1
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Kerber L. Caviomorph rodents from the Pampean region (Argentina) in the historical Santiago Roth Collection in Switzerland. SWISS JOURNAL OF PALAEONTOLOGY 2023; 142:8. [PMID: 37216012 PMCID: PMC10192190 DOI: 10.1186/s13358-023-00272-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/05/2023] [Accepted: 04/01/2023] [Indexed: 05/24/2023]
Abstract
Here I reviewed the Pleistocene caviomorphs collected by Santiago Roth (collection from Catalog No. 5) and housed at the paleontological collection of the Paläontologisches Institut und Museum, Universität Zürich, Zurich (Switzerland). The fossils were found in Pleistocene strata from Buenos Aires and Santa Fé provinces (Argentina) during the late nineteenth century. The material includes craniomandibular remains assigned to Lagostomus maximus (Chinchilloidea: Chinchillidae), craniomandibular and postcranial (thoracic and sacral vertebra, left scapula, left femur, and right tibia) bones identified as Dolichotis sp. (Cavioidea: Caviidae), and a fragmented hemimandible and isolated tooth of Myocastor sp. (Octodontoidea: Echimyidae). Other rodent specimens from this collection (Ctenomys sp. and Cavia sp.) are possibly sub-recent materials.
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Affiliation(s)
- Leonardo Kerber
- Centro de Apoio à Pesquisa Paleontológica da Quarta Colônia, Universidade Federal de Santa Maria (CAPPA/UFSM), Rua Maximiliano Vizzotto, 598, São João do Polêsine, RS 97230-000 Brazil
- Programa de Pós-Graduação em Biodiversidade Animal, Universidade Federal de Santa Maria, Av. Roraima, 1000, Santa Maria, RS 97105-900 Brazil
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2
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Beck RMD, de Vries D, Janiak MC, Goodhead IB, Boubli JP. Total evidence phylogeny of platyrrhine primates and a comparison of undated and tip-dating approaches. J Hum Evol 2023; 174:103293. [PMID: 36493598 DOI: 10.1016/j.jhevol.2022.103293] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Revised: 10/21/2022] [Accepted: 10/21/2022] [Indexed: 12/12/2022]
Abstract
There have been multiple published phylogenetic analyses of platyrrhine primates (New World monkeys) using both morphological and molecular data, but relatively few that have integrated both types of data into a total evidence approach. Here, we present phylogenetic analyses of recent and fossil platyrrhines, based on a total evidence data set of 418 morphological characters and 10.2 kilobases of DNA sequence data from 17 nuclear genes taken from previous studies, using undated and tip-dating approaches in a Bayesian framework. We compare the results of these analyses with molecular scaffold analyses using maximum parsimony and Bayesian approaches, and we use a formal information theoretic approach to identify unstable taxa. After a posteriori pruning of unstable taxa, the undated and tip-dating topologies appear congruent with recent molecular analyses and support largely similar relationships, with strong support for Stirtonia as a stem alouattine, Neosaimiri as a stem saimirine, Cebupithecia as a stem pitheciine, and Lagonimico as a stem callitrichid. Both analyses find three Greater Antillean subfossil platyrrhines (Xenothrix, Antillothrix, and Paralouatta) to form a clade that is related to Callicebus, congruent with a single dispersal event by the ancestor of this clade to the Greater Antilles. They also suggest that the fossil Proteropithecia may not be closely related to pitheciines, and that all known platyrrhines older than the Middle Miocene are stem taxa. Notably, the undated analysis found the Early Miocene Panamacebus (currently recognized as the oldest known cebid) to be unstable, and the tip-dating analysis placed it outside crown Platyrrhini. Our tip-dating analysis supports a late Oligocene or earliest Miocene (20.8-27.0 Ma) age for crown Platyrrhini, congruent with recent molecular clock analyses.
