ArticleNature genetics2025
A structured coalescent model reveals deep ancestral structure shared by all modern humans.
Article in Nature genetics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Long-read, high-coverage reference genome of the nymphalid butterfly Catonephele acontius (Nymphalidae: Biblidinae).G3 (Bethesda, Md.) · 2026Article
- Scalable ARG-free Detection of Denisovan-mediated Superarchaic Introgression Reveals Heterogeneous Patterns across Populations.bioRxiv : the preprint server for biology · 2026Article
- Pan-African model explainsbioRxiv : the preprint server for biology · 2026Article
- Malaria shaped human spatial organization for the past 74 thousand years.Science advances · 2026Article
- PSMC-FAC: Automated Optimization of False-Negative Rate Corrections for Low-Coverage PSMC-Based Demographic Inference.Biology · 2026Article
- Inferring hominin history with recurrent gene flow from single unphased genomes and a two-locus statistic.bioRxiv : the preprint server for biology · 2026Article
- Regional variability in the Acheulian to Middle Stone Age transition in southern Africa.Scientific reports · 2026Article
- Hypothesis: A modern human range expansion ~300,000 years ago explains Neandertal origins.bioRxiv : the preprint server for biology · 2026Article
- Recovering signatures of archaic introgression using ancestral recombination graphs.bioRxiv : the preprint server for biology · 2026Article
- Reflections on the Human Genome Diversity Project: a conversation with Marcus W. Feldman, Henry T. Greely, and Mary-Claire King.Genetics · 2026Article
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- Genomic perspectives on the inference of evolutionary changes in ecological life-history traits.Quantitative plant biology · 2026Review
- The effect of human-specific genetic variants on neuronal spinogenesis.Frontiers in genetics · 2026Review
- Estimating the Effective Population Size Across Space and Time in the Critically Endangered Western Chimpanzee in Guinea-Bissau: Challenges and Implications for Conservation Management.Evolutionary applications · 2025Article
- Pervasive and recurrent hybridization prevents inbreeding in Europe's most threatened seabird.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Global spatiotemporal patterns of demographic fluctuations in terrestrial vertebrates during the Late Pleistocene.Science advances · 2025Article
- Insufficient Evidence for a Severe Bottleneck in Humans During the Early to Middle Pleistocene Transition.Molecular biology and evolution · 2025Article
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3 authors.
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Abstract
Understanding the history of admixture events and population size changes leading to modern humans is central to human evolutionary genetics. Here we introduce a coalescence-based hidden Markov model, cobraa, that explicitly represents an ancestral population split and rejoin, and demonstrate its application on simulated and real data across multiple species. Using cobraa, we present evidence for an extended period of structure in the history of all modern humans, in which two ancestral populations that diverged ~1.5 million years ago came together in an admixture event ~300 thousand years ago, in a ratio of ~80:20%. Immediately after their divergence, we detect a strong bottleneck in the major ancestral population. We inferred regions of the present-day genome derived from each ancestral population, finding that material from the minority correlates strongly with distance to coding sequence, suggesting it was deleterious against the majority background. Moreover, we found a strong correlation between regions of majority ancestry and human-Neanderthal or human-Denisovan divergence, suggesting the majority population was also ancestral to those archaic humans.
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