Paleozoic Geomagnetism Shapes Vertebrate Evolution
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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. -
Paleontological Research
Paleontological Research Vol. 6 No.3 September 2002 The Palaeontological Society 0 pan Co-Editors Kazushige Tanabe and Tomoki Kase Language Editor Martin Janal (New York, USA) Associate Editors Alan G. Beu (Institute of Geological and Nuclear Sciences, Lower Hutt, New Zealand), Satoshi Chiba (Tohoku University, Sendai, Japan), Yoichi Ezaki (Osaka City University, Osaka, Japan), James C. Ingle, Jr. (Stanford University, Stanford, USA), Kunio Kaiho (Tohoku University, Sendai, Japan), Susan M. Kidwell (University of Chicago, Chicago, USA), Hiroshi Kitazato (Shizuoka University, Shizuoka, Japan), Naoki Kohno (National Science Museum, Tokyo, Japan), Neil H. Landman (Amemican Museum of Natural History, New York, USA), Haruyoshi Maeda (Kyoto University, Kyoto, Japan), Atsushi Matsuoka (Niigata University, Niigata, Japan), Rihito Morita (Natural History Museum and Institute, Chiba, Japan), Harufumi Nishida (Chuo University, Tokyo, Japan), Kenshiro Ogasawara (University of Tsukuba, Tsukuba, Japan), Tatsuo Oji (University of Tokyo, Tokyo, Japan), Andrew B. Smith (Natural History Museum, London, Great Britain), Roger D. K. Thomas (Franklin and Marshall College, Lancaster, USA), Katsumi Ueno (Fukuoka University, Fukuoka, Japan), Wang Hongzhen (China University of Geosciences, Beijing, China), Yang Seong Young (Kyungpook National University, Taegu, Korea) Officers for 2001-2002 Honorary President: Tatsuro Matsumoto President: Hiromichi Hirano Councillors: Shuko Adachi, Kazutaka Amano, Yoshio Ando, Masatoshi Goto, Hiromichi Hirano, Yasuo Kondo, Noriyuki -
Constraints on the Timescale of Animal Evolutionary History
Palaeontologia Electronica palaeo-electronica.org Constraints on the timescale of animal evolutionary history Michael J. Benton, Philip C.J. Donoghue, Robert J. Asher, Matt Friedman, Thomas J. Near, and Jakob Vinther ABSTRACT Dating the tree of life is a core endeavor in evolutionary biology. Rates of evolution are fundamental to nearly every evolutionary model and process. Rates need dates. There is much debate on the most appropriate and reasonable ways in which to date the tree of life, and recent work has highlighted some confusions and complexities that can be avoided. Whether phylogenetic trees are dated after they have been estab- lished, or as part of the process of tree finding, practitioners need to know which cali- brations to use. We emphasize the importance of identifying crown (not stem) fossils, levels of confidence in their attribution to the crown, current chronostratigraphic preci- sion, the primacy of the host geological formation and asymmetric confidence intervals. Here we present calibrations for 88 key nodes across the phylogeny of animals, rang- ing from the root of Metazoa to the last common ancestor of Homo sapiens. Close attention to detail is constantly required: for example, the classic bird-mammal date (base of crown Amniota) has often been given as 310-315 Ma; the 2014 international time scale indicates a minimum age of 318 Ma. Michael J. Benton. School of Earth Sciences, University of Bristol, Bristol, BS8 1RJ, U.K. [email protected] Philip C.J. Donoghue. School of Earth Sciences, University of Bristol, Bristol, BS8 1RJ, U.K. [email protected] Robert J. -
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. -
Spiracular Air Breathing in Polypterid Fishes and Its Implications for Aerial