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Affiliation(s)
- Robin M D Beck
- Ecosystems and Environment Research Centre, School of Science, Engineering and Environment, University of Salford, Manchester, UK.
| | - Dorien de Vries
- Ecosystems and Environment Research Centre, School of Science, Engineering and Environment, University of Salford, Manchester, UK
| | - Mareike C Janiak
- Ecosystems and Environment Research Centre, School of Science, Engineering and Environment, University of Salford, Manchester, UK
| | - Ian B Goodhead
- Ecosystems and Environment Research Centre, School of Science, Engineering and Environment, University of Salford, Manchester, UK
| | - Jean P Boubli
- Ecosystems and Environment Research Centre, School of Science, Engineering and Environment, University of Salford, Manchester, UK
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3
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McGrath AJ, Chick J, Croft DA, Dodson HE, Flynn JJ, Wyss AR. Cavioids, Chinchilloids, and Erethizontoids (Hystricognathi, Rodentia, Mammalia) of the Early Miocene Pampa Castillo Fauna, Chile. AMERICAN MUSEUM NOVITATES 2022. [DOI: 10.1206/3984.1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Andrew J. McGrath
- Department of Earth Science, University of California, Santa Barbara. All authors after the first are listed in alphabetical order
| | - Jennifer Chick
- Department of Biology, Case Western Reserve University, Cleveland
| | - Darin A. Croft
- Department of Anatomy, Case Western Reserve University, Cleveland
| | - Holly E. Dodson
- Department of Earth Science, University of California, Santa Barbara. All authors after the first are listed in alphabetical order
| | - John J. Flynn
- Division of Paleontology, American Museum of Natural History, New York
| | - André R. Wyss
- Department of Earth Science, University of California, Santa Barbara
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4
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New Chinchillid Rodents (Hystricognathi: Caviomorpha) from Northern Chile and Bolivia Fill a 17-Million-Year Gap in the Pan-Chinchilline Fossil Record. J MAMM EVOL 2021. [DOI: 10.1007/s10914-021-09579-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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5
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Ibañez EA, Peralta DM, Obregón G, Nardelli M, Túnez JI. First assessment of genetic diversity, population structure and historical population dynamics of Myocastor coypus (Rodentia: Echimyidae) in the centre of its native range. Biol J Linn Soc Lond 2021. [DOI: 10.1093/biolinnean/blab097] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Abstract
Myocastor coypus is a rodent native to South America that is strongly linked to river systems. Past studies on the coypu in its native distribution range were aimed mainly at its ecology and parasitology and genetic studies are very limited. Here, we used sequences of the mitochondrial D-loop control region to study the genetic diversity, population genetic structure and some aspects of historical population dynamics of coypu at the centre of its native range. Our results showed moderate to high levels of genetic diversity and an absence of genetic structure in the study area. Bayesian analysis of population structure (BAPS) showed the existence of two haplogroups distributed in most sampling sites. These results suggest that movement of coypu is independent of the structure of current known river networks and its dispersal patterns are related to flooding events and the presence of lagoons connecting river basins. The demographic expansion patterns in these populations and those of other South American mammals during the Late Pleistocene support the hypothesis that demographic changes in wild populations are related to fluctuations in climate and ecology. The mitochondrial data obtained in this study constitute the first record of these types of sequences in the native range of M. coypus.
Myocastor coypus es un roedor nativo de Sudamérica fuertemente ligado a los sistemas fluviales. En su área de distribución nativa, los estudios llevados a cabo en la especie estuvieron dirigidos principalmente a estudiar su ecología y zoonosis, sin embargo, los estudios genéticos son muy limitados. En el presente trabajo, utilizamos secuencias del d-loop de la Región Control del ADN mitocondrial para estudiar la diversidad genética, la estructura genética de la población y algunos aspectos de la dinámica poblacional histórica del coipo en el centro de su área de distribución. Nuestros resultados develaron niveles moderados y altos de diversidad genética, y ausencia de estructuración genética en el área de estudio. El BAPS exhibió la existencia de dos haplogrupos distribuidos en la mayoría de los sitios de muestreo. Estos resultados sugieren que el movimiento de los coipos sería independiente de la estructura de las redes fluviales actuales conocidas y que sus patrones de dispersión estarían relacionados con eventos de inundación y con la presencia de lagunas que conectan las cuencas fluviales. Los patrones de expansión demográfica observados en esta población de coipos y en otras poblaciones de mamíferos sudamericanos durante el Pleistoceno tardío, apoyan la hipótesis de que las fluctuaciones climáticas y los cambios ecológicos están relacionados con cambios demográficos en las poblaciones silvestres. Los datos mitocondriales obtenidos en este estudio constituyen el primer registro de este tipo de secuencias en el área de distribución nativa de esta especie.
