A5013894085- Genetic diversity and population structure
- Genomics and Phylogenetic Studies
- Species Distribution and Climate Change
- Evolution and Paleontology Studies
- Wildlife Ecology and Conservation
- Evolution and Genetic Dynamics
- Plant and animal studies
- Ecology and Vegetation Dynamics Studies
- Genetic and phenotypic traits in livestock
- Isotope Analysis in Ecology
- Fish Biology and Ecology Studies
- Animal Ecology and Behavior Studies
- Fish biology, ecology, and behavior
- Amphibian and Reptile Biology
- Fish Ecology and Management Studies
- Genetic Mapping and Diversity in Plants and Animals
- Bayesian Methods and Mixture Models
- Identification and Quantification in Food
- Environmental DNA in Biodiversity Studies
- Marine Biology and Ecology Research
- Bat Biology and Ecology Studies
- Plant Taxonomy and Phylogenetics
- Aquatic life and conservation
- Aquatic Invertebrate Ecology and Behavior
- Avian ecology and behavior
City University of New York
2016-2025
American Museum of Natural History
2016-2025
The Graduate Center, CUNY
2016-2025
City College of New York
2016-2025
City College
2017-2020
Institut thématique Génétique, génomique et bioinformatique
2014
Queens College, CUNY
2007-2012
Swedish Veterinary Agency
2011
Universidade Estadual Paulista (Unesp)
2009
Universidade de São Paulo
2009
Biodiversity hotspots, representing regions with high species endemism and conservation threat, have been mapped globally. Yet, biodiversity distribution data from within hotspots are too sparse for effective in the face of rapid environmental change. Using frogs as indicators, ecological niche models under paleoclimates, simultaneous Bayesian analyses multispecies molecular data, we compare alternative hypotheses assemblage-scale response to late Quaternary climate This reveals a hotspot...
MTML-msBayes uses hierarchical approximate Bayesian computation (HABC) under a coalescent model to infer temporal patterns of divergence and gene flow across codistributed taxon-pairs. Under multiple taxa that diverge into taxon-pairs with subsequent or isolation, one can estimate hyper-parameters quantify the mean variability in times test models migration isolation. The software multi-locus DNA sequence data collected from allows variation demographic parameters as well heterogeneity...
With increasing force, genetic divergence of mitochondrial DNA (mtDNA) is being argued as the primary tool for discovery animal species. Two thresholds single-gene have been proposed: reciprocal monophyly, and 10 times greater between than within species (the "10× rule"). To explore quantitatively utility each approach, we couple neutral coalescent theory classical Bateson-Dobzhansky-Muller (BDM) model speciation. The joint stochastic dynamics these two processes demonstrate that both fail...
Abstract The availability of user‐friendly software and publicly available biodiversity databases has led to a rapid increase in the use ecological niche modelling predict species distributions. A potential source error data that may affect accuracy models (ENMs), one is difficult correct for, incorrect (or incomplete) taxonomy. Here we remind researchers need for careful evaluation database records prior modelling, especially when presence cryptic suspected or many are based on indirect...
The colonization of novel habitats involves complex interactions between founder events, selection, and ongoing migration, can lead to diverse evolutionary outcomes from local extinction adaptation speciation. Although there have been several studies the demography remote habitats, less is known about demographic consequences within a continuous species range. Populations Eastern Fence Lizard, Sceloporus undulatus, are continuously distributed across two dramatic transitions in substrate...
Although testing for simultaneous divergence (vicariance) across different population-pairs that span the same barrier to gene flow is of central importance evolutionary biology, researchers often equate tree and population/species thereby ignoring stochastic coalescent variance in their conclusions temporal incongruence. In contrast other available phylogeographic software packages, msBayes only one analyses data from multiple species/population pairs under a hierarchical model. employs...
We review the expanding role of molecular genetics in emergence a vibrant and vital integrative biogeography. The enormous growth over past several decades number variety molecular-based phylogenetic population studies has become core information used by biogeographers to reconstruct causal connections between historical evolutionary ecological attributes taxa biotas, landscapes seascapes that contain them. A proliferation different approaches, sequences, genomes have provided for...
We apply a comparative framework to test for concerted demographic changes in response climate shifts the neotropical lowland forests, learning from past inform projections of future. Using reduced genomic (SNP) data three lizard species codistributed Amazonia and Atlantic Forest ( Anolis punctatus , ortonii Polychrus marmoratus ), we first reconstruct former population history assemblage-level responses cycles moisture transport recently implicated forest distribution during Late...
