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      Relict duck-billed dinosaurs survived into the last age of the dinosaurs in subantarctic Chile

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          Abstract

          In the dusk of the Mesozoic, advanced duck-billed dinosaurs (Hadrosauridae) were so successful that they likely outcompeted other herbivores, contributing to declines in dinosaur diversity. From Laurasia, hadrosaurids dispersed widely, colonizing Africa, South America, and, allegedly, Antarctica. Here, we present the first species of a duck-billed dinosaur from a subantarctic region, Gonkoken nanoi, of early Maastrichtian age in Magallanes, Chile. Unlike duckbills further north in Patagonia, Gonkoken descends from North American forms diverging shortly before the origin of Hadrosauridae. However, at the time, non-hadrosaurids in North America had become replaced by hadrosaurids. We propose that the ancestors of Gonkoken arrived earlier in South America and reached further south, into regions where hadrosaurids never arrived: All alleged subantarctic and Antarctic remains of hadrosaurids could belong to non-hadrosaurid duckbills like Gonkoken. Dinosaur faunas of the world underwent qualitatively different changes before the Cretaceous-Paleogene asteroid impact, which should be considered when discussing their possible vulnerability.

          Abstract

          Subantarctic fossils rewrite the biogeographic history of duck-billed dinosaurs and their role in pre-extinction ecosystems.

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          MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

          Since its introduction in 2001, MrBayes has grown in popularity as a software package for Bayesian phylogenetic inference using Markov chain Monte Carlo (MCMC) methods. With this note, we announce the release of version 3.2, a major upgrade to the latest official release presented in 2003. The new version provides convergence diagnostics and allows multiple analyses to be run in parallel with convergence progress monitored on the fly. The introduction of new proposals and automatic optimization of tuning parameters has improved convergence for many problems. The new version also sports significantly faster likelihood calculations through streaming single-instruction-multiple-data extensions (SSE) and support of the BEAGLE library, allowing likelihood calculations to be delegated to graphics processing units (GPUs) on compatible hardware. Speedup factors range from around 2 with SSE code to more than 50 with BEAGLE for codon problems. Checkpointing across all models allows long runs to be completed even when an analysis is prematurely terminated. New models include relaxed clocks, dating, model averaging across time-reversible substitution models, and support for hard, negative, and partial (backbone) tree constraints. Inference of species trees from gene trees is supported by full incorporation of the Bayesian estimation of species trees (BEST) algorithms. Marginal model likelihoods for Bayes factor tests can be estimated accurately across the entire model space using the stepping stone method. The new version provides more output options than previously, including samples of ancestral states, site rates, site d N /d S rations, branch rates, and node dates. A wide range of statistics on tree parameters can also be output for visualization in FigTree and compatible software.
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            APE: Analyses of Phylogenetics and Evolution in R language.

            Analysis of Phylogenetics and Evolution (APE) is a package written in the R language for use in molecular evolution and phylogenetics. APE provides both utility functions for reading and writing data and manipulating phylogenetic trees, as well as several advanced methods for phylogenetic and evolutionary analysis (e.g. comparative and population genetic methods). APE takes advantage of the many R functions for statistics and graphics, and also provides a flexible framework for developing and implementing further statistical methods for the analysis of evolutionary processes. The program is free and available from the official R package archive at http://cran.r-project.org/src/contrib/PACKAGES.html#ape. APE is licensed under the GNU General Public License.
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              Model selection in historical biogeography reveals that founder-event speciation is a crucial process in Island Clades.

