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Marques RC, da Silva AM, Simone LRL. Cladistic analysis of the transisthmian genus Eurytellina (Bivalvia: Tellinoidea) based on morphological and morphometric data. ORG DIVERS EVOL 2022. [DOI: 10.1007/s13127-022-00561-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Shedding light: a phylotranscriptomic perspective illuminates the origin of photosymbiosis in marine bivalves. BMC Evol Biol 2020; 20:50. [PMID: 32357841 PMCID: PMC7195748 DOI: 10.1186/s12862-020-01614-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2019] [Accepted: 04/15/2020] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Photosymbiotic associations between metazoan hosts and photosynthetic dinoflagellates are crucial to the trophic and structural integrity of many marine ecosystems, including coral reefs. Although extensive efforts have been devoted to study the short-term ecological interactions between coral hosts and their symbionts, long-term evolutionary dynamics of photosymbiosis in many marine animals are not well understood. Within Bivalvia, the second largest class of mollusks, obligate photosymbiosis is found in two marine lineages: the giant clams (subfamily Tridacninae) and the heart cockles (subfamily Fraginae), both in the family Cardiidae. Morphologically, giant clams show relatively conservative shell forms whereas photosymbiotic fragines exhibit a diverse suite of anatomical adaptations including flattened shells, leafy mantle extensions, and lens-like microstructural structures. To date, the phylogenetic relationships between these two subfamilies remain poorly resolved, and it is unclear whether photosymbiosis in cardiids originated once or twice. RESULTS In this study, we establish a backbone phylogeny for Cardiidae utilizing RNASeq-based transcriptomic data from Tridacninae, Fraginae and other cardiids. A variety of phylogenomic approaches were used to infer the relationship between the two groups. Our analyses found conflicting gene signals and potential rapid divergence among the lineages. Overall, results support a sister group relationship between Tridacninae and Fraginae, which diverged during the Cretaceous. Although a sister group relationship is recovered, ancestral state reconstruction using maximum likelihood-based methods reveals two independent origins of photosymbiosis, one at the base of Tridacninae and the other within a symbiotic Fraginae clade. CONCLUSIONS The newly revealed common ancestry between Tridacninae and Fraginae brings a possibility that certain genetic, metabolic, and/or anatomical exaptations existed in their last common ancestor, which promoted both lineages to independently establish photosymbiosis, possibly in response to the modern expansion of reef habitats.
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Cunha TJ, Lemer S, Bouchet P, Kano Y, Giribet G. Putting keyhole limpets on the map: phylogeny and biogeography of the globally distributed marine family Fissurellidae (Vetigastropoda, Mollusca). Mol Phylogenet Evol 2019; 135:249-269. [PMID: 30780003 DOI: 10.1016/j.ympev.2019.02.008] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2018] [Revised: 02/06/2019] [Accepted: 02/08/2019] [Indexed: 11/24/2022]
Abstract
Fissurellidae are marine gastropods with a worldwide distribution and a rich fossil record. We integrate molecular, geographical and fossil data to reconstruct the fissurellid phylogeny, estimate divergence times and investigate historical routes of oceanic dispersal. With five molecular markers for 143 terminals representing 27 genera, we resolve deep nodes and find that many genera (e.g., Emarginula, Diodora, Fissurella) are not monophyletic and need systematic revision. Several genera classified as Emarginulinae are recovered in Zeidorinae. Future work should prioritize emarginuline genera to improve understanding of ancestral traits and the early evolution of fissurellids. Tree calibration with the fossilized birth-death model indicates that crown fissurellids originated around 175 Ma, and generally resulted in younger ages for the earliest nodes than the node dating approach. Model-based biogeographic reconstruction, supported by fossils, infers an Indo-West Pacific origin, with a westward colonization of new oceans via the Tethys Seaway upon the breakup of Pangea. Western Atlantic clades then served as source for dispersal towards other parts of the globe. As the sister group to all other fissurellids, Rimula is ranked in its own subfamily, Rimulinae stat. nov. New synonyms: Hemitominae syn. nov. of Zeidorinae stat. nov.; Cranopsissyn. nov. of Puncturella; Variegemarginulasyn. nov. of Montfortula.