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Affiliation(s)
- Ezequiel Alejandro Ibañez
- Departamento de Ciencias Básicas, Universidad Nacional de Luján, Luján, Buenos Aires, Argentina
- Grupo de Investigación en Ecología Molecular (GIEM), Instituto de Ecología y Desarrollo Sustentable (INEDES UNLu-CONICET-CIC), Luján, Buenos Aires, Argentina
| | - Diego Matías Peralta
- Grupo de Investigación en Ecología Molecular (GIEM), Instituto de Ecología y Desarrollo Sustentable (INEDES UNLu-CONICET-CIC), Luján, Buenos Aires, Argentina
| | - Graciela Obregón
- Grupo de Investigación en Ecología Molecular (GIEM), Instituto de Ecología y Desarrollo Sustentable (INEDES UNLu-CONICET-CIC), Luján, Buenos Aires, Argentina
| | - Maximiliano Nardelli
- Departamento de Ciencias Básicas, Universidad Nacional de Luján, Luján, Buenos Aires, Argentina
- Grupo de Investigación en Ecología Molecular (GIEM), Instituto de Ecología y Desarrollo Sustentable (INEDES UNLu-CONICET-CIC), Luján, Buenos Aires, Argentina
| | - Juan Ignacio Túnez
- Departamento de Ciencias Básicas, Universidad Nacional de Luján, Luján, Buenos Aires, Argentina
- Grupo de Investigación en Ecología Molecular (GIEM), Instituto de Ecología y Desarrollo Sustentable (INEDES UNLu-CONICET-CIC), Luján, Buenos Aires, Argentina
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Rasia LL, Candela AM, Cañón C. Comprehensive total evidence phylogeny of chinchillids (Rodentia, Caviomorpha): Cheek teeth anatomy and evolution. J Anat 2021; 239:405-423. [PMID: 33721329 PMCID: PMC8273581 DOI: 10.1111/joa.13430] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2020] [Revised: 03/01/2021] [Accepted: 03/03/2021] [Indexed: 11/30/2022] Open
Abstract
Rodents are the most diverse order of extant mammals, and caviomorph rodents, or New World hystricognaths, have a remarkable morphological disparity and a long fossil record that begins in the Eocene. Chinchilloidea is a poorly understood clade within Caviomorpha, from an evolutionary and phylogenetic perspective. It includes the extant families Chinchillidae and Dinomyidae, the extinct Neoepiblemidae and Cephalomyidae, and several extinct chinchilloids without a clear phylogenetic position, like Eoincamys, Borikenomys, Chambiramys, Ucayalimys, Incamys, Saremmys, Garridomys and Scotamys. The family Chinchillidae includes the extant Chinchilla and Lagidium, grouped in Chinchillinae, and the only living Lagostominae, Lagostomus maximus. Among extinct chinchillids, Eoviscaccia (early Oligocene-early Miocene of Argentina, Bolivia and Chile), Prolagostomus (early-middle Miocene of Argentina, Bolivia and Chile) and Pliolagostomus (early-middle Miocene of Argentina) are the only genera originally described as members of the family. Based on the study of specimens with unworn or little-worn cheek teeth, belonging to extinct and extant taxa, we propose homologies of the cheek teeth structures and perform a combined molecular and morphological phylogenetic analysis including extinct and extant taxa of all families of Chinchilloidea and all genera of Chinchillidae. Our phylogenetic analysis recovered three major lineages in the evolutionary history of Chinchilloidea. The first major lineage is composed of the extant taxa Chinchilla, Lagidium and Lagostomus, and the extinct genera Eoviscaccia, Prolagostomus, Pliolagostomus, Garridomys, Incamys, Loncolicu and Saremmys. Cephalomyid (Banderomys, Cephalomys, Litodontomys, Soriamys) and neoepiblemid (Neoepiblema, Perimys, Phoberomys, Scotamys) genera