The coalescent with gene conversion
- PMID: 10790416
- PMCID: PMC1461050
- DOI: 10.1093/genetics/155.1.451
The coalescent with gene conversion
Abstract
In this article we develop a coalescent model with intralocus gene conversion. The distribution of the tract length is geometric in concordance with results published in the literature. We derive a simulation scheme and deduce a number of analytical results for this coalescent with gene conversion. We compare patterns of variability in samples simulated according to the coalescent with recombination with similar patterns simulated according to the coalescent with gene conversion alone. Further, an expression for the expected number of topology shifts in a sample of present-day sequences caused by gene conversion events is derived.
Similar articles
-
Recombination, gene conversion, and identity-by-descent at three loci.Theor Popul Biol. 2008 Mar;73(2):264-76. doi: 10.1016/j.tpb.2007.10.006. Epub 2007 Dec 4. Theor Popul Biol. 2008. PMID: 18215407
-
On recombination-induced multiple and simultaneous coalescent events.Genetics. 2007 Dec;177(4):2151-60. doi: 10.1534/genetics.107.071126. Epub 2007 Oct 18. Genetics. 2007. PMID: 17947442 Free PMC article.
-
A coalescence approach to gene conversion.Theor Popul Biol. 2000 Jun;57(4):357-67. doi: 10.1006/tpbi.2000.1462. Theor Popul Biol. 2000. PMID: 10900188
-
The expected number of alleles in a gene conversion model with mutation.Theor Popul Biol. 1999 Dec;56(3):265-77. doi: 10.1006/tpbi.1999.1418. Theor Popul Biol. 1999. PMID: 10607520
-
Composition of eukaryotic gene loci regarding gene conversion units and the presence or the absence of intralocus reciprocal recombination.Jpn J Genet. 1989 Aug;64(4):295-313. doi: 10.1266/jjg.64.295. Jpn J Genet. 1989. PMID: 2698686 Review.
Cited by
-
A general and efficient representation of ancestral recombination graphs.bioRxiv [Preprint]. 2024 Apr 23:2023.11.03.565466. doi: 10.1101/2023.11.03.565466. bioRxiv. 2024. PMID: 37961279 Free PMC article. Preprint.
-
Inference of Coalescence Times and Variant Ages Using Convolutional Neural Networks.Mol Biol Evol. 2023 Oct 4;40(10):msad211. doi: 10.1093/molbev/msad211. Mol Biol Evol. 2023. PMID: 37738175 Free PMC article.
-
Phylogenetic Analysis of Bacterial Pathogen Genomes.Methods Mol Biol. 2023;2674:87-99. doi: 10.1007/978-1-0716-3243-7_6. Methods Mol Biol. 2023. PMID: 37258962
-
Estimating the rates of crossover and gene conversion from individual genomes.Genetics. 2022 Aug 30;222(1):iyac100. doi: 10.1093/genetics/iyac100. Genetics. 2022. PMID: 35771626 Free PMC article.
-
Efficient ancestry and mutation simulation with msprime 1.0.Genetics. 2022 Mar 3;220(3):iyab229. doi: 10.1093/genetics/iyab229. Genetics. 2022. PMID: 34897427 Free PMC article.
References
Publication types
MeSH terms
LinkOut - more resources
Full Text Sources
Other Literature Sources
Molecular Biology Databases