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Affiliation(s)
- Tauana Junqueira Cunha
- Museum of Comparative Zoology and Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA 02138, USA. https://orcid.org/0000-0002-8493-2117
| | - Sarah Lemer
- Museum of Comparative Zoology and Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA 02138, USA.
| | - Philippe Bouchet
- Institut de Systématique, Évolution, Biodiversité, ISYEB, UMR 7205, CNRS, MNHN, UPMC, EPHE, Muséum National d'Histoire Naturelle, Sorbonne Universités, 55 rue Buffon, CP31, F-75005 Paris, France.
| | - Yasunori Kano
- Atmosphere and Ocean Research Institute, The University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa, Chiba 277-8564, Japan.
| | - Gonzalo Giribet
- Museum of Comparative Zoology and Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA 02138, USA.
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Barcoding and multi-locus phylogeography of the globally distributed calcareous tubeworm genus Hydroides Gunnerus, 1768 (Annelida, Polychaeta, Serpulidae). Mol Phylogenet Evol 2018; 127:732-745. [PMID: 29906604 DOI: 10.1016/j.ympev.2018.06.021] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2017] [Revised: 12/22/2017] [Accepted: 06/11/2018] [Indexed: 01/27/2023]
Abstract
Hydroides is a large and diverse group of calcareous tubeworms (Serpulidae, Annelida) recognised by a distinctive but variable two-tiered operculum. Despite considerable research using several species of Hydroides as models in ecological and biofouling studies, phylogenetic and biogeographic relationships within the genus are still poorly understood. Using combined mitochondrial (COI, cytochrome b) and nuclear (18S, 28S and ITS) gene markers for 284 individuals of 45 morphospecies of Hydroides, we investigated the global phylogenetic and biogeographic relationships within the genus. Phylogenetic topologies were well supported and indicated high genetic diversity within Hydroides, revealing potential cryptic species. Present results also include the first COI barcoding data enabling rapid and effective species identification of Hydroides on a global scale. Phylogenetic relationships within Hydroides were more concordant with geographical distributions than morphological similarity of their opercula. Molecular divergence estimates suggested the origin and subsequent diversification in the western Tethys Sea followed by a shift of the historical centre of diversity from the Indo-Mediterranean region to the central Indo-Pacific during the last 50 million years. Further studies on population genetics of species consisting of multiple lineages would provide a better understanding on the status of potential cryptic species. Furthermore, paleogeographic studies based on fossil Hydroides tubes would provide evidence to test this biogeographic hypothesis.
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Li J, Volsteadt M, Kirkendale L, Cavanaugh CM. Characterizing Photosymbiosis Between Fraginae Bivalves and Symbiodinium Using Phylogenetics and Stable Isotopes. Front Ecol Evol 2018. [DOI: 10.3389/fevo.2018.00045] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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Combosch DJ, Collins TM, Glover EA, Graf DL, Harper EM, Healy JM, Kawauchi GY, Lemer S, McIntyre E, Strong EE, Taylor JD, Zardus JD, Mikkelsen PM, Giribet G, Bieler R. A family-level Tree of Life for bivalves based on a Sanger-sequencing approach. Mol Phylogenet Evol 2016; 107:191-208. [PMID: 27840226 DOI: 10.1016/j.ympev.2016.11.003] [Citation(s) in RCA: 58] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2016] [Revised: 10/28/2016] [Accepted: 11/03/2016] [Indexed: 12/12/2022]
Abstract
The systematics of the molluscan class Bivalvia are explored using a 5-gene Sanger-based approach including the largest taxon sampling to date, encompassing 219 ingroup species spanning 93 (or 82%) of the 113 currently accepted bivalve families. This study was designed to populate the bivalve Tree of Life at the family level and to place many genera into a clear phylogenetic context, but also pointing to several major clades where taxonomic work is sorely needed. Despite not recovering monophyly of Bivalvia or Protobranchia-as in most previous Sanger-based approaches to bivalve phylogeny-our study provides increased resolution in many higher-level clades, and supports the monophyly of Autobranchia, Pteriomorphia, Heteroconchia, Palaeoheterodonta, Heterodonta, Archiheterodonta, Euheterodonta, Anomalodesmata, Imparidentia, and Neoheterodontei, in addition to many other lower clades. However, deep nodes within some of these clades, especially Pteriomorphia and Imparidentia, could not be resolved with confidence. In addition, many families are not supported, and several are supported as non-monophyletic, including Malletiidae, Nuculanidae, Yoldiidae, Malleidae, Pteriidae, Arcidae, Propeamussiidae, Iridinidae, Carditidae, Myochamidae, Lyonsiidae, Pandoridae, Montacutidae, Galeommatidae, Tellinidae, Semelidae, Psammobiidae, Donacidae, Mactridae, and Cyrenidae; Veneridae is paraphyletic with respect to Chamidae, although this result appears to be an artifact. The denser sampling however allowed testing specific placement of species, showing, for example, that the unusual Australian Plebidonax deltoides is not a member of Donacidae and instead nests within Psammobiidae, suggesting that major revision of Tellinoidea may be required. We also showed that Cleidothaerus is sister group to the cementing member of Myochamidae, suggesting that Cleidothaeridae may not be a valid family and that cementation in Cleidothaerus and Myochama may have had a single origin. These results highlight the need for an integrative approach including as many genera as possible, and that the monophyly and relationships of many families require detailed reassessment. NGS approaches may be able to resolve the most recalcitrant nodes in the near future.
