Genomic Relationships and Speciation Times of Human, Chimpanzee, and Gorilla Inferred from a Coalescent Hidden Markov Model
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Summary
A hidden Markov model that incorporates genealogical variation and relates the model parameters to population genetics quantities such as speciation times and ancestral population sizes finds that the rate of transitions between different genealogies correlates well with the region-wide present-day human recombination rate, but does not correlate with the fine-scale recombination rates and recombination hot spots.
- Type
- article
- Published
- 2006-11-30
- Cited by
- 334
- References
- 34
- Access
- Open access
- OpenAlex
- https://openalex.org/W1977169047
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:192013
Keywords
Coalescent theory, Biology, Gorilla, Evolutionary biology, Genetic algorithm
References
- Gene Genealogies, Variation and Evolution - A Primer in Coalescent Theory
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- Initial sequence of the chimpanzee genome and comparison with the human genome
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- A note on the delta method
- Recombination as a point process along sequences.
- A Scan for Positively Selected Genes in the Genomes of Humans and Chimpanzees
- A Fine-Scale Map of Recombination Rates and Hotspots Across the Human Genome
- Statistical Methods in Bioinformatics
- Genetic evidence for complex speciation of humans and chimpanzees
- Combining Phylogenetic and Hidden Markov Models in Biosequence Analysis
- Genera of the human lineage
- Estimation of divergence times for major lineages of primate species.
- Placing confidence limits on the molecular age of the human-chimpanzee divergence.
- Ancestral Population Sizes and Species Divergence Times in the Primate Lineage on the Basis of Intron and BAC End Sequences
- First hominid from the Miocene (Lukeino Formation, Kenya)
- Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees.
- Evolutionary biology: how did the human species form?
Cited by
- Response strategies in list learning by orangutans (Pongo pygmaeus x P. abelii).
- Sources of error inherent in species-tree estimation: impact of mutational and coalescent effects on accuracy and implications for choosing among different methods.
- A distance-based least-square method for dating speciation events.
- Multispecies Coalescent Analysis of the Early Diversification of Neotropical Primates: Phylogenetic Inference under Strong Gene Trees/Species Tree Conflict
- Estimating the process of speciation for humans and chimpanzees
- The evolutionary role of human-specific genomic events
- Latent variable models in statistical genetics
- Understanding How Stochasticity Impacts Reconstructions of Recent Species Divergent History.
- Morphological Variation of Two Howler Monkey Species and their Genetically- Confirmed Hybrids.
- Effects of early care on joint attention and social behavior in Pan, Gorilla & Pongo
- Effets de la sélection naturelle et de l'histoire démographique sur les patrons de polymorphisme nucléaire : comparaisons interspécifiques chez Arabidopsis halleri et A. lyrata entre le fond génomique et deux régions cibles de la sélection
- Understanding lineage-specific biology through comparative genomics
- Evolution of psychological diversity in anthropoids
- Asymptotic properties of the number of matching coalescent histories for caterpillar-like families of species trees
- Coalescent Histories for Lodgepole Species Trees
- Unraveling recombination rate evolution using ancestral recombination maps
- Methods and analysis of genome-scale gene family evolution across multiple species
- The gene tree delusion.
- A Bayesian Approach for Fast and Accurate Gene Tree Reconstruction
- Decoding coalescent hidden Markov models in linear time
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