Results 1 to 10 of about 66,141 (268)

Population divergence time estimation using individual lineage label switching [PDF]

G3: Genes, Genomes, Genetics, 2022
Divergence time estimation from multilocus genetic data has become common in population genetics and phylogenetics. We present a new Bayesian inference method that treats the divergence time as a random variable. The divergence time is calculated from an
Peter Beerli, Haleh Ashki, Somayeh Mashayekhi, Michal Palczewski   +3 more
doaj   +5 more sources

Scalable Bayesian Divergence Time Estimation With Ratio Transformations. [PDF]

Syst Biol, 2023
Abstract Divergence time estimation is crucial to provide temporal signals for dating biologically important events from species divergence to viral transmissions in space and time. With the advent of high-throughput sequencing, recent Bayesian phylogenetic studies have analyzed hundreds to thousands of sequences.
Ji X, Fisher AA, Su S, Thorne JL, Potter B, Lemey P, Baele G, Suchard MA.   +7 more
europepmc   +9 more sources

Conceptual issues in Bayesian divergence time estimation. [PDF]

Philos Trans R Soc Lond B Biol Sci, 2016
Bayesian inference of species divergence times is an unusual statistical problem, because the divergence time parameters are not identifiable unless both fossil calibrations and sequence data are available. Commonly used marginal priors on divergence times derived from fossil calibrations may conflict with node order on the phylogenetic tree causing a ...
Rannala B.
europepmc   +9 more sources

Potential for bias and low precision in molecular divergence time estimation of the Canopy of Life: an example from aquatic bird families [PDF]

Frontiers in Genetics, 2015
Uncertainty in divergence time estimation is rarely studied from the perspective of phylogenetic node age. If available models fail to completely account for rate heterogeneity, substitution saturation and incompleteness of the fossil record, uncertainty
Marcel eVan Tuinen, Marcel eVan Tuinen, Christopher Robert Torres, Christopher Robert Torres, Christopher Robert Torres   +4 more
doaj   +7 more sources

Molecular survey of basidiomycetes and divergence time estimation: An Indian perspective. [PDF]

PLoS ONE, 2018
This study outlines the biodiversity of mushrooms of India. It reveals the molecular biodiversity and divergence time estimation of basidiomycetes from Gujarat, India. A total of 267 mushrooms were collected from 10 locations across the state.
Meghna Bhatt, Pankti Mistri, Ishita Joshi, Hemal Ram, Rinni Raval, Sruthi Thoota, Ankur Patel, Dhrupa Raval, Poonam Bhargava, Subhash Soni, Snehal Bagatharia, Madhvi Joshi   +11 more
doaj   +5 more sources

Calibrated tree priors for relaxed phylogenetics and divergence time estimation. [PDF]

Syst Biol, 2012
The use of fossil evidence to calibrate divergence time estimation has a long history. More recently Bayesian MCMC has become the dominant method of divergence time estimation and fossil evidence has been re-interpreted as the specification of prior distributions on the divergence times of calibration nodes.
Heled J, Drummond AJ.
europepmc   +8 more sources

Divergence time estimation of Galliformes based on the best gene shopping scheme of ultraconserved elements [PDF]

BMC Ecology and Evolution, 2021
Background Divergence time estimation is fundamental to understanding many aspects of the evolution of organisms, such as character evolution, diversification, and biogeography.
De Chen, Peter A. Hosner, Donna L. Dittmann, John P. O’Neill, Sharon M. Birks, Edward L. Braun, Rebecca T. Kimball   +6 more
doaj   +4 more sources

exTREEmaTIME: a method for incorporating uncertainty into divergence time estimates [PDF]

Biology Open, 2022
We present a method of divergence time estimation (exTREEmaTIME) that aims to effectively account for uncertainty in divergence time estimates. The method requires a minimal set of assumptions, and, based on these assumptions, estimates the oldest ...
Tom Carruthers, Robert W. Scotland
doaj   +6 more sources

Phylogeny, Divergence Time Estimation and Biogeography of the Genus Onnia (Basidiomycota, Hymenochaetaceae) [PDF]

Frontiers in Microbiology, 2022
Species of Onnia are important tree pathogens and play a crucial role in forest ecosystems. The species diversity and distribution of Onnia have been studied, however, its evolutionary history is poorly understood.
Heng Zhao, Meng Zhou, Xiao-Yong Liu, Fang Wu, Yu-Cheng Dai   +4 more
doaj   +2 more sources

Phylogenetic and Divergence Time Estimation of Muscomorpha with Low-Coverage Whole-Genome Sequencing of Syrphidae (Diptera: Brachycera) [PDF]

Biology
Muscomorpha is one of the most diverse groups in Brachycera, yet its higher-level phylogenetic relationships remain controversial, primarily concerning the monophyly and placement of Syrphoidea, the position of Platypezoidea, internal relationships in ...
Chunfeng Liao, Hu Li, Zhendong Gao, Wenhui Yan, Yao Ji   +4 more
doaj   +2 more sources