are part of the second major lineage, while dinomyids such as Dinomys, Drytomomys, Scleromys, 'Scleromys' and Tetrastylus constitute the third major lineage within Chinchilloidea. The phylogenetic position of some taxa previously considered as incertae sedis chinchilloids or without a clear suprageneric group (i.e. Incamys, Saremmys, Garridomys and Loncolicu) show that they belong to pan-Chinchillidae and conform the stem Chinchillidae along with Eoviscaccia. The euhypsodont crown Chinchillidae includes the living subfamilies Chinchillinae and Lagostominae. Dinomyidae and Eoincamys pascuali are recovered as the sisters of a major clade composed by 'Cephalomyidae'+Neopiblemidae and pan-Chinchillidae, and Chambiramys sylvaticus occupies a basal position to the same clade. Four major radiation events are identified in the evolutionary history of Chinchilloidea. The analysis of new morphological characters linked with molecular evidence as well as the addition of taxa of uncertain or unstable phylogenetic position or not considered in previous studies allowed us resolve part of the relationships within Chinchilloidea, particularly that of Chinchillidae, supporting preceding morphological hypotheses.
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Affiliation(s)
- Luciano L. Rasia
- División Paleontología VertebradosMuseo de La Plata, La PlataBuenos AiresArgentina
- CONICETArgentina
| | - Adriana M. Candela
- División Paleontología VertebradosMuseo de La Plata, La PlataBuenos AiresArgentina
- CONICETArgentina
| | - Carola Cañón
- Instituto de Diversidad y Evolución Austral (IDEAus‐CONICETPuerto MadrynArgentina
- Parque Real 6SantiagoChile
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7
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Álvarez A, Ercoli MD, Verzi DH. Integration and diversity of the caviomorph mandible (Rodentia: Hystricomorpha): assessing the evolutionary history through fossils and ancestral shape reconstructions. Zool J Linn Soc 2019. [DOI: 10.1093/zoolinnean/zlz071] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
AbstractCaviomorph rodents constitute a highly diverse clade of Neotropical mammals. They are recorded since at least the late Middle Eocene and have a long and complex evolutionary history. Using geometric morphometric data, we analysed the variation in mandibular shape of this clade through integration analyses, allometry and shape optimizations onto a phylogenetic tree of 104 extant and extinct species. The analyses of shape variation revealed a strong influence of phylogenetic structure and life habits. A remarkable allometric effect was observed for specific mandibular traits. Morphological changes occurring in the alveolar and muscular functional units were moderately associated. Interestingly, the coordinated evolution of these two functional units was decoupled in the clade of extant abrocomids. A sequential and nearly synchronic acquisition of convergent traits has occurred in chinchillids and derived cavioids since at least the early Middle Oligocene, probably derived from grass-feeding habits or similar adaptations to other abrasive items. Convergences between fossorial taxa evolved in two main events through the Oligocene and middle Late Miocene. Morphological analysis of the fossil representatives allowed a better understanding of the timing of trait acquisitions during the evolutionary history of caviomorphs and its relationship with global and regional palaeoenvironmental changes.