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Affiliation(s)
- David J Combosch
- Museum of Comparative Zoology, Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA 02138, USA
| | - Timothy M Collins
- Department of Biological Sciences, Florida International University, Miami, FL 33199, USA
| | - Emily A Glover
- Department of Life Sciences, The Natural History Museum, Cromwell Road, London SW7 5BD, UK
| | - Daniel L Graf
- Biology Department, University of Wisconsin-Stevens Point, 800 Reserve Street, Stevens Point, Wisconsin 54481, USA
| | - Elizabeth M Harper
- Department of Earth Sciences, University of Cambridge, Downing Street, Cambridge CB2 3EQ, UK
| | - John M Healy
- Queensland Museum, PO Box 3300, South Brisbane, Queensland 4101, Australia
| | - Gisele Y Kawauchi
- Museum of Comparative Zoology, Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA 02138, USA; Zoology Department, Universidade Federal de Minas Gerais, Brazil
| | - Sarah Lemer
- Museum of Comparative Zoology, Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA 02138, USA
| | - Erin McIntyre
- Museum of Comparative Zoology, Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA 02138, USA
| | - Ellen E Strong
- Department of Invertebrate Zoology, National Museum of Natural History, Smithsonian Institution, PO Box 37012, MRC 163, Washington, DC 20013, USA
| | - John D Taylor
- Department of Life Sciences, The Natural History Museum, Cromwell Road, London SW7 5BD, UK
| | - John D Zardus
- Department of Biology, The Citadel, 171 Moultrie Street, Charleston, SC 29409, USA
| | - Paula M Mikkelsen
- Integrative Research Center, Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL 60605, USA
| | - Gonzalo Giribet
- Museum of Comparative Zoology, Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA 02138, USA; Department of Life Sciences, The Natural History Museum, Cromwell Road, London SW7 5BD, UK; Integrative Research Center, Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL 60605, USA.
| | - Rüdiger Bieler
- Integrative Research Center, Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL 60605, USA
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Purroy A, Šegvić-Bubić T, Holmes A, Bušelić I, Thébault J, Featherstone A, Peharda M. Combined Use of Morphological and Molecular Tools to Resolve Species Mis-Identifications in the Bivalvia The Case of Glycymeris glycymeris and G. pilosa. PLoS One 2016; 11:e0162059. [PMID: 27669452 PMCID: PMC5036790 DOI: 10.1371/journal.pone.0162059] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2016] [Accepted: 08/16/2016] [Indexed: 11/18/2022] Open
Abstract
Morphological and molecular tools were combined to resolve the misidentification between Glycymeris glycymeris and Glycymeris pilosa from Atlantic and Mediterranean populations. The ambiguous literature on the taxonomic status of these species requires this confirmation as a baseline to studies on their ecology and sclerochronology. We used classical and landmark-based morphometric approaches and performed bivariate and multivariate analyses to test for shell character interactions at the individual and population level. Both approaches generated complementary information. The former showed the shell width to length ratio and the valve asymmetry to be the main discriminant characters between Atlantic and Mediterranean populations. Additionally, the external microsculpture of additional and finer secondary ribs in G. glycymeris discriminates it from G. pilosa. Likewise, landmark-based geometric morphometrics revealed a stronger opisthogyrate beak and prosodetic ligament in G. pilosa than G. glycymeris. Our Bayesian and maximum likelihood phylogenetic analyses based on COI and ITS2 genes identified that G. glycymeris and G. pilosa form two separate monophyletic clades with mean interspecific divergence of 11% and 0.9% for COI and ITS2, respectively. The congruent patterns of morphometric analysis together with mitochondrial and nuclear phylogenetic reconstructions indicated the separation of the two coexisting species. The intraspecific divergence occurred during the Eocene and accelerated during the late Pliocene and Pleistocene. Glycymeris pilosa showed a high level of genetic diversity, appearing as a more robust species whose tolerance of environmental conditions allowed its expansion throughout the Mediterranean.
