Literature DB >> 16452141

Coalescent processes when the distribution of offspring number among individuals is highly skewed.

Bjarki Eldon1, John Wakeley.   

Abstract

We report a complex set of scaling relationships between mutation and reproduction in a simple model of a population. These follow from a consideration of patterns of genetic diversity in a sample of DNA sequences. Five different possible limit processes, each with a different scaled mutation parameter, can be used to describe genetic diversity in a large population. Only one of these corresponds to the usual population genetic model, and the others make drastically different predictions about genetic diversity. The complexity arises because individuals can potentially have very many offspring. To the extent that this occurs in a given species, our results imply that inferences from genetic data made under the usual assumptions are likely to be wrong. Our results also uncover a fundamental difference between populations in which generations are overlapping and those in which generations are discrete. We choose one of the five limit processes that appears to be appropriate for some marine organisms and use a sample of genetic data from a population of Pacific oysters to infer the parameters of the model. The data suggest the presence of rare reproduction events in which approximately 8% of the population is replaced by the offspring of a single individual.

Entities:  

Mesh:

Year:  2006        PMID: 16452141      PMCID: PMC1456405          DOI: 10.1534/genetics.105.052175

Source DB:  PubMed          Journal:  Genetics        ISSN: 0016-6731            Impact factor:   4.562


  14 in total

1.  Genetic drift in an infinite population. The pseudohitchhiking model.

Authors:  J H Gillespie
Journal:  Genetics       Date:  2000-06       Impact factor: 4.562

2.  On the number of segregating sites in genetical models without recombination.

Authors:  G A Watterson
Journal:  Theor Popul Biol       Date:  1975-04       Impact factor: 1.570

3.  Gene genealogies when the sample size exceeds the effective size of the population.

Authors:  John Wakeley; Tsuyoshi Takahashi
Journal:  Mol Biol Evol       Date:  2003-02       Impact factor: 16.240

4.  On the meaning and existence of an effective population size.

Authors:  P Sjödin; I Kaj; S Krone; M Lascoux; M Nordborg
Journal:  Genetics       Date:  2004-10-16       Impact factor: 4.562

5.  Large variance in reproductive success and the Ne/N ratio.

Authors:  Philip Hedrick
Journal:  Evolution       Date:  2005-07       Impact factor: 3.694

6.  Evolution in Mendelian Populations.

Authors:  S Wright
Journal:  Genetics       Date:  1931-03       Impact factor: 4.562

7.  TESTING THE CONSTANT-RATE NEUTRAL ALLELE MODEL WITH PROTEIN SEQUENCE DATA.

Authors:  Richard R Hudson
Journal:  Evolution       Date:  1983-01       Impact factor: 3.694

8.  Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.

Authors:  F Tajima
Journal:  Genetics       Date:  1989-11       Impact factor: 4.562

9.  Genetic effective size is three orders of magnitude smaller than adult census size in an abundant, Estuarine-dependent marine fish (Sciaenops ocellatus).

Authors:  Thomas F Turner; John P Wares; John R Gold
Journal:  Genetics       Date:  2002-11       Impact factor: 4.562

10.  Mitochondrial cytochrome B DNA variation in the high-fecundity atlantic cod: trans-atlantic clines and shallow gene genealogy.

Authors:  Einar Arnason
Journal:  Genetics       Date:  2004-04       Impact factor: 4.562

View more
  62 in total

1.  Dynamics of neutral and selected alleles when the offspring distribution is skewed.

Authors:  Ricky Der; Charles Epstein; Joshua B Plotkin
Journal:  Genetics       Date:  2012-06-01       Impact factor: 4.562

2.  The Site Frequency Spectrum for General Coalescents.

Authors:  Jeffrey P Spence; John A Kamm; Yun S Song
Journal:  Genetics       Date:  2016-02-16       Impact factor: 4.562

3.  Exploring the causes of small effective population sizes in cyst nematodes using artificial Globodera pallida populations.

Authors:  Josselin Montarry; Sylvie Bardou-Valette; Romain Mabon; Pierre-Loup Jan; Sylvain Fournet; Eric Grenier; Eric J Petit
Journal:  Proc Biol Sci       Date:  2019-01-16       Impact factor: 5.349

4.  Statistical properties of the site-frequency spectrum associated with lambda-coalescents.

Authors:  Matthias Birkner; Jochen Blath; Bjarki Eldon
Journal:  Genetics       Date:  2013-09-11       Impact factor: 4.562

5.  The probability of fixation of a single mutant in an exchangeable selection model.

Authors:  Sabin Lessard; Véronique Ladret
Journal:  J Math Biol       Date:  2007-01-25       Impact factor: 2.259

6.  Cooperation is less likely to evolve in a finite population with a highly skewed distribution of family size.

Authors:  Sabin Lessard
Journal:  Proc Biol Sci       Date:  2007-08-07       Impact factor: 5.349

7.  Computing likelihoods for coalescents with multiple collisions in the infinitely many sites model.

Authors:  Matthias Birkner; Jochen Blath
Journal:  J Math Biol       Date:  2008-03-18       Impact factor: 2.259

8.  Linkage disequilibrium under skewed offspring distribution among individuals in a population.

Authors:  Bjarki Eldon; John Wakeley
Journal:  Genetics       Date:  2008-02-01       Impact factor: 4.562

9.  The genealogical consequences of fecundity variance polymorphism.

Authors:  Jesse E Taylor
Journal:  Genetics       Date:  2009-05-11       Impact factor: 4.562

10.  Coalescence times and FST under a skewed offspring distribution among individuals in a population.

Authors:  Bjarki Eldon; John Wakeley
Journal:  Genetics       Date:  2008-12-01       Impact factor: 4.562

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.