Genetics, Vol. 156, 2081-2092, December 2000, Copyright © 2000

Mapping Quantitative Trait Loci in Complex Pedigrees: A Two-Step Variance Component Approach

Andrew W. Georgea, Peter M. Visscherb, and Chris S. Haleya
a Roslin Institute, Midlothian EH25 9PS, United Kingdom
b Institute of Cell, Animal and Population Biology, Edinburgh EH9 3JG, Scotland

Corresponding author: Andrew W. George, Division of Genetics and Biometry, Roslin Institute (Edinburgh), Roslin, Midlothian EH25 9PS, United Kingdom., andrew.george{at}bbsrc.ac.uk (E-mail)

Communicating editor: T. F. C. MACKAY

There is a growing need for the development of statistical techniques capable of mapping quantitative trait loci (QTL) in general outbred animal populations. Presently used variance component methods, which correctly account for the complex relationships that may exist between individuals, are challenged by the difficulties incurred through unknown marker genotypes, inbred individuals, partially or unknown marker phases, and multigenerational data. In this article, a two-step variance component approach that enables practitioners to routinely map QTL in populations with the aforementioned difficulties is explored. The performance of the QTL mapping methodology is assessed via its application to simulated data. The capacity of the technique to accurately estimate parameters is examined for a range of scenarios.




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