Morphology and Evolutionary Significance of the Atlas−Axis Complex in Varanopid Synapsids
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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. -
Ontogenetic Change in the Temporal Region of the Early Permian Parareptile Delorhynchus Cifellii and the Implications for Closure of the Temporal Fenestra in Amniotes
RESEARCH ARTICLE Ontogenetic Change in the Temporal Region of the Early Permian Parareptile Delorhynchus cifellii and the Implications for Closure of the Temporal Fenestra in Amniotes Yara Haridy*, Mark J. Macdougall, Diane Scott, Robert R. Reisz Department of Biology, University of Toronto Mississauga, Mississauga, Ontario, Canada * [email protected] a11111 Abstract A juvenile specimen of Delorhynchus cifellii, collected from the Early Permian fissure-fill deposits of Richards Spur, Oklahoma, permits the first detailed study of cranial ontogeny in this parareptile. The specimen, consisting of a partially articulated skull and mandible, exhib- OPEN ACCESS its several features that identify it as juvenile. The dermal tuberosities that ornament the dor- Citation: Haridy Y, Macdougall MJ, Scott D, Reisz sal side and lateral edges of the largest skull of D. cifellii specimens, are less prominent in RR (2016) Ontogenetic Change in the Temporal the intermediate sized holotype, and are absent in the new specimen. This indicates that the Region of the Early Permian Parareptile new specimen represents an earlier ontogenetic stage than all previously described mem- Delorhynchus cifellii and the Implications for bers of this species. In addition, the incomplete interdigitation of the sutures, most notably Closure of the Temporal Fenestra in Amniotes. PLoS ONE 11(12): e0166819. doi:10.1371/journal. along the fronto-nasal contact, plus the proportionally larger sizes of the orbit and temporal pone.0166819 fenestrae further support an early ontogenetic stage for this specimen. Comparisons Editor: Thierry Smith, Royal Belgian Institute of between this juvenile and previously described specimens reveal that the size and shape of Natural Sciences, BELGIUM the temporal fenestra in Delorhynchus appear to vary through ontogeny, due to changes in Received: July 18, 2016 the shape and size of the bordering cranial elements. -
The Lower Permian Abo Formation in the Fra Cristobal and Caballo Mountains, Sierra County, New Mexico Spencer G
New Mexico Geological Society Downloaded from: http://nmgs.nmt.edu/publications/guidebooks/63 The Lower Permian Abo Formation in the Fra Cristobal and Caballo Mountains, Sierra County, New Mexico Spencer G. Lucas, Karl Krainer, Dan S. Chaney, William A. DiMichele, Sebastian Voigt, David S. Berman, and Amy C. Henrici, 2012, pp. 345-376 in: Geology of the Warm Springs Region, Lucas, Spencer G.; McLemore, Virginia T.; Lueth, Virgil W.; Spielmann, Justin A.; Krainer, Karl, New Mexico Geological Society 63rd Annual Fall Field Conference Guidebook, 580 p. This is one of many related papers that were included in the 2012 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. -
Phylogeny and Evolution of the Dissorophoid Temnospondyls
Journal of Paleontology, 93(1), 2019, p. 137–156 Copyright © 2018, The Paleontological Society. This is an Open Access article, distributed under the terms of the Creative Commons Attribution licence (http://creativecommons.org/ licenses/by/4.0/), which permits unrestricted re-use, distribution, and reproduction in any medium, provided the original work is properly cited. 0022-3360/15/0088-0906 doi: 10.1017/jpa.2018.67 The putative lissamphibian stem-group: phylogeny and evolution of the dissorophoid temnospondyls Rainer R. Schoch Staatliches Museum für Naturkunde, Rosenstein 1, D-70191 Stuttgart, Germany 〈[email protected]〉 Abstract.—Dissorophoid temnospondyls are widely considered to have given rise to some or all modern amphibians (Lissamphibia), but their ingroup relationships still bear major unresolved questions. An inclusive phylogenetic ana- lysis of dissorophoids gives new insights into the large-scale topology of relationships. Based on a TNT 1.5 analysis (33 taxa, 108 characters), the enigmatic taxon Perryella is found to nest just outside Dissorophoidea (phylogenetic defintion), but shares a range of synapomorphies with this clade. The dissorophoids proper are found to encompass a first dichotomy between the largely paedomorphic Micromelerpetidae and all other taxa (Xerodromes). Within the latter, there is a basal dichotomy between the large, heavily ossified Olsoniformes (Dissorophidae + Trematopidae) and the small salamander-like Amphibamiformes (new taxon), which include four clades: (1) Micropholidae (Tersomius, Pasawioops, Micropholis); (2) Amphibamidae sensu stricto (Doleserpeton, Amphibamus); (3) Branchiosaur- idae (Branchiosaurus, Apateon, Leptorophus, Schoenfelderpeton); and (4) Lissamphibia. The genera Platyrhinops and Eos- copus are here found to nest at the base of Amphibamiformes. Represented by their basal-most stem-taxa (Triadobatrachus, Karaurus, Eocaecilia), lissamphibians nest with Gerobatrachus rather than Amphibamidae, as repeatedly found by former analyses. -
