Contents

4. Properties of Single Loci

• Gene and genotype frequencies
• The transmission of genetic information
  • Testing for Hardy-Weinberg proportions
• Characterization of the influence of a locus on the phenotype
• Decomposition of the genotypic value
• Partitioning the genetic variance
• The concept of breeding value
• Generalization of the linear model
• The basis of dominance

Programs

• Tools for Population Genetic Analyses (TFPGA): A Windows program (by Mark Miller at Arizona State University) for the analysis of allozyme and molecular population genetic data. This program calculates descriptive statistics, genetic distances, and F-statistics. It also performs tests for Hardy-Weinberg equilibrium, exact tests for genetic differentiation, Mantel tests, and UPGMA cluster analyses. Additional features include the ability to analyze hierarchical data sets as well as data from either codominant markers such as allozymes or dominant markers such as AFLPs or RAPDs. More details can be found at the TFPGA WWW site

• GDA: Software for the Analysis of Discrete Genetic Data. GDA, a Microsoft Windows program (by Paul Lewis, University of Connecticut) for analyzing discrete genetic data, is designed to accompany the second edition of Bruce Weir's book "Genetic Data Analysis" Both 16-bit versions (for Windows 3.1x) and 32-bit versions (for Windows 95 or Windows NT) are available. Includes basic single-locus descriptive statistics, Wright's F-statsistics for subdivided populations, Genetic distance measures, and exact tests for disequilibrium. More details can be found at the GDA WWW site .

• A simple Mathematica program for generating color plots (as a function of allele frequency) of the total, additive and dominance genetic variances, heritability, breeding values, average effects and domiance deviations for a single diallelic locus.

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Bruce Walsh. jbwalsh@u.arizona.edu . Comments welcome.