Journal ArticleTheoretical population biology · October 2024
This study describes a compact method for determining joint probabilities of identity-by-state (IBS) within and between loci in populations evolving under genetic drift, crossing-over, mutation, and regular inbreeding (partial self-fertilization). Analogue ...
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Journal ArticleMolecular biology and evolution · May 2024
This perspective article offers a meditation on FST and other quantities developed by Sewall Wright to describe the population structure, defined as any departure from reproduction through random union of gametes. Concepts related to the F-statistics draw ...
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Journal ArticleTheoretical population biology · June 2020
We address the effect of population structure on key properties of the Ewens sampling formula. We use our previously-introduced inductive method for determining exact allele frequency spectrum (AFS) probabilities under the infinite-allele model of mutation ...
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Journal ArticleTheoretical population biology · October 2019
We present a method for inductively determining exact allele frequency spectrum (AFS) probabilities for samples derived from a population comprising two demes under the infinite-allele model of mutation. This method builds on a labeled coalescent argument ...
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Journal ArticleTheoretical population biology · December 2017
We address the evolution of effective number of individuals under androdioecy and gynodioecy. We analyze dynamic models of autosomal modifiers of weak effect on sex expression. In our zygote control models, the sex expressed by a zygote depends on its own ...
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Journal Article · 2017
We address the evolution of effective number of individuals under androdioecy and gynodioecy. We analyze dynamic models of autosomal modifiers of weak effect on sex expression. In our zygote control models, the sex expressed by a zygote depends on its own ...
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Journal ArticleGenetics · November 2015
We present a Bayesian method for characterizing the mating system of populations reproducing through a mixture of self-fertilization and random outcrossing. Our method uses patterns of genetic variation across the genome as a basis for inference about repr ...
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Journal ArticleTheoretical population biology · June 2015
In genealogies of genes sampled from structured populations, lineages coalesce at rates dependent on the states of the lineages. For migration and coalescence events occurring on comparable time scales, for example, only lineages residing in the same deme ...
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Journal Article · January 22, 2015
We present a Bayesian method for characterizing the mating system of
populations reproducing through a mixture of self-fertilization and random
outcrossing. Our method uses patterns of genetic variation across the genome as
a basis for inference about pure ...
Open AccessLink to itemCite
Journal ArticleGenetics · September 2011
Disruption of interactions among ensembles of epistatic loci has been shown to contribute to reproductive isolation among various animal and plant species. Under the Bateson-Dobzhansky-Muller model, such interspecific incompatibility arises as a by-product ...
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Journal ArticleTheoretical population biology · September 2011
Adaptation to local conditions within demes balanced by migration can maintain polymorphisms for variants that reduce fitness in certain ecological contexts. Here, we address the effects of such polymorphisms on the rate of introgression of neutral marker ...
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Journal ArticleTheoretical population biology · October 2024
This study describes a compact method for determining joint probabilities of identity-by-state (IBS) within and between loci in populations evolving under genetic drift, crossing-over, mutation, and regular inbreeding (partial self-fertilization). Analogue ...
Full textCite
Journal ArticleMolecular biology and evolution · May 2024
This perspective article offers a meditation on FST and other quantities developed by Sewall Wright to describe the population structure, defined as any departure from reproduction through random union of gametes. Concepts related to the F-statistics draw ...
Full textCite
Journal ArticleTheoretical population biology · June 2020
We address the effect of population structure on key properties of the Ewens sampling formula. We use our previously-introduced inductive method for determining exact allele frequency spectrum (AFS) probabilities under the infinite-allele model of mutation ...
Full textOpen AccessCite
Journal ArticleTheoretical population biology · October 2019
We present a method for inductively determining exact allele frequency spectrum (AFS) probabilities for samples derived from a population comprising two demes under the infinite-allele model of mutation. This method builds on a labeled coalescent argument ...
Full textOpen AccessCite
Journal ArticleTheoretical population biology · December 2017
We address the evolution of effective number of individuals under androdioecy and gynodioecy. We analyze dynamic models of autosomal modifiers of weak effect on sex expression. In our zygote control models, the sex expressed by a zygote depends on its own ...
Full textOpen AccessCite
Journal Article · 2017
We address the evolution of effective number of individuals under androdioecy and gynodioecy. We analyze dynamic models of autosomal modifiers of weak effect on sex expression. In our zygote control models, the sex expressed by a zygote depends on its own ...