              Founder-event speciation, where a rare jump dispersal event founds a new genetically isolated lineage, has long been considered crucial by many historical biogeographers, but its importance is disputed within the vicariance school. Probabilistic modeling of geographic range evolution creates the potential to test different biogeographical models against data using standard statistical model choice procedures, as long as multiple models are available. I re-implement the Dispersal-Extinction-Cladogenesis (DEC) model of LAGRANGE in the R package BioGeoBEARS, and modify it to create a new model, DEC + J, which adds founder-event speciation, the importance of which is governed by a new free parameter, [Formula: see text]. The identifiability of DEC and DEC + J is tested on data sets simulated under a wide range of macroevolutionary models where geography evolves jointly with lineage birth/death events. The results confirm that DEC and DEC + J are identifiable even though these models ignore the fact that molecular phylogenies are missing many cladogenesis and extinction events. The simulations also indicate that DEC will have substantially increased errors in ancestral range estimation and parameter inference when the true model includes + J. DEC and DEC + J are compared on 13 empirical data sets drawn from studies of island clades. Likelihood-ratio tests indicate that all clades reject DEC, and AICc model weights show large to overwhelming support for DEC + J, for the first time verifying the importance of founder-event speciation in island clades via statistical model choice. Under DEC + J, ancestral nodes are usually estimated to have ranges occupying only one island, rather than the widespread ancestors often favored by DEC. These results indicate that the assumptions of historical biogeography models can have large impacts on inference and require testing and comparison with statistical methods. © The Author(s) 2014. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. All rights reserved. For Permissions, please email: journals.permissions@oup.com.
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                Author and article information

                Contributors
                Role: ConceptualizationRole: Formal analysisRole: InvestigationRole: MethodologyRole: Project administrationRole: SupervisionRole: ValidationRole: VisualizationRole: Writing - original draftRole: Writing - review & editing
                Role: ConceptualizationRole: Funding acquisitionRole: InvestigationRole: MethodologyRole: Project administrationRole: ResourcesRole: SupervisionRole: ValidationRole: Writing - original draftRole: Writing - review & editing
                Role: Data curationRole: Formal analysisRole: InvestigationRole: MethodologyRole: SoftwareRole: ValidationRole: VisualizationRole: Writing - review & editing
                Role: ConceptualizationRole: InvestigationRole: MethodologyRole: ResourcesRole: VisualizationRole: Writing - review & editing
                Role: ConceptualizationRole: MethodologyRole: VisualizationRole: Writing - original draftRole: Writing - review & editing
                Role: ConceptualizationRole: Funding acquisitionRole: InvestigationRole: Project administrationRole: ResourcesRole: SupervisionRole: ValidationRole: Writing - review & editing
                Role: ConceptualizationRole: Data curationRole: Formal analysisRole: InvestigationRole: MethodologyRole: ResourcesRole: SoftwareRole: ValidationRole: VisualizationRole: Writing - original draftRole: Writing - review & editing
                Role: InvestigationRole: MethodologyRole: VisualizationRole: Writing - original draft
                Role: Formal analysisRole: InvestigationRole: MethodologyRole: ResourcesRole: SupervisionRole: VisualizationRole: Writing - review & editing
                Role: Formal analysisRole: Methodology
                Role: ConceptualizationRole: Funding acquisitionRole: InvestigationRole: Project administrationRole: ResourcesRole: SupervisionRole: Writing - original draftRole: Writing - review & editing
                Role: ConceptualizationRole: Funding acquisitionRole: InvestigationRole: Writing - review & editing
                Role: InvestigationRole: Writing - review & editing
                Role: InvestigationRole: Writing - original draftRole: Writing - review & editing
                Role: InvestigationRole: Resources
                Role: ConceptualizationRole: MethodologyRole: ResourcesRole: SupervisionRole: ValidationRole: VisualizationRole: Writing - review & editing
                Role: ConceptualizationRole: InvestigationRole: ValidationRole: VisualizationRole: Writing - original draftRole: Writing - review & editing
                Role: ConceptualizationRole: InvestigationRole: MethodologyRole: SupervisionRole: ValidationRole: Writing - original draftRole: Writing - review & editing
                Journal
                Sci Adv
                Sci Adv
                sciadv
                advances
                Science Advances
                American Association for the Advancement of Science
                2375-2548
                June 2023
                16 June 2023
                : 9
                : 24
                : eadg2456
                Affiliations
                [ 1 ]Red Paleontológica U-Chile, Departamento de Biología, Facultad de Ciencias, Universidad de Chile, Santiago, Chile.
                [ 2 ]Departamento de Ciencias Ecológicas, Facultad de Ciencias, Universidad de Chile, Santiago, Chile.
                [ 3 ]Área Paleontología, Museo Nacional de Historia Natural de Chile, Santiago, Chile.
                [ 4 ]School of GeoSciences, University of Edinburgh, Grant Institute, Edinburgh, UK.
                [ 5 ]KayTreng Consultores SpA, Ñuñoa, Santiago, Chile.
                [ 6 ]Escuela de Geología, Facultad de Ciencias, Universidad Mayor, Manuel Montt 367, Providencia, Santiago, Chile.
                [ 7 ]Universidade do Vale do Rio dos Sinos, São Leopoldo, Brazil.
                [ 8 ]Laboratorio de Paleobiología, Instituto Nacional Antártico Chileno, Punta Arenas, Chile.
                [ 9 ]Fundación Félix de Azara, Argentina, CONICET, Buenos Aires, Argentina.
                [ 10 ]Universidad de Concepción, Concepción, Chile.
                [ 11 ]Paleo Consultores, Pedro de Valdivia 273, Providencia 1602, Chile.
                [ 12 ]Facultad de Ciencias Biológicas, Pontificia Universidad Católica de Chile, Santiago, Chile.
                [ 13 ]Institut für Geowissenschaften, Ruprecht-Karls-Universität Heidelberg, Im Neuenheimer Feld 234-236, Heidelberg 69120, Germany.
                [ 14 ]Staatliches Museum für Naturkunde Karlsruhe (SMNK), Erbprinzenstraße 13, Karlsruhe 76133, Germany.
                [ 15 ]Universidad de Magallanes, Punta Arenas, Chile.
                [ 16 ]Área de Paleontología, Departamento de Biología Animal, Edafología y Geología, Universidad de La Laguna, Tenerife, Spain.
                [ 17 ]Grupo Aragosaurus-IUCA, Facultad de Ciencias, Universidad de Zaragoza, Zaragoza, Spain.
                Author notes
                [* ]Corresponding author. Email: jhoalarc@ 123456gmail.cl (J.A.-M.); alexvargas@ 123456uchile.cl (A.O.V.)
                [†]