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Affiliation(s)
- Alicia Álvarez
- Instituto de Ecorregiones Andinas (INECOA), Universidad Nacional de Jujuy, CONICET, IdGyM, San Salvador de Jujuy, Jujuy, Argentina
| | - Marcos D Ercoli
- Instituto de Ecorregiones Andinas (INECOA), Universidad Nacional de Jujuy, CONICET, IdGyM, San Salvador de Jujuy, Jujuy, Argentina
| | - Diego H Verzi
- Sección Mastozoología, Museo de La Plata, CONICET, La Plata, Buenos Aires, Argentina
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8
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Deep changes in masticatory patterns and masseteric musculature configurations accompanied the eco-morphological evolution of cavioid rodents (Hystricognathi, Caviomorpha). Mamm Biol 2019. [DOI: 10.1016/j.mambio.2019.03.009] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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9
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Digging for the spiny rat and hutia phylogeny using a gene capture approach, with the description of a new mammal subfamily. Mol Phylogenet Evol 2019; 136:241-253. [PMID: 30885830 DOI: 10.1016/j.ympev.2019.03.007] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2018] [Revised: 03/13/2019] [Accepted: 03/14/2019] [Indexed: 02/07/2023]
Abstract
Next generation sequencing (NGS) and genomic database mining allow biologists to gather and select large molecular datasets well suited to address phylogenomics and molecular evolution questions. Here we applied this approach to a mammal family, the Echimyidae, for which generic relationships have been difficult to recover and often referred to as a star phylogeny. These South-American spiny rats represent a family of caviomorph rodents exhibiting a striking diversity of species and life history traits. Using a NGS exon capture protocol, we isolated and sequenced ca. 500 nuclear DNA exons for 35 species belonging to all major echimyid and capromyid clades. Exons were carefully selected to encompass as much diversity as possible in terms of rate of evolution, heterogeneity in the distribution of site-variation and nucleotide composition. Supermatrix inferences and coalescence-based approaches were subsequently applied to infer this family's phylogeny. The inferred topologies were the same for both approaches, and support was maximal for each node, entirely resolving the ambiguous relationships of previous analyses. Fast-evolving nuclear exons tended to yield more reliable phylogenies, as slower-evolving sequences were not informative enough to disentangle the short branches of the Echimyidae radiation. Based on this resolved phylogeny and on molecular and morphological evidence, we confirm the rank of the Caribbean hutias - formerly placed in the Capromyidae family - as Capromyinae, a clade nested within Echimyidae. We also name and define Carterodontinae, a new subfamily of Echimyidae, comprising the extant monotypic genus Carterodon from Brazil, which is the closest living relative of West Indies Capromyinae.
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10
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Rasia LL, Candela AM. Upper molar morphology, homologies and evolutionary patterns of chinchilloid rodents (Mammalia, Caviomorpha). J Anat 2019; 234:50-65. [PMID: 30402944 PMCID: PMC6284437 DOI: 10.1111/joa.12895] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/11/2018] [Indexed: 11/28/2022] Open
Abstract
Chinchilloidea are a clade of caviomorph rodents that includes seven living species, the Dinomyidae Dinomys branickii, the Chinchillidae Lagostomus maximus, two species of Chinchilla and three species of Lagidium. In addition, two extinct families are traditionally considered chinchilloids - Neoepiblemidae and Cephalomyidae. The phylogeny of the Chinchilloidea has so far not been well established and is based on partial analyses. Studying the anatomy and ontogeny of extinct and extant taxa, we propose homologies for the upper molars of Chinchilloidea for which these homologies have not been previously proposed: that is the Chinchillidae Prolagostomus, Lagostomus, Lagidium and Chinchilla, and the Neoepiblemidae Neoepiblema and Phoberomys. We identify patterns of occlusal simplification within Chinchilloidea and evaluate its importance in an evolutionary context. A phylogenetic analysis recovered Dinomyidae, Chinchillidae and Neoepiblemidae as clades. 'Cephalomyidae' have not been not recovered as a monophyletic group and 'cephalomyids' are closely related to Neoepiblemidae. Branisamys is not included within the Dinomyidae and appears to be a basal chinchilloid.