Full textCite
Journal ArticleGenetics · November 2015
We present a Bayesian method for characterizing the mating system of populations reproducing through a mixture of self-fertilization and random outcrossing. Our method uses patterns of genetic variation across the genome as a basis for inference about repr ...
Full textOpen AccessLink to itemCite
Journal ArticleTheoretical population biology · June 2015
In genealogies of genes sampled from structured populations, lineages coalesce at rates dependent on the states of the lineages. For migration and coalescence events occurring on comparable time scales, for example, only lineages residing in the same deme ...
Full textOpen AccessCite
Journal Article · January 22, 2015
We present a Bayesian method for characterizing the mating system of
populations reproducing through a mixture of self-fertilization and random
outcrossing. Our method uses patterns of genetic variation across the genome as
a basis for inference about pure ...
Open AccessLink to itemCite
Journal ArticleGenetics · September 2011
Disruption of interactions among ensembles of epistatic loci has been shown to contribute to reproductive isolation among various animal and plant species. Under the Bateson-Dobzhansky-Muller model, such interspecific incompatibility arises as a by-product ...
Full textOpen AccessCite
Journal ArticleTheoretical population biology · September 2011
Adaptation to local conditions within demes balanced by migration can maintain polymorphisms for variants that reduce fitness in certain ecological contexts. Here, we address the effects of such polymorphisms on the rate of introgression of neutral marker ...
Full textOpen AccessCite
Journal ArticleGenetics · September 2009
With incomplete lineage sorting (ILS), the genealogy of closely related species differs along their genomes. The amount of ILS depends on population parameters such as the ancestral effective population sizes and the recombination rate, but also on the num ...
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Journal ArticleTheoretical population biology · June 2009
Genomic survey data now permit an unprecedented level of sensitivity in the detection of departures from canonical evolutionary models, including expansions in population size and selective sweeps. Here, we examine the effects of seemingly subtle differenc ...
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Chapter · January 1, 2008
Experimental investigations of homomorphic self-incompatibility (SI) have revealed an unanticipated level of complexity in its expression, permitting fine regulation over the course of a lifetime or a range of environmental conditions. Many flowering plant ...
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Journal ArticleStatistical applications in genetics and molecular biology · January 2008
Importance sampling or Markov Chain Monte Carlo sampling is required for state-of-the-art statistical analysis of population genetics data. The applicability of these sampling-based inference techniques depends crucially on the proposal distribution. In th ...
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Journal ArticleBioinformatics (Oxford, England) · August 2007
MotivationGene genealogies offer a powerful context for inferences about the evolutionary process based on presently segregating DNA variation. In many cases, it is the distribution of population parameters, marginalized over the effectively infin ...
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Journal ArticleGenetics · November 2005
We describe an importance-sampling method for approximating likelihoods of population parameters based on multiple summary statistics. In this first application, we address the demographic history of closely related members of the Drosophila pseudoobscura ...
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Journal ArticleTrends in genetics : TIG · September 2005
Self-incompatible flowering plants reject pollen that expresses the same mating specificity as the pistil (female reproductive tract). In most plant families, pollen and pistil mating specificities segregate as a single locus, the S locus. In at least two ...
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Journal ArticleThe New phytologist · January 2005
Recent large-scale sequencing studies of mating type loci in a number of organisms offer insight into the origin and evolution of these genomic regions. Extensive tracts containing genes with a wide diversity of functions typically cosegregate with mating ...
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Journal ArticleEvolution; international journal of organic evolution · September 2004
Pollen limitation affects plants with diverse reproductive systems and ecologies. In self-incompatible (SI) species, pollen limitation may preclude full reproductive compensation for prezygotic rejection of pollen. We present a model designed to explore th ...
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Journal ArticleGenetics · August 2004
Features common to many mating-type regions include recombination suppression over large genomic tracts and cosegregation of genes of various functions, not necessarily related to reproduction. Model systems for homomorphic self-incompatibility (SI) in flo ...
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Journal ArticleTheoretical population biology · May 2004
We describe a method for the recursive computation of exact probability distributions for the number of neutral mutations segregating in samples of arbitrary size and configuration. Construction of the recursions requires only characterization of evolution ...