2018 NMGS Spring Meeting: Abstract-748
FIRST DISCOVERY OF A TETRAPOD BODY FOSSIL IN THE LOWER PERMIAN YESO GROUP, CENTRAL NEW MEXICO Emily D. Thorpe1, Spencer G. Lucas2, David S. Berman3, Larry F. Rinehart2, Vincent Santucci4 and Amy C. Henrici3 1 POBox 147, Morrisonville, WI, 53571, [email protected] 2New Mexico Museum of Natural History and Science, 1801 Mountain Road N. W., Albuquerque, NM, 87104 3Carnegie Museum of Natural History, 4400 Forbes Ave, Pittsburgh, PA, 15213 4National Parks Service, 1849 C Street, NW, Washington, DC, 20240, United States The lower Permian Yeso Group records arid coastal plain, shallow marine, and evaporitic deposition across much of central New Mexico. Generally considered to have few fossils, recent study of Yeso Group strata has discovered a diverse fossil record of marine micro-organisms (mostly algae and foraminiferans), terrestrial plants, and tetrapod footprints. We report here the first discovery of a tetrapod body fossil in the Yeso Group—a partial skeleton of a basal synapsid, varanopidae eupelycosaur. The fossil is the natural casts of bones in two pieces, part and counterpart, that were preserved in a sandstone bed of the lower part of the Arroyo de Alamillo Formation in the southern Manzano Mountains. The fossil-bearing sandstone is fine-grained, quartz rich, and pale reddish brown to grayish red unweathered, weathers to blackish red, and is in part encrusted by white caliche. The casts preserve part of the pelvis(?), 18 caudal vertebral centra, both femora and tibia-fibulae, and most of the pedes, largely in close articulation, of a single individual. The skeleton is of a relatively small (femur length = 62 mm, total length of the preserved cast from the pelvis to tip of the incomplete tail = 325 mm) and gracile eupelycosaur most similar to Varanops. -
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. -
A Juvenile Skeleton of the Nectridean Amphibian
Lucas, S.G. and Zeigler, K.E., eds., 2005, The Nonmarine Permian, New Mexico Museum of Natural Histoiy and Science Bulletin No. 30. 39 A JUVENILE SKELETON OF THE NECTRIDEAN AMPHIBIAN DIPLOCAULUS AND ASSOCIATED FLORA AND FAUNA FROM THE MITCHELL CREEK FLATS LOCALITY (UPPER WAGGONER RANCH FORMATION; EARLY PERMIAN), BAYLOR COUNTY, NORTH- CENTRAL TEXAS, USA DAN S. CHANEY, HANS-DIETER SUES AND WILLIAM A. DIMICHELE Department of Paleobiology MRC-121, National Museum of Natural History, PC Box 37012, Washington, D.C. 20013-7021 Abstract—A well-preserved skeleton of a tiny individual of the nectridean amphibian Diplocaulus was found in association with other Early Permian animal remains and a flora in a gray mudstone at a site called Mitchell Creek Flats in Baylor County, north-central Texas. The locality has the sedimentological attributes of a pond deposit. The skeleton of Diplocaulus sp. is noteworthy for its completeness and small size, and appears to represent a juvenile individual. The associated plant material is beautifully preserved and comprises the sphe- nopsids Annularia and Calamites, the conifer IBrachyphyllum, possible cycads represented by one or possibly two forms of Taeniopteris, three gigantopterids - Delnortea, Cathaysiopteris, and Gigantopteridium — and three unidentified callipterids. Several unidentified narrow trunks were found at the base of the deposit, appar- ently washed up against the northern margin of the pond. Other faunal material from the deposit comprises myalinid bivalves, conchostracans, a tooth of a xenacanthid shark, and a palaeonisciform fish. INTRODUCTION Wchita Rver T ^ Coinage i ^ 1 t Complete skeletons of Early Permian vertebrates are rare in north- FwmatJon Grcyp c central Texas, where much collecting has been done for about 150 years c c (Fig. -
The Skull of Mesenosaurus Romeri, a Small Varanopseid (Synapsida: Eupelycosauria) from the Upper Permian of the Mezen River Basin, Northern Russia
ANNALS OF CARNEGIE MUSEUM VOL. 70, NUMBER 2, PP. 113-f32 24 MAY 2001 THE SKULL OF MESENOSAURUS ROMERI, A SMALL VARANOPSEID (SYNAPSIDA: EUPELYCOSAURIA) FROM THE UPPER PERMIAN OF THE MEZEN RIVER BASIN, NORTHERN RUSSIA ROBERT R. REIsz] Research Associate, Section of Vertebrate Fossils DAVID S BERMAN Curator, Section of Vertebrate Paleontology ABSTRACT Restudy of Mesenosaurus romeri, based on new and previously described cranial materials from the Upper Permian of the Mezen River basin of northern Russia, confirms its assignment to the synapsid eupelycosaurian family Varanopseidae. Comparisons with other members of the family support a pattern of relationship that recognizes two clades: one is composed of Mesenosaurus and Mycterosaurus for which the subfamily designation Myctersaurinae is proposed, and the other