Calibrating the tree of vipers under the fossilized birth-death model. [PDF]
Sci Rep, 2019 AbstractScaling evolutionary trees to time is essential for understanding the origins of clades. Recently developed methods allow including the entire fossil record known for the group of interest and eliminated the need for specifying prior distributions for node ages.
Šmíd J, Tolley KA.
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The fossilized birth-death process for coherent calibration of divergence-time estimates. [PDF]
Proc Natl Acad Sci U S A, 2014 Significance Divergence time estimation on an absolute timescale requires external calibration information, which typically is derived from the fossil record. The common practice in Bayesian divergence time estimation involves applying calibration densities to individual nodes.
Heath TA, Huelsenbeck JP, Stadler T.
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Revising dating estimates and the antiquity of eusociality in termites using the fossilized birth–death process [PDF]
Systematic Entomology, 2021 Abstract Deciphering the timing and tempo of lineage diversification of organisms has greatly benefited from advances in Bayesian phylogenetic analyses using morphological data. Those advances, however, have not been used for termites despite a rich fossil record.
Frédéric Legendre +2 more
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Divergence times in demosponges (Porifera): first insights from new mitogenomes and the inclusion of fossils in a birth-death clock model [PDF]
BMC Evolutionary Biology, 2018 Background Approximately 80% of all described extant sponge species belong to the class Demospongiae. Yet, despite their diversity and importance, accurate divergence times are still unknown for most demosponge clades.
Astrid Schuster +6 more
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Deep learning for mass extinction detection on fossilized phylogenies: power, limitations and lessons for simulation-based birth–death inference [PDF]
Royal Society Open ScienceDetecting mass extinction events from phylogenies is a fundamental yet challenging task. While traditional likelihood-based methods are available, deep learning offers a powerful, simulation-based alternative.
Minghao Du +3 more
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Rethinking therapsid phylogeny through Bayesian and cladistic approaches [PDF]
Scientific ReportsTherapsids are early-diverging synapsids that thrived during the Permian and Triassic periods, and ultimately gave rise to mammals. They include six major groups, which already exhibited considerable diversity at their first appearance in the fossil ...
Alienor Duhamel +5 more
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A macroevolutionary analysis of European Late Upper Palaeolithic stone tool shape using a Bayesian phylodynamic framework [PDF]
Royal Society Open SciencePhylogenetic models are commonly used in palaeobiology to study the patterns and processes of organismal evolution. In the human sciences, phylogenetic methods have been deployed for reconstructing ancestor–descendant relationships using linguistic and ...
David N. Matzig +3 more
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Species relationships and divergence times in beeches: new insights from the inclusion of 53 young and old fossils in a birth–death clock model [PDF]
Philosophical Transactions of the Royal Society B: Biological Sciences, 2016 The fossilized birth–death (FBD) model can make use of information contained in multiple fossils representing the same clade, and we here apply this model to infer divergence times in beeches (genus Fagus ), using 53 fossils and nuclear sequences for all nine species. We also apply FBD dating
Paschalia Kapli +2 more
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Correction to: The Fossilized Birth-Death Model Is Identifiable. [PDF]
Syst Bioleuropepmc +3 more sources
A bstract Phylogenetic diversification analyses often overlook the wealth of information contained in fossils that cannot be directly integrated into phylogenetic trees (called fossil occurrences), as well as fine-grained variations in speciation and extinction rates across lineages.
Andréoletti J, Quintero I, Morlon H.
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