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Affiliation(s)
- Luciano Luis Rasia
- División Paleontología VertebradosMuseo de La PlataLa PlataArgentina
- CONICETArgentina
| | - Adriana M. Candela
- División Paleontología VertebradosMuseo de La PlataLa PlataArgentina
- CONICETArgentina
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11
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Fabre PH, Tilak MK, Denys C, Gaubert P, Nicolas V, Douzery EJP, Marivaux L. Flightless scaly-tailed squirrels never learned how to fly: A reappraisal of Anomaluridae phylogeny. ZOOL SCR 2018. [DOI: 10.1111/zsc.12286] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Pierre-Henri Fabre
- Institut des Sciences de l’Évolution de Montpellier (ISE-M, UMR 5554, CNRS/UM/IRD/EPHE); c.c. 064; Université de Montpellier; Montpellier France
- National Museum of Natural History; Smithsonian Institution; Washington DC USA
| | - Marie-Ka Tilak
- Institut des Sciences de l’Évolution de Montpellier (ISE-M, UMR 5554, CNRS/UM/IRD/EPHE); c.c. 064; Université de Montpellier; Montpellier France
| | - Christiane Denys
- Institut de Systématique, Évolution, Biodiversité; ISYEB - UMR 7205, CNRS, MNHN, UPMC, EPHE; Muséum National d’Histoire Naturelle; Sorbonne Universités; Paris France
| | - Philippe Gaubert
- Institut des Sciences de l’Évolution de Montpellier (ISE-M, UMR 5554, CNRS/UM/IRD/EPHE); c.c. 064; Université de Montpellier; Montpellier France
- Laboratoire Evolution et Diversité Biologique (EDB) - UPS-CNRS- IRD; Université Paul Sabatier; Toulouse France
| | - Violaine Nicolas
- Institut de Systématique, Évolution, Biodiversité; ISYEB - UMR 7205, CNRS, MNHN, UPMC, EPHE; Muséum National d’Histoire Naturelle; Sorbonne Universités; Paris France
| | - Emmanuel J. P. Douzery
- Institut des Sciences de l’Évolution de Montpellier (ISE-M, UMR 5554, CNRS/UM/IRD/EPHE); c.c. 064; Université de Montpellier; Montpellier France
| | - Laurent Marivaux
- Institut des Sciences de l’Évolution de Montpellier (ISE-M, UMR 5554, CNRS/UM/IRD/EPHE); c.c. 064; Université de Montpellier; Montpellier France
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12
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Boivin M, Marivaux L, Salas-Gismondi R, Vieytes EC, Antoine PO. Incisor Enamel Microstructure of Paleogene Caviomorph Rodents from Contamana and Shapaja (Peruvian Amazonia). J MAMM EVOL 2018. [DOI: 10.1007/s10914-018-9430-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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13
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Álvarez A, Arévalo RLM, Verzi DH. Diversification patterns and size evolution in caviomorph rodents. Biol J Linn Soc Lond 2017. [DOI: 10.1093/biolinnean/blx026] [Citation(s) in RCA: 45] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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14
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Bradham J, Flynn JJ, Croft DA, Wyss AR. New Notoungulates (Notostylopidae and Basal Toxodontians) from the Early Oligocene Tinguiririca Fauna of the Andean Main Range, Central Chile. AMERICAN MUSEUM NOVITATES 2015. [DOI: 10.1206/3841.1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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15
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Contrasting Phylogenetic and Diversity Patterns in Octodontoid Rodents and a New Definition of the Family Abrocomidae. J MAMM EVOL 2015. [DOI: 10.1007/s10914-015-9301-1] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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16
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Arnal M, Vucetich MG. Main radiation events in Pan-Octodontoidea (Rodentia, Caviomorpha). Zool J Linn Soc 2015. [DOI: 10.1111/zoj.12288] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Michelle Arnal
- CONICET; Departamento Paleontología de Vertebrados; Facultad de Ciencias Naturales y Museo; Paseo del Bosque s/n 1900 La Plata Argentina
| | - María G. Vucetich
- CONICET; Departamento Paleontología de Vertebrados; Facultad de Ciencias Naturales y Museo; Paseo del Bosque s/n 1900 La Plata Argentina
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17
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Affiliation(s)
- Richard F. Kay
- Department of Evolutionary Anthropology and Division of Earth and Ocean Sciences, Duke University, Durham, NC 27708, USA
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18