includes the remaining well known varanopseids Elliotsmithia, Varanops, Varanodon, and Aerosaurus for which the subfamily des ignation Varanodontinae is proposed. Among the late Paleozoic synapsids, Varanopseidae has the longest fossil record, extending from the end of the Carboniferous to well into the Late Permian, and the widest geographical distribution, including North America, South Africa, and Russia. KEy WORDs: Varanopseidae (Mesenosaurus), Synapsida, Upper Permian, Mezen River Basin, Russia INTRODUCTION The Mezen River basin of northern Russia has extensive exposures of Upper Permian sediments along the edges of several rivers, especially the Peza and Kimja rivers, both affiuents of the Mezen River. These sediments, although visited only sporadically by paleontologists and geologists, have produced the skeletal remains of a diverse assemblage of amniotes, including numerous enigmatic par areptiles, at least two therapsids, and most interestingly a small synapsid of var anopseid affinities, Mesenosaurus romeri Efremov (1938). -
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 -
The Many Faces of Synapsid Cranial Allometry
Paleobiology, 45(4), 2019, pp. 531–545 DOI: 10.1017/pab.2019.26 Article The many faces of synapsid cranial allometry Isaac W. Krone , Christian F. Kammerer, and Kenneth D. Angielczyk Abstract.—Previous studies of cranial shape have established a consistent interspecific allometric pattern relating the relative lengths of the face and braincase regions of the skull within multiple families of mam- mals. In this interspecific allometry, the facial region of the skull is proportionally longer than the braincase in larger species. The regularity and broad taxonomic occurrence of this allometric pattern suggests that it may have an origin near the base of crown Mammalia, or even deeper in the synapsid or amniote forerun- ners of mammals. To investigate the possible origins of this allometric pattern, we used geometric morpho- metric techniques to analyze cranial shape in 194 species of nonmammalian synapsids, which constitute a set of successive outgroups to Mammalia. We recovered a much greater diversity of allometric patterns within nonmammalian synapsids than has been observed in mammals, including several instances similar to the mammalian pattern. However, we found no evidence of the mammalian pattern within Theroce- phalia and nonmammalian Cynodontia, the synapsids most closely related to mammals. This suggests that the mammalian allometric pattern arose somewhere within Mammaliaformes, rather than within nonmammalian synapsids. Further investigation using an ontogenetic series of the anomodont Diictodon feliceps shows that the pattern of interspecific allometry within anomodonts parallels the ontogenetic trajectory of Diictodon. This indicates that in at least some synapsids, allometric patterns associated with ontogeny may provide a “path of least resistance” for interspecific variation, a mechanism that we suggest produces the interspecific allometric pattern observed in mammals. -
Estimating Diversification Rates from the Fossil Record
bioRxiv preprint doi: https://doi.org/10.1101/027599; this version posted September 25, 2015. 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. Estimating diversification rates from the fossil record Gilles Didier1, Marine Fau2 and Michel Laurin2 [email protected], Aix-Marseille Universit´e,CNRS, Centrale Marseille, I2M, UMR 7373, 13453 Marseille, France [email protected], [email protected], CR2P, Sorbonne Universit´es,CNRS/MNHN/UPMC, Mus´eumNational d'Histoire Naturelle, 75005 Paris, France Abstract Diversification rates are estimated from phylogenies, typically without fossils, except in paleonto- logical studies. By nature, rate estimations depend heavily on the time data provided in phylogenies, which are divergence times and (when used) fossil ages. Among these temporal data, fossil ages are by far the most precisely known (divergence times are inferences calibrated with fossils). We propose a method to compute the likelihood of a phylogenetic tree with fossils in which the only known time information is the fossil ages. Testing our approach on simulated data shows that the maximum likelihood rate estimates from the phylogenetic tree shape and the fossil dates are almost as accurate as the ones obtained by taking into account all the data, including the divergence times. Moreover they are substantially more accurate than the estimates obtained only from the exact divergence times (without taking into account the fossil record). Keywords: speciation rate, extinction rate, fossil ages, maximum likelihood estimation 1 Introduction The history of biodiversity, including evolutionary radiations and mass extinction events, is a central topic of macroevolutionary studies (see for instance Santini et al., 2013; Sidor et al., 2013; Benton et al., 2014, and other works from these authors).