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Journal ArticleMolecular biology and evolution · November 2003
Diverse self-incompatibility (SI) mechanisms permit flowering plants to inhibit fertilization by pollen that express specificities in common with the pistil. Characteristic of at least two model systems is greatly reduced recombination across large genomic ...
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Journal ArticleTheoretical population biology · June 2003
Many hermaphroditic plants avoid self-fertilization by rejecting pollen that express genetically determined specificities in common with the pistil. The S-locus, comprising the determinants of pistil and pollen specificity, typically shows extremely high p ...
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Journal ArticleGenetics · April 2001
Self-incompatibility (SI) in flowering plants entails the inhibition of fertilization by pollen that express specificities in common with the pistil. In species of the Solanaceae, Rosaceae, and Scrophulariaceae, the inhibiting factor is an extracellular ri ...
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Journal ArticleGenes & genetic systems · December 2000
Many hermaphroditic plants avoid self-fertilization by rejecting pollen that express genetically-determined specificities in common with the pistil. Self-incompatibility systems typically show extremely high genetic diversity, some maintaining hundreds of ...
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Journal ArticleGenetics · September 2000
Self-incompatibility in Brassica entails the rejection of pollen grains that express specificities held in common with the seed parent. In Brassica, pollen specificity is encoded at the multipartite S-locus, a complex region comprising many expressed genes ...
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Journal ArticleAnnals of Botany · January 1, 2000
Recent advances in the study of the genetic and physiological basis of self-incompatibility have raised novel evolutionary questions. I enumerate basic elements of the classical theory for the evolution of self-incompatibility, describe some evolutionary q ...
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Journal ArticleGenetics · November 1997
A method is proposed for characterizing the structure of genealogies among alleles that regulate self-incompatibility in flowering plants. Expected distributions of ratios of divergence times among alleles, scaled by functions of allele number, were genera ...
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Journal ArticleScience (New York, N.Y.) · August 1996
The self-incompatibility (S) locus of flowering plants offers an example of extreme polymorphism maintained by balancing selection. Estimates of recent and long-term effective population size (Ne) were determined for two solanaceous species by examination ...
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Journal ArticleHeredity · May 1, 1996
Allelic diversity at the self-incompatibility (S-) locus in the ground cherry, Physalis crassifolia (Solanaceae), was surveyed in a natural population occurring in Deep Canyon, CA, using a molecular assay to determine the genotype of individual plants. A t ...
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Journal ArticleHeredity · May 1996
Allelic diversity at the self-incompatibility (S-) locus in the ground cherry, Physalis crassifolia (Solanaceae), was surveyed in a natural population occurring in Deep Canyon, CA, using a molecular assay to determine the genotype of individual plants. A t ...
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Journal ArticleHeredity · October 1995
S-allele diversity in Solanum carolinense was surveyed in two natural populations, located in Tennessee and North Carolina, with a molecular assay to determine the genotype of individual plants. A total of 13 different S-alleles were identified and sequenc ...
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Journal ArticleGenetics · February 1995
Analysis of nucleotide sequences that regulate the expression of self-incompatibility in flowering plants affords a direct means of examining classical hypotheses for the origin and evolution of this major feature of mating systems. Departing from the clas ...
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Journal ArticleTheoretical population biology · October 1991
We study the evolution of the rate of self-fertilization in response to deleterious mutations at multiple loci. Although partial selfing induces associations among loci even in the absence of linkage, associations among mutations at different loci are of a ...
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Journal ArticleTheoretical population biology · August 1991
Simple theories for the evolution of breeding systems suggest that the fate of an allele that modifies the rate of self-fertilization hinges only on the degree to which selfing reduces opportunities for outcrossing ("pollen discounting") and the extent of ...
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Journal ArticleTheoretical population biology · August 1991
We describe the evolutionary dynamics of a modifier of selfing coevolving with a locus subject to symmetric overdominance in viability under general levels of reduction in pollination success as a consequence of self-fertilization (pollen discounting). Sim ...
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Journal ArticleGenetics · June 1991
Recent genetic analyses have demonstrated that self-incompatibility in flowering plants derives from the coordinated expression of a system of loci. To address the selective mechanisms through which a genetic system of this kind evolves, I present a three- ...