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Affiliation(s)
- Ariadna Purroy
- Institute of Oceanography and Fisheries, Split, Croatia
- * E-mail:
| | | | - Anna Holmes
- Department of Biodiversity and Systematic Biology, National Museum of Wales, Cardiff, UK
| | - Ivana Bušelić
- Institute of Oceanography and Fisheries, Split, Croatia
| | - Julien Thébault
- Université de Brest, Institut Universitaire Européen de la Mer, Laboratoire des sciences de l'environnement marin (LEMAR UMR6539 CNRS/UBO/IRD/Ifremer), Plouzané, France
| | - Amy Featherstone
- Université de Brest, Institut Universitaire Européen de la Mer, Laboratoire des sciences de l'environnement marin (LEMAR UMR6539 CNRS/UBO/IRD/Ifremer), Plouzané, France
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O’Dea A, Lessios HA, Coates AG, Eytan RI, Restrepo-Moreno SA, Cione AL, Collins LS, de Queiroz A, Farris DW, Norris RD, Stallard RF, Woodburne MO, Aguilera O, Aubry MP, Berggren WA, Budd AF, Cozzuol MA, Coppard SE, Duque-Caro H, Finnegan S, Gasparini GM, Grossman EL, Johnson KG, Keigwin LD, Knowlton N, Leigh EG, Leonard-Pingel JS, Marko PB, Pyenson ND, Rachello-Dolmen PG, Soibelzon E, Soibelzon L, Todd JA, Vermeij GJ, Jackson JBC. Formation of the Isthmus of Panama. SCIENCE ADVANCES 2016; 2:e1600883. [PMID: 27540590 PMCID: PMC4988774 DOI: 10.1126/sciadv.1600883] [Citation(s) in RCA: 271] [Impact Index Per Article: 33.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2016] [Accepted: 07/18/2016] [Indexed: 05/22/2023]
Abstract
The formation of the Isthmus of Panama stands as one of the greatest natural events of the Cenozoic, driving profound biotic transformations on land and in the oceans. Some recent studies suggest that the Isthmus formed many millions of years earlier than the widely recognized age of approximately 3 million years ago (Ma), a result that if true would revolutionize our understanding of environmental, ecological, and evolutionary change across the Americas. To bring clarity to the question of when the Isthmus of Panama formed, we provide an exhaustive review and reanalysis of geological, paleontological, and molecular records. These independent lines of evidence converge upon a cohesive narrative of gradually emerging land and constricting seaways, with formation of the Isthmus of Panama sensu stricto around 2.8 Ma. The evidence used to support an older isthmus is inconclusive, and we caution against the uncritical acceptance of an isthmus before the Pliocene.
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Affiliation(s)
- Aaron O’Dea
- Smithsonian Tropical Research Institute, Box 0843-03092, Balboa, Republic of Panama
| | - Harilaos A. Lessios
- Smithsonian Tropical Research Institute, Box 0843-03092, Balboa, Republic of Panama
| | - Anthony G. Coates
- Smithsonian Tropical Research Institute, Box 0843-03092, Balboa, Republic of Panama
| | - Ron I. Eytan
- Department of Marine Biology, Texas A&M University at Galveston, Galveston, TX 77553, USA
| | - Sergio A. Restrepo-Moreno
- Departamento de Geociencias y Medio Ambiente Universidad Nacional de Colombia, Bogotá, Colombia
- Department of Geological Sciences, University of Florida, Gainesville, FL 32611, USA
| | - Alberto L. Cione
- División Paleontología Vertebrados, Museo de La Plata, B1900FWA La Plata, Buenos Aires, Argentina
| | - Laurel S. Collins
- Smithsonian Tropical Research Institute, Box 0843-03092, Balboa, Republic of Panama
- Department of Earth and Environment, and Department of Biological Sciences, Florida International University, Miami, FL 33199, USA
| | - Alan de Queiroz
- Department of Biology, University of Nevada, Reno, NV 89557–0314, USA
| | - David W. Farris
- Department of Earth, Ocean and Atmospheric Sciences, Florida State University, Tallahassee, FL 32306, USA