The allele frequency spectrum (AFS) consists of counts the number single nucleotide polymorphism (SNP) loci with derived variants present at each given in a sample. Multiple approaches have recently been developed for parameter estimation and calculation model likelihoods based on joint AFS from two or more populations. We conducted simulation study one these approaches, implemented Python module δaδi, to compare selection accuracy different sample sizes under one- two-population models. Our...
Cyclical contractions and expansions of floodplain environments are linked to the evolution Amazonian biodiversity.
Comparative phylogeographic studies often reveal disparate levels of sequence divergence between lineages spanning a common geographic barrier, leading to the conclusion that isolation was nonsynchronous. However, only rarely do researchers account for expected variance associated with ancestral coalescence and among-taxon variation in demographic history. We introduce flexible approximate Bayesian computational (ABC) framework can test simultaneous (TSD) using hierarchical model...
Marine allopatric speciation is an enigma because pelagic larval dispersal can potentially connect disjunct populations thereby preventing reproductive and morphological divergence. Here we present a new hierarchical approximate Bayesian computation model (HABC) that tests two hypotheses of marine speciation: 1.) "soft vicariance", where involves fragmentation large widespread ancestral species range was previously connected by long distance gene flow; 2.) peripatric colonization,...
Abstract Testing for simultaneous vicariance across comparative phylogeographic data sets is a notoriously difficult problem hindered by mutational variance, the coalescent and variability pairs of sister taxa in parameters that affect genetic divergence. We simulate to characterize behaviour several commonly used summary statistics range divergence times, this datasets having multiple taxon‐pairs. found Tajima's D be relatively uncorrelated with other using simple hypothesis testing given...
Though Pleistocene refugia are frequently cited as drivers of species diversification, comparisons molecular divergence among sister typically indicate a continuum times from the Late Miocene, rather than clear pulse speciation events at Last Glacial Maximum. Community-scale inference methods that explicitly test for multiple vicariance events, and account differences in ancestral effective population size gene flow, well suited detecting heterogeneity species' responses to past climate...
Before populations become independent evolutionary lineages, the effects of micro processes tend to generate complex scenarios diversification that may affect phylogenetic reconstruction. Not accounting for gene flow in species tree estimates can directly impact topology, effective population sizes and branch lengths, resulting estimation errors are still poorly understood wild populations. In this study, we used an integrative approach, including sequence capture ultra-conserved elements...
Divergence in sexual signals may drive reproductive isolation between lineages, but behavioural barriers can weaken contact zones. Here, we investigate the role of song as a and genetic barrier zone two subspecies white-crowned sparrows (Zonotrichia leucophrys). We employed reduced genomic data set to assess population structure infer history underlying divergence, gene flow hybridization. also measured divergence tested responses using playback experiments within outside zone. found that...
Abstract Pleistocene climatic cycles altered species distributions in the Eastern Nearctic of North America, yet degree congruent demographic response to among codistributed taxa remains unknown. We use a hierarchical approximate Bayesian computational approach test if population sizes across lineages snakes, lizards, turtles, mammals, birds, salamanders and frogs this region expanded synchronously Late climate changes. Expansion occurred 75% 74 lineages, these, size trajectories community...
Abstract The study of biodiversity started as a single unified field that spanned both ecology and evolution macro micro phenomena. But over the 20th century, major trends drove apart pushed an emphasis towards perspective in disciplines. Macroecology macroevolution re‐emerged self‐consciously distinct fields 1970s 1980s, but they remain largely separated from each other. Here, we argue despite challenges, it is worth working to combine macroecology macroevolution. We present 25 fundamental...
Understanding global patterns of genetic diversity is essential for describing, monitoring, and preserving life on Earth. To date, efforts to map macrogenetic have been restricted vertebrates, which comprise only a small fraction Earth's biodiversity. Here, we construct predicted insect mitochondrial from cytochrome c oxidase subunit 1 sequences, derived open data. We calculate the mean evenness assemblages across globe, identify their environmental correlates, make predictions levels in...
The entire mitochondrial gene order of the crustacean Pagurus longicarpus was determined by sequencing all but approximately 300 bp genome. We report first major rearrangements found in clade including Crustacea and Insecta. At least eight have dramatically altered hermit crab P. relative to putatively ancestral order. These include two protein-coding genes, reported for any nonchelicerate arthropod. Codon usage amino acid sequences do not deviate substantially from those other crustaceans....