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Journal ArticleTheoretical population biology · October 1990
We compare the evolutionary pressures that direct the modification of gene conversion and meiotic drive at loci subject to purifying and overdominant viability selection. Gene conversion differs from meiotic drive in that modifers do not affect their own s ...
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Journal ArticleTheoretical population biology · December 1989
Conditions for the origin of partial sporophytic self-incompatibility (SSI) are obtained from two quantitative models, which differ with respect to the determination of offspring viability. Offspring viability depends solely on the source (self or nonself) ...
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Journal ArticleGenetics · December 1989
We study the conditions under which a rare allele that modifies the relative rates of meiotic reproduction and apomixis increases in a population in which meiotic reproduction entails selfing as well as random outcrossing. A distinct locus, at which mutati ...
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Journal ArticleGenetics · January 1989
Selective pressures imposed by high complementarity associations between the major histocompatibility complex (MHC) and the t-complex on a locus that modifies the expression of prezygotic and postzygotic incompatibility are investigated through the analysi ...
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Journal ArticleGenetics · January 1989
A quantitative model is developed to explore the effects of prezygotic and postzygotic incompatibility on the origin and maintenance of associations between the major histocompatibility complex (MHC) and the t-complex in the mouse. Incompatibility is repre ...
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Journal ArticleTheoretical population biology · December 1988
A 2-locus model of the evolution of self-incompatibility in a population practicing partial selfing is presented. An allele is introduced at a modifier locus which influences the strength of the rejection reaction expressed by the style in response to anti ...
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Journal ArticleTheoretical population biology · August 1988
I explore the proposition that genetic incompatibility systems serve as a means for parents to evaluate and discriminate among their own offspring. Conditions for the initial increase of gametophytic self-incompatibility in a self-compatible population und ...
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Journal ArticleAmerican Naturalist · January 1, 1988
This study addresses the origin of gametophytic self-incompatibility in populations undergoing a mixture of random outcrossing, sib mating, and selfing. The effect of the incompatibility system on the genotypic distribution among offspring derived from the ...
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Journal ArticleEvolution · 1986
The effect of biparental inbreeding on the conditions governing the evolution of selfing is examined using recursions in mating-type frequences.-from Author ...
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Journal ArticleTheoretical population biology · April 1985
A model of the P-M system of hybrid dysgenesis is presented which incorporates single-site transposition of P factors in M cytotype, determination of offspring cytotype by both maternal cytotype and maternal or offspring nuclear genotype, and strong fertil ...
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Journal ArticleEvolution · 1985
Quantitative models of genetic change were analyzed to study the effect of inbreeding on the conditions for the evolution of parthenogenesis. Inbreeding does not greatly change the cost of meiosis in diploids and actually increases it is haplodiploids. Inb ...
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Journal ArticleAmerican Naturalist · January 1, 1982
Analyzes multiplicative kin selection models incorporating fitness functions which involve products of the costs and benefits that are associated with altruistic actions. Multiplicative models exhibit a number of qualitative differences compared to additiv ...
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Journal ArticleProceedings of the National Academy of Sciences of the United States of America · August 1981
Exact population genetic models of one-locus sib-to-sib kin selection with an arbitrary number of alleles are studied. First, a natural additive scaling is established for the genotypic value associated with probabilities of performance of altruism. Two cl ...
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Journal ArticleTheoretical Population Biology · January 1, 1981
Population genetic models involving sister, brother, and father control of the brood sex ratio and brood size in both the haplodiploid and diploid cases are constructed and analyzed. The results are interpreted in light of the verbal theories which predict ...
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Journal ArticleGenetics · November 1979
A genetical model is formulated in which the sex ratio in broods and the relative size of broods are determined by the genotype at an autosomal locus. The results also apply to the case in which the sex-ratio locus is sex linked and expressed in the homoga ...
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Journal ArticleProceedings of the National Academy of Sciences of the United States of America · January 1979
Two models involving non-Mendelian transmission of a discrete valued trait through within- and across-generation contagion are proposed in an investigation of the joint evolution of phenotype and genotype. A single locus with two alleles determines suscept ...
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Journal ArticleTheoretical Population Biology · January 1, 1979
A continuous, graded form of group selection which does not involve extinction of demes can effectively oppose selection on the individual level against an altruistic allele under fluctuating environments in infinitely large demes among which uniform mixin ...
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