A5003611094- Evolution and Paleontology Studies
- Genomics and Phylogenetic Studies
- Marine Biology and Ecology Research
- Echinoderm biology and ecology
- Paleontology and Stratigraphy of Fossils
- Coral and Marine Ecosystems Studies
- Medical Imaging Techniques and Applications
- Paleontology and Evolutionary Biology
- Genetic diversity and population structure
- Marine and coastal plant biology
- Morphological variations and asymmetry
- Radiomics and Machine Learning in Medical Imaging
- Insect behavior and control techniques
- Geological and Geophysical Studies
- Geology and Paleoclimatology Research
- Amphibian and Reptile Biology
- Subterranean biodiversity and taxonomy
- Ichthyology and Marine Biology
- Botanical Research and Applications
- Ecology and Vegetation Dynamics Studies
- Fossil Insects in Amber
- Pleistocene-Era Hominins and Archaeology
- Advanced X-ray and CT Imaging
- Biomedical Text Mining and Ontologies
- Meta-analysis and systematic reviews
Scripps Institution of Oceanography
2021-2025
Yale University
2016-2025
University of California, San Diego
2021-2025
American Museum of Natural History
2017-2025
Planetary Science Institute
2020-2022
Whitney Museum of American Art
2017-2021
University of Buenos Aires
2012-2017
Fundación Ciencias Exactas y Naturales
2014-2017
Institute of Astronomy and Space Physics
2015-2017
Consejo Nacional de Investigaciones Científicas y Técnicas
2016
Abstract Phylogenomic subsampling is a procedure by which small sets of loci are selected from large genome-scale data and used for phylogenetic inference. This step often motivated either computational limitations associated with the use complex inference methods or as means testing robustness results discarding that deemed potentially misleading. Although many alternative phylogenomic have been proposed, little effort has gone into comparing their behavior across different sets. Here, I...
Fossils provide our only direct window into evolutionary events in the distant past. Incorporating them phylogenetic hypotheses of living clades can help time-calibrate divergences, as well elucidate macroevolutionary dynamics. However, effect fossils have on reconstruction from morphology remains controversial. The consequences explicitly incorporating stratigraphic ages using tip-dated inference are also unclear. Here, we use simulations to evaluate performance methods across different...
The methane seeps on the Pacific margin of Costa Rica support extensive animal diversity and offer insights into deep-sea biogeography. During five expeditions between 2009 2019, we conducted intensive faunal sampling via 63 submersible dives to 11 localities at depths 300–3600 m. Based these published literature, compiled voucher specimens, images, 274 newly DNA sequences present a taxonomic inventory macrofaunal megafaunal with focus invertebrates. In total 488 morphospecies were...
Echinoidea is a clade of marine animals including sea urchins, heart sand dollars and biscuits. Found in benthic habitats across all latitudes, echinoids are key components communities such as coral reefs kelp forests. A little over 1000 species inhabit the oceans today, diversity that traces its roots back at least to Permian. Although much effort has been devoted elucidating echinoid tree life using variety morphological data, molecular attempts have relied on only handful genes. Both...
Abstract Phylogenomic and paleontological data constitute complementary resources for unraveling the phylogenetic relationships divergence times of lineages, yet few studies have attempted to fully integrate them. Several unique properties echinoids (sea urchins) make them especially useful such synthesizing approaches, including a remarkable fossil record that can be incorporated into explicit hypotheses. We revisit phylogeny crown group Echinoidea using total-evidence dating approach...
Fossils are the only remaining evidence of majority species that have ever existed, providing a direct window into events in evolutionary history shaped diversification life on Earth. Phylogenies underpin our ability to make sense evolution but routinely inferred using data available from living organisms. Although extinct taxa been shown add crucial information for inferring macroevolutionary patterns and processes (such as ancestral states, paleobiogeography dynamics), role fossils play...
Echinoids are key components of modern marine ecosystems. Despite a remarkable fossil record, the emergence their crown group is documented by few specimens unclear affinities, rendering early history uncertain. The origin sand dollars, one its most distinctive clades, also due to an unstable phylogenetic context. We employ 18 novel genomes and transcriptomes build phylogenomic dataset with near-complete sampling major lineages. With it, we revise phylogeny divergence times echinoids, place...
Research Article| February 15, 2018 A mineralogical signature for Burgess Shale–type fossilization Ross P. Anderson; Anderson * 1Department of Geology and Geophysics, Yale University, New Haven, Connecticut 06511, USA2All Souls College, University Oxford, Oxford OX1 4AL, UK3Department Earth Sciences, 3AN, UK *E-mail: ross.anderson@all-souls.ox.ac.uk Search other works by this author on: GSW Google Scholar Nicholas J. Tosca; Tosca 3Department Robert R. Gaines; Gaines 4Geology Department,...
Sea cucumbers (Holothuroidea) are a diverse clade of echinoderms found from intertidal waters to the bottom deepest oceanic trenches. Their reduced skeletons and limited number phylogenetically informative traits have long obfuscated morphological classifications. Sanger-sequenced molecular datasets also failed constrain position major lineages. Noteworthy, topological uncertainty has hindered resolution for Neoholothuriida, highly Permo-Triassic age. We perform first phylogenomic analysis...