ARTICLE Received 1 May 2013 | Accepted 27 Nov 2013 | Published 23 Jan 2014 DOI: 10.1038/ncomms4022 Spiracular air breathing in polypterid fishes and its implications for aerial respiration in stem tetrapods Jeffrey B. Graham1, Nicholas C. Wegner1,2, Lauren A. Miller1, Corey J. Jew1, N Chin Lai1,3, Rachel M. Berquist4, Lawrence R. Frank4 & John A. Long5,6 The polypterids (bichirs and ropefish) are extant basal actinopterygian (ray-finned) fishes that breathe air and share similarities with extant lobe-finned sarcopterygians (lungfishes and tetrapods) in lung structure. They are also similar to some fossil sarcopterygians, including stem tetrapods, in having large paired openings (spiracles) on top of their head. The role of spiracles in polypterid respiration has been unclear, with early reports suggesting that polypterids could inhale air through the spiracles, while later reports have largely dismissed such observations. Here we resolve the 100-year-old mystery by presenting structural, behavioural, video, kinematic and pressure data that show spiracle-mediated aspiration accounts for up to 93% of all air breaths in four species of Polypterus. Similarity in the size and position of polypterid spiracles with those of some stem tetrapods suggests that spiracular air breathing may have been an important respiratory strategy during the fish-tetrapod transition from water to land. 1 Marine Biology Research Division, Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, California 92093, USA. 2 Fisheries Resource Division, Southwest Fisheries Science Center, NOAA Fisheries, La Jolla, California 92037, USA. 3 VA San Diego Healthcare System, San Diego, California 92161, USA. -
Dashankou Fauna: a Unique Window on the Early Evolution of Therapsids
Vol.24 No.2 2010 Paleoherpetology Dashankou Fauna: A Unique Window on the Early Evolution of Therapsids LIU Jun* Institute of Vertebrate Paleontology and Paleoanthropology, CAS, Beijing 100044, China n the 1980s, the Institute of Geology, Chinese Academy of IGeological Sciences (IGCAGS) sent an expedition to the area north of the Qilian Mountains to study the local terrestrial Permian and Triassic deposits. A new vertebrate fossil locality, later named Dashankou Fauna, was discovered by Prof. CHENG Zhengwu in Dashankou, Yumen, Gansu Province in 1981. Small-scale excavations in 1981, 1982 and 1985 demonstrated that this locality was a source of abundant and diverse vertebrate fossils. In the 1990s, supported by the National Natural Science Foundation of China, the Fig. 1 Prof. LI Jinling in the excavation of 1995. She first summarized the known IGCAGS, the Institute of Vertebrate members of the Dashankou Fauna and brought it to light as the most primitive and abundant Chinese tetrapod fauna. Paleontology and Paleoanthropology (IVPP) under CAS, and the Geological Museum of China formed a joint team IVPP were productive and have since investigations were first disseminated to work on this fauna. Three large- unveiled an interesting episode in the to the public in 1995. In 2001, Prof. scale excavations, undertaken in transition from reptiles to mammals in LI Jinling summarized the known 1991, 1992, and 1995 respectively, as evolutionary history. members of the fauna and discussed well as the subsequent ones held by The results from these their features. She pointed out that * To whom correspondence should be addressed at [email protected]. -
Hans-Peter Schultze, a Great Paleoichthyologist for Whom Work Is Synonymous with Enjoyment
Mitt. Mus. Nat.kd. Berl., Geowiss. Reihe 5 (2002) 5-17 10.11.2002 Hans-Peter Schultze, a great paleoichthyologist for whom work is synonymous with enjoyment Richard Cloutierl With 4 figures and 2 tables In the summer of 1982, Hans-Peter Schultze and above all by his simplicity and friendliness. Two Gloria Arratia were invited to a small museum years later I started my PbD. at The University located on a fossiliferous site of the Devonian of Kansas, under the supervision of Hans-Peter. Escuminac Formation in Miguasha, Quebec, Compared to his long career, these two weeks eastern Canada. Hans-Peter was to work with that Hans-Peter spent in Miguasha represent an Marius Arsenault, the director of the Miguasha extremely short period of time. Some might say Museum, on the skull of the elpistostegalid EZ- that this little anecdote is insignificant when in- pistostege watsoni, a species closely related to ba- troducing a vertebrate paleontologist (Fig. ZA) sal tetrapods. In addition, he went through the who published 132 papers and books (a total of collections to describe and measure numerous 2977 published pages) in addition to more than juvenile specimens of the osteolepiform Eusthe- 80 abstracts, book reviews and obituaries. How- nopteron foordi. As expected, these two projects ever, this brief story is representative of Hans- turned out to be important contributions in low- Peter’s personality and contributions. He is a er vertebrate paleontology and systematics: one great scientist with numerous interests in science, on the origin of tetrapods (1985), and the second art, and history. Hans-Peter enjoys digging for one on growth patterns of a Late Devonian fish fossils, looking at fossils and describing fossils, (1984). -
