Analysis of linkage disequilibrium in an island model

Hidenori Tachida, C. Clark Cockerham

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

Linkage disequilibria for two loci in a finite island model were parameterized. The total linkage disequilibrium was decomposed into three components, gametic, demic, and population, for which corresponding unbiased estimators were established. Other statistics encountered provided measures of differentiation corresponding to the hierarchical structure of the ecological model. Under the assumption of linkage equilibrium, the variances and covariances of these estimators and statistics were formulated in terms of descent measures, functions of gene frequencies, and the numbers of individuals, demes, and populations sampled. The functions of gene frequencies fall into two classes, one representing the differentiation of genes at each locus, and the other representing the association of genes between the loci. For a neutral model with extinction, migration, and linkage, transition equations were derived for the descent measures which also take into account deme size and numbers of dems within the population. With the addition of unequal mutation rates for a finite number of alleles at each locus, the transition equations were solved for the descent measures in the equilibrium state. This permitted the exact numerical evaluation of the effects of the sampling and ecological dimensions and of extinction, migration, and mutation rates in any parameter range. Some numerical results were presented for the effects of linkage, extinction, migration, and sampling on the variances of various measures of linkage disequilibrium and genetic differentiation. Also, some results were compared with the approximate numerical results of Ohta which agreed fairly well in the parameter ranges she considered, but not so well in other ranges.

Original languageEnglish
Pages (from-to)161-197
Number of pages37
JournalTheoretical Population Biology
Volume29
Issue number2
DOIs
Publication statusPublished - Jan 1 1986
Externally publishedYes

Fingerprint

Linkage Disequilibrium
linkage disequilibrium
Islands
disequilibrium
Mutation Rate
linkage (genetics)
Gene Frequency
loci
extinction
gene
Population
gene frequency
mutation
statistics
Genes
sampling
Alleles
genetic differentiation
allele
genes

All Science Journal Classification (ASJC) codes

  • Agricultural and Biological Sciences(all)
  • Ecology, Evolution, Behavior and Systematics

Cite this

Analysis of linkage disequilibrium in an island model. / Tachida, Hidenori; Cockerham, C. Clark.

In: Theoretical Population Biology, Vol. 29, No. 2, 01.01.1986, p. 161-197.

Research output: Contribution to journalArticle

Tachida, Hidenori ; Cockerham, C. Clark. / Analysis of linkage disequilibrium in an island model. In: Theoretical Population Biology. 1986 ; Vol. 29, No. 2. pp. 161-197.
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