gaining this un- cies to reconstruct the most likely chromosome arrangement derstanding is achieved by reconstructing the ancestral ge- in a common ancestor. Tracing such events can provided great nome arrangement based on comparisons of genome organi- insight into the evolutionary process and even the role chro- zation of extant species. Ancestral karyotypes for several mosomal rearrangements play in phenotypic evolution and amniote lineages have been reconstructed, mainly from speciation. cross-species chromosome painting data. The availability of Reconstruction of ancestral karyotypes at various positions anchored whole genome sequences for amniote species has along the amniote (reptiles, birds and mammals) phylogenetic increased the evolutionary depth and confidence of ancestral tree has been made possible by the large number of cross- reconstructions from those made solely from chromosome species chromosome painting and gene mapping studies that painting data. -
The Vertebrate Fauna of the New Mexico Permian Alfred S
New Mexico Geological Society Downloaded from: http://nmgs.nmt.edu/publications/guidebooks/11 The vertebrate fauna of the New Mexico Permian Alfred S. Romer, 1960, pp. 48-54 in: Rio Chama Country, Beaumont, E. C.; Read, C. B.; [eds.], New Mexico Geological Society 11th Annual Fall Field Conference Guidebook, 129 p. This is one of many related papers that were included in the 1960 NMGS Fall Field Conference Guidebook. Annual NMGS Fall Field Conference Guidebooks Every fall since 1950, the New Mexico Geological Society (NMGS) has held an annual Fall Field Conference that explores some region of New Mexico (or surrounding states). Always well attended, these conferences provide a guidebook to participants. Besides detailed road logs, the guidebooks contain many well written, edited, and peer-reviewed geoscience papers. These books have set the national standard for geologic guidebooks and are an essential geologic reference for anyone working in or around New Mexico. Free Downloads NMGS has decided to make peer-reviewed papers from our Fall Field Conference guidebooks available for free download. Non-members will have access to guidebook papers two years after publication. Members have access to all papers. This is in keeping with our mission of promoting interest, research, and cooperation regarding geology in New Mexico. However, guidebook sales represent a significant proportion of our operating budget. Therefore, only research papers are available for download. Road logs, mini-papers, maps, stratigraphic charts, and other selected content are available only in the printed guidebooks. Copyright Information Publications of the New Mexico Geological Society, printed and electronic, are protected by the copyright laws of the United States.