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Patterson BD, Upham NS. A newly recognized family from the Horn of Africa, the Heterocephalidae (Rodentia: Ctenohystrica). Zool J Linn Soc 2014. [DOI: 10.1111/zoj.12201] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Bruce D. Patterson
- Integrative Research Center; Field Museum of Natural History; 1400 S. Lake Shore Drive Chicago 60605 IL USA
| | - Nathan S. Upham
- Committee on Evolutionary Biology; University of Chicago; 5734 S. Ellis Ave Chicago 60637 IL USA
- Department of Biology; McMaster University; 1280 Main Street West Hamilton L8S4L8 ON Canada
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19
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Perez SI, Tejedor MF, Novo NM, Aristide L. Divergence Times and the Evolutionary Radiation of New World Monkeys (Platyrrhini, Primates): An Analysis of Fossil and Molecular Data. PLoS One 2013; 8:e68029. [PMID: 23826358 PMCID: PMC3694915 DOI: 10.1371/journal.pone.0068029] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2012] [Accepted: 05/24/2013] [Indexed: 11/20/2022] Open
Abstract
The estimation of phylogenetic relationships and divergence times among a group of organisms is a fundamental first step toward understanding its biological diversification. The time of the most recent or last common ancestor (LCA) of extant platyrrhines is one of the most controversial among scholars of primate evolution. Here we use two molecular based approaches to date the initial divergence of the platyrrhine clade, Bayesian estimations under a relaxed-clock model and substitution rate plus generation time and body size, employing the fossil record and genome datasets. We also explore the robustness of our estimations with respect to changes in topology, fossil constraints and substitution rate, and discuss the implications of our findings for understanding the platyrrhine radiation. Our results suggest that fossil constraints, topology and substitution rate have an important influence on our divergence time estimates. Bayesian estimates using conservative but realistic fossil constraints suggest that the LCA of extant platyrrhines existed at ca. 29 Ma, with the 95% confidence limit for the node ranging from 27-31 Ma. The LCA of extant platyrrhine monkeys based on substitution rate corrected by generation time and body size was established between 21-29 Ma. The estimates based on the two approaches used in this study recalibrate the ages of the major platyrrhine clades and corroborate the hypothesis that they constitute very old lineages. These results can help reconcile several controversial points concerning the affinities of key early Miocene fossils that have arisen among paleontologists and molecular systematists. However, they cannot resolve the controversy of whether these fossil species truly belong to the extant lineages or to a stem platyrrhine clade. That question can only be resolved by morphology. Finally, we show that the use of different approaches and well supported fossil information gives a more robust divergence time estimate of a clade.
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Affiliation(s)
- S. Ivan Perez
- División Antropología at Museo de La Plata, CONICET, La Plata, Buenos Aires Province, Argentina
| | - Marcelo F. Tejedor
- Centro Nacional Patagónico, CONICET, Puerto Madryn, Chubut Province, Argentina
| | - Nelson M. Novo
- Centro Nacional Patagónico, CONICET, Puerto Madryn, Chubut Province, Argentina
| | - Leandro Aristide
- División Antropología at Museo de La Plata, CONICET, La Plata, Buenos Aires Province, Argentina
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Voloch CM, Vilela JF, Loss-Oliveira L, Schrago CG. Phylogeny and chronology of the major lineages of New World hystricognath rodents: insights on the biogeography of the Eocene/Oligocene arrival of mammals in South America. BMC Res Notes 2013; 6:160. [PMID: 23607317 PMCID: PMC3644239 DOI: 10.1186/1756-0500-6-160] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2012] [Accepted: 04/11/2013] [Indexed: 11/30/2022] Open
Abstract