| | | | - Robert F. Stallard
- Smithsonian Tropical Research Institute, Box 0843-03092, Balboa, Republic of Panama
- U.S. Geological Survey, 3215 Marine Street (Suite E127), Boulder, CO 80303, USA
| | - Michael O. Woodburne
- Department of Geological Sciences, University of California, Riverside, Riverside, CA 92507, USA
| | - Orangel Aguilera
- Universidade Federal Fluminense, Instituto de Biologia, Campus do Valonguinho, Outeiro São João Batista, s/n°, cep. 24020-141, Niterói, Rio de Janeiro, Brazil
| | - Marie-Pierre Aubry
- Department of Earth and Planetary Sciences, Rutgers University, 610 Taylor Road, Piscataway, NJ 08854–8066, USA
| | - William A. Berggren
- Department of Earth and Planetary Sciences, Rutgers University, 610 Taylor Road, Piscataway, NJ 08854–8066, USA
| | - Ann F. Budd
- Department of Earth and Environmental Sciences, University of Iowa, Iowa City, IA 52242, USA
| | - Mario A. Cozzuol
- Laboratório de Paleozoologia, Departamento de Biologia Geral, Universidade Federal de Minas Gerais, Av. Antonio Carlos, 6627, cep. 31270 010, Belo Horizonte, MG, Brazil
| | - Simon E. Coppard
- Department of Biology, Hamilton College, 198 College Hill Road, Clinton, NY 13323, USA
| | - Herman Duque-Caro
- Academia Colombiana de Ciencias Exactas, Físicas y Naturales, Bogotá, Colombia
| | - Seth Finnegan
- Department of Integrative Biology, University of California, Berkeley, 3040 Valley Life Science Building #3140, Berkeley, CA 94720–3140, USA
| | - Germán M. Gasparini
- División Paleontología Vertebrados, Museo de La Plata, B1900FWA La Plata, Buenos Aires, Argentina
| | - Ethan L. Grossman
- Department of Geology and Geophysics, Texas A&M University, College Station, TX 77843, USA
| | - Kenneth G. Johnson
- Department of Earth Sciences, Natural History Museum, London SW7 5BD, UK
| | | | - Nancy Knowlton
- Department of Invertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC 20013, USA
| | - Egbert G. Leigh
- Smithsonian Tropical Research Institute, Box 0843-03092, Balboa, Republic of Panama
| | - Jill S. Leonard-Pingel
- Department of Geology, Washington and Lee University, 204 West Washington Street, Lexington, VA 24450, USA
| | - Peter B. Marko
- Department of Biology, University of Hawai’i at Mānoa, 2538 McCarthy Mall, Honolulu, HI 96822, USA
| | - Nicholas D. Pyenson
- Department of Paleobiology, National Museum of Natural History, Smithsonian Institution, Washington, DC 20013, USA
| | - Paola G. Rachello-Dolmen
- Smithsonian Tropical Research Institute, Box 0843-03092, Balboa, Republic of Panama
- Department of Geology and Geophysics, Texas A&M University, College Station, TX 77843, USA
| | - Esteban Soibelzon
- División Paleontología Vertebrados, Museo de La Plata, B1900FWA La Plata, Buenos Aires, Argentina
| | - Leopoldo Soibelzon
- División Paleontología Vertebrados, Museo de La Plata, B1900FWA La Plata, Buenos Aires, Argentina
| | - Jonathan A. Todd
- Department of Earth Sciences, Natural History Museum, London SW7 5BD, UK
| | - Geerat J. Vermeij
- Department of Earth and Planetary Sciences, University of California, Davis, One Shields Avenue, Davis, CA 95616, USA
| | - Jeremy B. C. Jackson
- Smithsonian Tropical Research Institute, Box 0843-03092, Balboa, Republic of Panama
- Scripps Institution of Oceanography, La Jolla, CA 92093–0244, USA
- Department of Paleobiology, National Museum of Natural History, Smithsonian Institution, Washington, DC 20013, USA
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Affiliation(s)
- Peter Wilf
- Department of Geosciences, Pennsylvania State University, University Park, PA, 16802, USA
| | - Ignacio H Escapa
- CONICET, Museo Paleontológico Egidio Feruglio, Avenida Fontana 140, 9100, Trelew, Chubut, Argentina
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