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 -
I Ecomorphological Change in Lobe-Finned Fishes (Sarcopterygii
Ecomorphological change in lobe-finned fishes (Sarcopterygii): disparity and rates by Bryan H. Juarez A thesis submitted in partial fulfillment of the requirements for the degree of Master of Science (Ecology and Evolutionary Biology) in the University of Michigan 2015 Master’s Thesis Committee: Assistant Professor Lauren C. Sallan, University of Pennsylvania, Co-Chair Assistant Professor Daniel L. Rabosky, Co-Chair Associate Research Scientist Miriam L. Zelditch i © Bryan H. Juarez 2015 ii ACKNOWLEDGEMENTS I would like to thank the Rabosky Lab, David W. Bapst, Graeme T. Lloyd and Zerina Johanson for helpful discussions on methodology, Lauren C. Sallan, Miriam L. Zelditch and Daniel L. Rabosky for their dedicated guidance on this study and the London Natural History Museum for courteously providing me with access to specimens. iii TABLE OF CONTENTS ACKNOWLEDGEMENTS ii LIST OF FIGURES iv LIST OF APPENDICES v ABSTRACT vi SECTION I. Introduction 1 II. Methods 4 III. Results 9 IV. Discussion 16 V. Conclusion 20 VI. Future Directions 21 APPENDICES 23 REFERENCES 62 iv LIST OF TABLES AND FIGURES TABLE/FIGURE II. Cranial PC-reduced data 6 II. Post-cranial PC-reduced data 6 III. PC1 and PC2 Cranial and Post-cranial Morphospaces 11-12 III. Cranial Disparity Through Time 13 III. Post-cranial Disparity Through Time 14 III. Cranial/Post-cranial Disparity Through Time 15 v LIST OF APPENDICES APPENDIX A. Aquatic and Semi-aquatic Lobe-fins 24 B. Species Used In Analysis 34 C. Cranial and Post-Cranial Landmarks 37 D. PC3 and PC4 Cranial and Post-cranial Morphospaces 38 E. PC1 PC2 Cranial Morphospaces 39 1-2. -
Biarmosuchus
Meet the Amniotes: The great terrestrial adaptation Pterosauria Archaic archosaurs Crocodiles Dinosauria Lepidosaurs Anapsids Synapsids Most ‘amphibians’ Most ‘fishes’ Assorted jawless fish Amniota Urochordata Tetrapoda Cephalochordata Gnathostomata Vertebrata Amniotic egg Chordata Thick skin Distinctive skulls The cleidoic egg: a private pond Eggshell: Semipermeable Calcareous or leathery Albumen: Egg cytoplasm Amnion: Protection / Gas transfer Yo l k Sac: Nutrient Pool Allantois: Waste Pool Synapsida Anapsida Lepidosauria Archosauria First amniotes Diapsida in record (!!) Eureptilia Amniotes Walking with Monsters Chapter 2 1:10-5:00 Evolution of Eggs? Some modern amphibians To deal with longer time Eggs became larger, lay eggs on land... why? periods on dry land, tougher. Large eggs can - One inner membrane tougher shells were produce larger babies, 1. escape predation selected for. Gas exchange which had a higher and waste devices evolved likelihood of survival in a for complete eggtonomy tough world. Evolution of Hair? Amniotes all have the gene for hair: alpha keratin In birds/lizards, it’s expressed in claws In mammals, it’s used in hair & nails 310 Ma Thrinaxodon Blood vessel channels on premaxillae, maxillae ~vibrassae (whiskers) (early Triassic) Castorcauda First direct fossil evidence of hair (mid-Jurassic) Meet the Amniotes No temporal fenestra Upper temporal fenestra Lower temporal fenestra Single temporal fenestra = ‘window’ fenestra The Permian 299-251 Ma The Permian 299-251 Ma Convergence of Pangaea The effects of the landscape on climate: Gondwana icecap disappeared Heat distributed more equally through fluids than solids as continent drifted north Oceans slower to warm/cool than continents Pangaea: Rapid warming/cooling ~ more intense than today Temperature extremes Our modern continents are ‘tempered’ by oceans between them. -
