ArticleProceedings of the National Academy of Sciences of the United States of America2023
Efficient Bayesian inference under the multispecies coalescent with migration.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Gene tree patterns help answer: vicariance or dispersal?bioRxiv : the preprint server for biology · 2026Article
- Understanding Genomic Landscapes of Differentiation in Round-Tailed Horned Lizards (Phrynosoma modestum).Genome biology and evolution · 2026Article
- Genetics and genomics of hybridization.Nature reviews. Genetics · 2026Review
- ERICA-trio: an outgroup-free deep learning method for topology inference and introgression detection.Briefings in bioinformatics · 2026Article
- Scaling up Bayesian population phylogenomics through virtual dimension reduction.Nature communications · 2026Article
- On the robustness of Bayesian inference of gene flow to intragenic recombination and natural selection.Molecular biology and evolution · 2026Article
- More than one species of the naked mole-rat, a new biomedical model.Communications biology · 2025Article
- Inference of Cross-Species Gene Flow Using Genomic Data Depends on the Methods: Case Study of Gene Flow in Drosophila.Systematic biology · 2025Article
- When islands collide: Divergence predicts outcomes of secondary contact during the fusion of Sulawesi's paleo-archipelago.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Ancient Introgression Explains Mitochondrial Genome Capture and Mitonuclear Discordance Among South American Collared Tropidurus Lizards.Molecular ecology · 2025Article
- The power of coalescent methods for inferring recent and ancient gene flow in endangered Bactrian camels.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- A trans-species cytoplasmic polymorphism is associated with seed shape and aridity across multiple species of sunflowers.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- The Impact of Sequencing and Genotyping Errors on Bayesian Analysis of Genomic Data under the Multispecies Coalescent Model.Molecular biology and evolution · 2025Article
- Inference of Gene Flow between Species from Genomic Data When the Mode, Direction, and Lineages are Misspecified.Molecular biology and evolution · 2025Article
- Hierarchical Heuristic Species Delimitation Under the Multispecies Coalescent Model with Migration.Systematic biology · 2024Article
- Bayesian Inference Under the Multispecies Coalescent with Ancient DNA Sequences.Systematic biology · 2024Article
- Article
- Establishing species boundaries in Bornean geckos.Biology letters · 2024Article
- Repeated patterns of reptile diversification in Western North America supported by the Northern Alligator Lizard (Elgaria coerulea).The Journal of heredity · 2024Article
- Major patterns in the introgression history ofeLife · 2023Article
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5 authors.
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Abstract
Analyses of genome sequence data have revealed pervasive interspecific gene flow and enriched our understanding of the role of gene flow in speciation and adaptation. Inference of gene flow using genomic data requires powerful statistical methods. Yet current likelihood-based methods involve heavy computation and are feasible for small datasets only. Here, we implement the multispecies-coalescent-with-migration model in the Bayesian program bpp, which can be used to test for gene flow and estimate migration rates, as well as species divergence times and population sizes. We develop Markov chain Monte Carlo algorithms for efficient sampling from the posterior, enabling the analysis of genome-scale datasets with thousands of loci. Implementation of both introgression and migration models in the same program allows us to test whether gene flow occurred continuously over time or in pulses. Analyses of genomic data from
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