ArticlePLoS genetics2020
Tracking human population structure through time from whole genome sequences.
Article in PLoS genetics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 74 papers.
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Who cites it
74 citing papers in PubMed.
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- Pre-divergence hybridization and adaptive introgression shaped the genetic architecture of East Asian domestic pigs.Science China. Life sciences · 2026Article
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- The relationship between genomic variation and genetic load: insights from small island populations.Heredity · 2026Article
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- The Late Quaternary climate impact on the genome of the woodland strawberry (Fragaria vesca), a perennial herb.Communications biology · 2026Article
- Evaluating inbreeding and assessing the risk of outbreeding depression in genetic rescue using whole-genome sequence data.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Not Just Ne Ne-More: New Applications for SMC from Ecology to Phylogenies.Genome biology and evolution · 2026Review
- Genomic perspectives on the inference of evolutionary changes in ecological life-history traits.Quantitative plant biology · 2026Review
- Genomic insights on conservation priorities for North Sea houting and European lake whitefish (Coregonus spp.).Molecular ecology · 2025Article
- Genome Variation in Three Anthophora Bee Species Reflects Divergent Demographic Histories.Molecular ecology · 2025Article
- Sex differentiation, divergence, and introgression in the leishmaniasis vectorbioRxiv : the preprint server for biology · 2025Article
- Genomic insights into the population structure and adaptive variation of Mullus barbatus in the Mediterranean Sea.BMC ecology and evolution · 2025Article
- 1206 genomes reveal origin and movement ofScience (New York, N.Y.) · 2025Article
- TheScience (New York, N.Y.) · 2025Article
- Genomic data from the extinct California brown bear suggests a source population for reintroduction to California.The Journal of heredity · 2025Article
- Linking Measures of Inbreeding and Genetic Load to Demographic Histories Across Three Species of Bears.Evolutionary applications · 2025Article
14 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The genetic diversity of humans, like many species, has been shaped by a complex pattern of population separations followed by isolation and subsequent admixture. This pattern, reaching at least as far back as the appearance of our species in the paleontological record, has left its traces in our genomes. Reconstructing a population's history from these traces is a challenging problem. Here we present a novel approach based on the Multiple Sequentially Markovian Coalescent (MSMC) to analyze the separation history between populations. Our approach, called MSMC-IM, uses an improved implementation of the MSMC (MSMC2) to estimate coalescence rates within and across pairs of populations, and then fits a continuous Isolation-Migration model to these rates to obtain a time-dependent estimate of gene flow. We show, using simulations, that our method can identify complex demographic scenarios involving post-split admixture or archaic introgression. We apply MSMC-IM to whole genome sequences from 15 worldwide populations, tracking the process of human genetic diversification. We detect traces of extremely deep ancestry between some African populations, with around 1% of ancestry dating to divergences older than a million years ago.
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