Neriidae are a small family of acalyptratae flies, mostly distributed in the tropics. Very little is known about their biology, and evolutionary relationships among species have never been evaluated. We perform first comprehensive phylogenetic analysis family, including 48 from all biogeographic regions inhabited, as well five Micropezidae one Cypselosomatidae outgroups. build morphological data matrix 194 characters, 72 continuous characters. explore ways to deal with issue scaling...
Eurypterids-Palaeozoic marine and freshwater arthropods commonly known as sea scorpions-repeatedly evolved to remarkable sizes (over 0.5 m in length) colonized continental aquatic habitats multiple times. We compiled data on the majority of eurypterid species explored several previously proposed explanations for evolution giant size group, including potential role habitat, surface temperature dissolved oxygen levels, using a phylogenetic comparative approach with new tip-dated tree. There is...
The role of phenotypic modularity in the evolution skull morphology birds has been a subject debate recent years. Furnariids (ovenbirds and woodcreepers), spectacular avian adaptive radiation, are distinguished their cranial as only passerines with two types kinesis, constituting great model to test whether novelties linked kinesis was associated shifts patterns evolutionary allometry skull. Our analyses by means geometric morphometric tools phylogenetic comparative methods show that beak...
Phylogenetic clock models translate inferred amounts of evolutionary change (calculated from either genotypes or phenotypes) into estimates elapsed time, providing a mechanism for time scaling phylogenetic trees. Relaxed models, which accommodate variation in rates across branches, are one the main components Bayesian dating, yet their consequences total-evidence phylogenetics have not been thoroughly explored. Here, we combine morphological, molecular (both transcriptomic and...
Much of our understanding the history life hinges upon time calibration, process assigning absolute times to cladogenetic events. Bayesian approaches scaling phylogenetic trees have dramatically grown in complexity, and depend today numerous methodological choices. Arriving at objective justifications for all these is difficult consuming. Thus, divergence are routinely inferred under only one or a handful parametric conditions, often chosen arbitrarily. Progress towards building robust...
The Carboniferous myriapod
The use of quantitative morphometric information for phylogenetic inference has been an intensely debated topic most the history systematics. Despite several drawbacks, common strategy to include this sort data into studies is ratios, that quotients between variables. Here, we discuss one particular problem associated with such methodology: fact often arbitrary election which variable serves as numerator and denominator affects outcome analysis. We describe cause effect, study its...
Abstract Background Taxonomic descriptions are traditionally composed in natural language and published a format that cannot be directly used by computers. The Exploring Taxon Concepts (ETC) project has been developing set of web-based software tools convert morphological telegraphic style to character data can reused repurposed. This paper introduces the first semi-automated pipeline, our knowledge, converts into taxon-character matrices support systematics evolutionary biology research. We...
Squamate reptiles are a major component of vertebrate biodiversity whose crown-clade traces its origin to narrow window time in the Mesozoic during which main subclades diverged rapid succession. Deciphering phylogenetic relationships among these lineages has proven challenging given conflicting signals provided by genomic and phenomic data. Most notably, placement Iguania routinely differed between data sources, with morphological evidence supporting sister relationship remaining squamates...
Abstract Time‐scaled phylogenies underpin the interrogation of evolutionary processes across deep timescales, as well attempts to link these Earth's history. By inferring placement fossils and using their ages temporal constraints, tip dating under fossilized birth–death (FBD) process provides a coherent prior on divergence times. At same time, it also links topological accuracy, incorrectly placed fossil terminals should misinform This could pose serious issues for obtaining accurate node...
While grasslands, one of Earth's major biomes, are known for their close evolutionary ties with ungulate grazers, these habitats also paramount to the origins and diversification other animals. Within primarily South American spider subfamily Amaurobioidinae (Anyphaenidae), several species found living in continent's some displaying putative morphological adaptations dwelling unnoticed grass blades. Herein, a dated molecular phylogeny provides backbone analyses revealing ecological processes...
Abstract Fossils provide our only direct window into evolutionary events in the distant past. Incorporating them phylogenetic hypotheses of living clades can help elucidate macroevolutionary patterns and processes, such as ancestral states diversification dynamics. However, effect fossils have on inference from morphological data remains controversial. Previous studies highlighted their strong impact topologies inferred empirical data, but not demonstrated that they improve accuracy. The...
Sauropod dinosaurs include the largest terrestrial vertebrates that have ever lived. Virtually every part of sauropod body is heavily modified in association with gigantic size and associated physiological alterations. skulls are no exception: they feature elongated, telescoped facial regions connected to tilted neurocrania reoriented jaw adductor muscles. Several these cranial features been suggested be adaptations for feeding on one hand result paedomorphic transformation near base...
Within Polynoidae, a diverse aphroditiform family, the subfamily Macellicephalinae comprises anchialine cave-dwelling and deep-sea scaleworms. In this study, Lepidonotopodinae is synonymized with Macellicephalinae, tribe Lepidonotopodini applied to well-supported clade inhabiting chemosynthetic-based ecosystems. Newly sequenced “genome skimming” data for 30 polynoids comparatively shallow living Eulagisca gigantea used bioinformatically assemble their mitogenomes. When analyzed existing...