ReviewEcology and evolution2020
A practical introduction to sequentially Markovian coalescent methods for estimating demographic history from genomic data.
Review in Ecology and evolution, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 82 papers.
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82 citing papers in PubMed.
- Divergent Thermal Reaction Norms of the Spontaneous Mutation Rate Among Populations of Chironomus riparius.Molecular ecology · 2026Article
- Spatial inference of ancestor locations suggests northern refugia for canopy-forming kelps in the Pacific Northwest.The New phytologist · 2026Article
- Genomic structural variation rescues a classic biological invader from a population bottleneck.Science advances · 2026Article
- New genomic resources and the historical demography of the Tourmaline Sunangel (Trochilidae, Heliangelus exortis) in the Colombian Andes.The Journal of heredity · 2026Article
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- Mutation rate estimate and population genomic analysis reveals decline of koalas prior to human arrival.Molecular biology and evolution · 2026Article
- A chromosome-scale genome assembly for Clark's Nutcracker (Nucifraga columbiana).G3 (Bethesda, Md.) · 2026Article
- Assembled and annotated reference genome and demographic history of the eastern chipmunk (Tamias striatus).Molecular genetics and genomics : MGG · 2026Article
- Comparative Genomics of Transisthmian Damselfishes (Abudefduf saxatilis and A. troschelii).Genome biology and evolution · 2026Article
- Article
- PSMC-FAC: Automated Optimization of False-Negative Rate Corrections for Low-Coverage PSMC-Based Demographic Inference.Biology · 2026Article
- A Beginner's How-To Guide to Urban Population Genetics and Genomics.Ecology and evolution · 2026Review
- Chromosome-Level Reference Genome of an Endemic, Endangered Long-Armed Scarab (Ecology and evolution · 2026Article
- Combining Population Genomics With Ancient DNA to Understand Island Colonisation History of the Madagascar Turtle Dove.Molecular ecology · 2026Article
- Genomic perspectives on the inference of evolutionary changes in ecological life-history traits.Quantitative plant biology · 2026Review
- Comparative Population Genomics of Relictual Caribbean Island Gossypium hirsutum.Molecular ecology · 2026Article
- Impacts of Outgroup Selection in bPTP Species Delimitation Analyses: a Case Study in Cichlid Fishes of the GenusZoological studies · 2026Article
- Genomic Signatures in Maned Three-Toed Sloths From Ancient to Recent Environmental Changes in Brazil's Threatened Atlantic Forest.Molecular ecology · 2025Article
- The Genomics Revolution in Nonmodel Species: Predictions vs. Reality for Salmonids.Molecular ecology · 2025Review
- Genome-Wide Population Structure in a Marine Keystone Species, the European Flat Oyster (Ostrea edulis).Molecular ecology · 2025Article
22 more citing papers are in PubMed but not listed here.
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3 authors.
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Abstract
A common goal of population genomics and molecular ecology is to reconstruct the demographic history of a species of interest. A pair of powerful tools based on the sequentially Markovian coalescent have been developed to infer past population sizes using genome sequences. These methods are most useful when sequences are available for only a limited number of genomes and when the aim is to study ancient demographic events. The results of these analyses can be difficult to interpret accurately, because doing so requires some understanding of their theoretical basis and of their sensitivity to confounding factors. In this practical review, we explain some of the key concepts underpinning the pairwise and multiple sequentially Markovian coalescent methods (PSMC and MSMC, respectively). We relate these concepts to the use and interpretation of these methods, and we explain how the choice of different parameter values by the user can affect the accuracy and precision of the inferences. Based on our survey of 100 PSMC studies and 30 MSMC studies, we describe how the two methods are used in practice. Readers of this article will become familiar with the principles, practice, and interpretation of the sequentially Markovian coalescent for inferring demographic history.
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