ArticleHeredity2018
The IICR (inverse instantaneous coalescence rate) as a summary of genomic diversity: insights into demographic inference and model choice.
Article in Heredity, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 53 papers.
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53 citing papers in PubMed.
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- Mutation rate estimate and population genomic analysis reveals decline of koalas prior to human arrival.Molecular biology and evolution · 2026Article
- PSMC-FAC: Automated Optimization of False-Negative Rate Corrections for Low-Coverage PSMC-Based Demographic Inference.Biology · 2026Article
- Computing coalescence rates for complex demographies and sampling configurations.bioRxiv : the preprint server for biology · 2026Article
- Genomic perspectives on the inference of evolutionary changes in ecological life-history traits.Quantitative plant biology · 2026Review
- Population Genomics and the Environmental Drivers of Population Structure in a Cosmopolitan Marine Predator, Tursiops truncatus.Molecular ecology · 2025Article
- Genome Assembly of Gangetic Dolphin (Platanista gangetica) Reveals Signature of Regressive Evolution.Genome biology and evolution · 2025Article
- 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
- A genomic test of sex-biased dispersal in white sharks.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Assessing simulation-based supervised machine learning for demographic parameter inference from genomic data.Heredity · 2025Article
- Global spatiotemporal patterns of demographic fluctuations in terrestrial vertebrates during the Late Pleistocene.Science advances · 2025Article
- Island size shapes genomic diversity in a great speciator (Aves:Biology letters · 2025Article
- Ignoring population structure in hominin evolutionary models can lead to the inference of spurious admixture events.Nature ecology & evolution · 2025Article
- Inferring the Demographic History of Aye-Ayes (Daubentonia madagascariensis) from High-Quality, Whole-Genome, Population-Level Data.Genome biology and evolution · 2025Article
- Effects of Social Structure on Effective Population Size Change Estimates.Evolutionary applications · 2025Article
- Inferring the demographic history of aye-ayes (bioRxiv : the preprint server for biology · 2024Article
- Genomes of Microtus Rodents Highlight the Importance of Olfactory and Immune Systems in Their Fast Radiation.Genome biology and evolution · 2024Article
- Biases in ARG-Based Inference of Historical Population Size in Populations Experiencing Selection.Molecular biology and evolution · 2024Article
- The rise of baobab trees in Madagascar.Nature · 2024Article
- A High-Quality Blue Whale Genome, Segmental Duplications, and Historical Demography.Molecular biology and evolution · 2024Article
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Authors and funding
6 authors.
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Abstract
Several inferential methods using genomic data have been proposed to quantify and date population size changes in the history of species. At the same time an increasing number of studies have shown that population structure can generate spurious signals of population size change. Recently, Mazet et al. (2016) introduced, for a sample size of two, a time-dependent parameter, which they called the IICR (inverse instantaneous coalescence rate). The IICR is equivalent to a population size in panmictic models, but not necessarily in structured models. It is characterised by a temporal trajectory that suggests population size changes, as a function of the sampling scheme, even when the total population size was constant. Here, we extend the work of Mazet et al. (2016) by (i) showing how the IICR can be computed for any demographic model of interest, under the coalescent, (ii) applying this approach to models of population structure (1D and 2D stepping stone, split models, two- and three-island asymmetric gene flow, continent-island models), (iii) stressing the importance of the sampling strategy in generating different histories, (iv) arguing that IICR plots can be seen as summaries of genomic information that can thus be used for model choice or model exclusion (v) applying this approach to the question of admixture between humans and Neanderthals. Altogether these results are potentially important given that the widely used PSMC (pairwise sequentially Markovian coalescent) method of Li and Durbin (2011) estimates the IICR of the sample, not necessarily the history of the populations.
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