A Reevaluation of the Enigmatic Permian Synapsid Watongia and of Its Stratigraphic Significance
377 A reevaluation of the enigmatic Permian synapsid Watongia and of its stratigraphic significance Robert R. Reisz and Michel Laurin Abstract: The enigmatic synapsid Watongia, initially described on the basis of fragmentary remains from the Chickasha Formation of Oklahoma as an early therapsid (a gorgonopsian), is redescribed and is shown to represent the largest known varanopid synapsid. Its assignment to the Varanodontinae (Varanopidae: Synapsida) is supported by several diagnostic features, including a strongly recurved marginal dentition with both posterior and anterior, unserrated, cutting edges, quadratojugal with two discrete superficial rami, a large lateral tuberosity on the postorbital, short, deep excavations on the neural arches, and a broad, short radiale. The presence in Watongia of a posterolateral process of the frontal precludes therapsid or sphenacodontid affinities. The previously described preparietal that provided the strongest evidence of therapsid affinities for Watongia is shown to be based on misinterpreted skull fragments that were incorrectly assembled. The presence of a varanopid in the Chickasha Formation is consistent with a Guadalupian age (Middle Permian), and in the absence of large sphenacodontids and therapsids, Watongia was probably the top predator of its terrestrial vertebrate community. Résumé : Le synapside énigmatique Watongia, fondé sur un fossile fragmentaire de la Formation Chickasha de l’Oklahoma avait été initialement classé parmi les thérapsides (parmi les gorgonopsiens). Notre étude démontre que Watongia représente le plus grand varanopidé connu. Son appartenance au taxon Varanodontinae (Varanopidae: Synapsida) est soutenue par plusieurs caractères diagnostiques, incluant la forme des dents, qui sont incurvées vers l’arrière, un quadratojugal avec deux processus superficiels, une grande protubérance latérale sur le postorbitaire, des excavations courtes et profondes sur les arcs neuraux, et un os radial nettement plus large que long. -
New Osteichthyans (Bony Fishes) from the Devonian of Central Australia
Mitt. Mus. Nat.kd. Berl., Geowiss. Reihe 8 (2005), 13–35 / DOI 10.1002/mmng.200410002 New osteichthyans (bony fishes) from the Devonian of Central Australia Gavin C. Young*,1 & Hans-Peter Schultze2 1 Department of Earth & Marine Sciences, Australian National University, Canberra 0200, Australia 2 Museum fu¨ r Naturkunde der Humboldt-Universita¨t zu Berlin, Invalidenstr. 43, D-10115 Berlin, Germany Private: 2001 Vermont St., Lawrence, Kansas 66046, USA Received 30 October 2004, accepted 3 May 2005 Published online 02. 11. 2005 With 10 figures and 2 tables Key words: Osteichthyans, dipnoans, osteolepidids, onychodontids, Devonian, central Australia. Abstract Osteichthyan remains described from two localities in Central Australia (Mount Winter, Amadeus Basin, and southern Toom- ba Range, Georgina Basin) include the dipnoan Amadeodipterus kencampbelli n. gen., n. sp., the osteolepidid Muranjilepis winterensis n. gen., n. sp., and the onychodontid Luckeus abudda n. gen., n. sp., as well as indeterminate holoptychiid scales, osteolepidid scales of a new type from the Georgina Basin locality, and indeterminate onychodontid remains from both local- ities. Amadeodipterus n. gen. is a short-headed dipterid dipnoan with bones A and H enclosed into the skull roof; Muranjilepis n. gen. is a small form with short postparietal and parietoethmoidal shields, large orbits, and large pores of the sensory line system. It is closest to Thursius, and some Chinese osteolepidid material. Luckeus n. gen. is based on an onychodontid lower jaw with Meckel’s cartilage separately ossified perichondrally from the dentary and infradentary, and carrying the parasym- physial tooth whorl. Different osteichthyan taxa at the two localities indicate a difference in age and/or palaeoenvironment within the Early-Middle Devonian.