                Present address: Sonnenbergstraße 27, 75180 Pforzheim, Germany.

                Author information
                https://orcid.org/0000-0001-7275-087X
                https://orcid.org/0000-0002-2009-7116
                https://orcid.org/0000-0002-6130-9322
                https://orcid.org/0000-0002-9311-9355
                https://orcid.org/0000-0002-0797-0355
                https://orcid.org/0000-0002-1545-8167
                https://orcid.org/0000-0002-5945-0044
                https://orcid.org/0000-0002-9849-0428
                https://orcid.org/0000-0002-0823-2434
                https://orcid.org/0000-0002-5049-7276
                https://orcid.org/0000-0002-5265-3527
                https://orcid.org/0000-0002-2092-023X
                https://orcid.org/0000-0002-1498-435X
                https://orcid.org/0000-0001-6010-3990
                https://orcid.org/0000-0001-8240-4188
                https://orcid.org/0000-0002-5819-8254
                Article
                adg2456
                10.1126/sciadv.adg2456
                10275600
                85705e21-cf8f-4f89-847a-9b5b59c8561e
                Copyright © 2023 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works. Distributed under a Creative Commons Attribution License 4.0 (CC BY).

                This is an open-access article distributed under the terms of the Creative Commons Attribution license, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 13 December 2022
                : 11 May 2023
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/501100002850, Fondo Nacional de Desarrollo Científico y Tecnológico;
                Award ID: 1190891
                Funded by: FundRef http://dx.doi.org/10.13039/501100002850, Fondo Nacional de Desarrollo Científico y Tecnológico;
                Award ID: 1151389
                Funded by: FundRef http://dx.doi.org/10.13039/501100020884, Agencia Nacional de Investigación y Desarrollo;
                Award ID: ACT172099
                Categories
                Research Article
                Earth, Environmental, Ecological, and Space Sciences
                SciAdv r-articles
                Evolutionary Biology
                Paleontology
                Paleontology
                Custom metadata
                Penchie Limbo

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