Background The hystricognath rodents of the New World, the Caviomorpha, are a diverse lineage with a long evolutionary history, and their representation in South American fossil record begins with their occurrence in Eocene deposits from Peru. Debates regarding the origin and diversification of this group represent longstanding issues in mammalian evolution because early hystricognaths, as well as Platyrrhini primates, appeared when South American was an isolated landmass, which raised the possibility of a synchronous arrival of these mammalian groups. Thus, an immediate biogeographic problem is posed by the study of caviomorph origins. This problem has motivated the analysis of hystricognath evolution with molecular dating techniques that relied essentially on nuclear data. However, questions remain about the phylogeny and chronology of the major caviomorph lineages. To enhance the understanding of the evolution of the Hystricognathi in the New World, we sequenced new mitochondrial genomes of caviomorphs and performed a combined analysis with nuclear genes. Results Our analysis supports the existence of two major caviomorph lineages: the (Chinchilloidea + Octodontoidea) and the (Cavioidea + Erethizontoidea), which diverged in the late Eocene. The Caviomorpha/phiomorph divergence also occurred at approximately 43 Ma. We inferred that all family-level divergences of New World hystricognaths occurred in the early Miocene. Conclusion The molecular estimates presented in this study, inferred from the combined analysis of mitochondrial genomes and nuclear data, are in complete agreement with the recently proposed paleontological scenario of Caviomorpha evolution. A comparison with recent studies on New World primate diversification indicate that although the hypothesis that both lineages arrived synchronously in the Neotropics cannot be discarded, the times elapsed since the most recent common ancestor of the extant representatives of both groups are different.
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Paleogene Land Mammal Faunas of South America; a Response to Global Climatic Changes and Indigenous Floral Diversity. J MAMM EVOL 2013. [DOI: 10.1007/s10914-012-9222-1] [Citation(s) in RCA: 70] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Pérez ME, Pol D. Major radiations in the evolution of Caviid rodents: reconciling fossils, ghost lineages, and relaxed molecular clocks. PLoS One 2012; 7:e48380. [PMID: 23144757 PMCID: PMC3483234 DOI: 10.1371/journal.pone.0048380] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2012] [Accepted: 09/25/2012] [Indexed: 11/25/2022] Open
Abstract
BACKGROUND Caviidae is a diverse group of caviomorph rodents that is broadly distributed in South America and is divided into three highly divergent extant lineages: Caviinae (cavies), Dolichotinae (maras), and Hydrochoerinae (capybaras). The fossil record of Caviidae is only abundant and diverse since the late Miocene. Caviids belongs to Cavioidea sensu stricto (Cavioidea s.s.) that also includes a diverse assemblage of extinct taxa recorded from the late Oligocene to the middle Miocene of South America ("eocardiids"). RESULTS A phylogenetic analysis combining morphological and molecular data is presented here, evaluating the time of diversification of selected nodes based on the calibration of phylogenetic trees with fossil taxa and the use of relaxed molecular clocks. This analysis reveals three major phases of diversification in the evolutionary history of Cavioidea s.s. The first two phases involve two successive radiations of extinct lineages that occurred during the late Oligocene and the early Miocene. The third phase consists of the diversification of Caviidae. The initial split of caviids is dated as middle Miocene by the fossil record. This date falls within the 95% higher probability distribution estimated by the relaxed Bayesian molecular clock, although the mean age estimate ages are 3.5 to 7 Myr older. The initial split of caviids is followed by an obscure period of poor fossil record (referred here as the Mayoan gap) and then by the appearance of highly differentiated modern lineages of caviids, which evidentially occurred at the late Miocene as indicated by both the fossil record and molecular clock estimates. CONCLUSIONS The integrated approach used here allowed us identifying the agreements and discrepancies of the fossil record and molecular clock estimates on the timing of the major events in cavioid evolution, revealing evolutionary patterns that would not have been possible to gather using only molecular or paleontological data alone.
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Affiliation(s)
| | - Diego Pol
- CONICET, Museo Paleontológico Egidio Feruglio, Trelew, Chubut Province, Argentina
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A New Early Miocene Chinchilloid Hystricognath Rodent; an Approach to the Understanding of the Early Chinchillid Dental Evolution. J MAMM EVOL 2012. [DOI: 10.1007/s10914-012-9215-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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