ReviewMolecular ecology2016
Inferences from tip-calibrated phylogenies: a review and a practical guide.
Review in Molecular ecology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 75 papers.
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Who cites it
75 citing papers in PubMed.
- The Limits of Bayesian Estimates of Divergence Times in Measurably Evolving Populations.Genome biology and evolution · 2026Article
- Review
- Lineage Diversification and Evolutionary Dynamics of theMicroorganisms · 2026Article
- The Phylodynamic Threshold of Measurably Evolving Populations.Molecular biology and evolution · 2026Article
- DiagnoDating: diagnostics for dated phylogenies in microbial population genetics.Molecular biology and evolution · 2026Article
- VirPhyKit: An Integrated Toolkit for Viral Phylogeographic Analysis.Ecology and evolution · 2025Article
- Analysis of Selective Pressure on Ancient Human Mitochondrial Genomes Reveals the Presence of Widespread Sequencing Artefacts.International journal of molecular sciences · 2025Article
- Bayesian Inference of Pathogen Phylogeography using the Structured Coalescent Model.PLoS computational biology · 2025Article
- Incorporating Epidemiological Data into the Genomic Analysis of Partially Sampled Infectious Disease Outbreaks.Molecular biology and evolution · 2025Article
- Phylogenetic meta-analysis of persistent SARS-CoV-2 infections in immunocompromised individuals highlights the challenges of robust evolutionary rate estimation caused by low genetic diversity.Virus evolution · 2025Article
- Analysis of Piscine orthoreovirus genotype 1 genomes collected over a 32-year period (1988-2020) suggests a fitness peak in salmon hosts with minimal evidence for temporal divergence.Virus evolution · 2025Article
- Dinosaur palaeoneurology: an evolving science.Biology letters · 2024Review
- Insight into the Phylogenetic Relationships of Phasmatodea and Selection Pressure Analysis ofInsects · 2024Article
- Assessing the effect of model specification and prior sensitivity on Bayesian tests of temporal signal.PLoS computational biology · 2024Article
- Long genetic and social isolation in Neanderthals before their extinction.Cell genomics · 2024Article
- Fast Bayesian Inference of Phylogenies from Multiple Continuous Characters.Systematic biology · 2024Article
- Emergence and spread ofMicrobiology spectrum · 2024Article
- Article
- The effect of missing data on evolutionary analysis of sequence capture bycatch, with application to an agricultural pest.Molecular genetics and genomics : MGG · 2024Article
- Parallel signatures of Mycobacterium tuberculosis and human Y-chromosome phylogeography support the Two Layer model of East Asian population history.Communications biology · 2023Article
15 more citing papers are in PubMed but not listed here.
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Abstract
Molecular dating of phylogenetic trees is a growing discipline using sequence data to co-estimate the timing of evolutionary events and rates of molecular evolution. All molecular-dating methods require converting genetic divergence between sequences into absolute time. Historically, this could only be achieved by associating externally derived dates obtained from fossil or biogeographical evidence to internal nodes of the tree. In some cases, notably for fast-evolving genomes such as viruses and some bacteria, the time span over which samples were collected may cover a significant proportion of the time since they last shared a common ancestor. This situation allows phylogenetic trees to be calibrated by associating sampling dates directly to the sequences representing the tips (terminal nodes) of the tree. The increasing availability of genomic data from ancient DNA extends the applicability of such tip-based calibration to a variety of taxa including humans, extinct megafauna and various microorganisms which typically have a scarce fossil record. The development of statistical models accounting for heterogeneity in different aspects of the evolutionary process while accommodating very large data sets (e.g. whole genomes) has allowed using tip-dating methods to reach inferences on divergence times, substitution rates, past demography or the age of specific mutations on a variety of spatiotemporal scales. In this review, we summarize the current state of the art of tip dating, discuss some recent applications, highlight common pitfalls and provide a 'how to' guide to thoroughly perform such analyses.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.