Originally published as Genetics Published Articles Ahead of Print on February 1, 2008.

Genetics, Vol. 178, 1737-1743, March 2008, Copyright © 2008
doi:10.1534/genetics.107.081430

Mapping Interspecific Genetic Architecture in a Host–Parasite Interaction System

Jian Yang, Weiren Wu and Jun Zhu1

Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, People's Republic of China, 310029

1 Corresponding author: Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, People's Republic of China, 310029.
E-mail: jzhu{at}zju.edu.cn

Under a hypothesis that the host–parasite interaction system is governed by genome-for-genome interaction, we propose a genetic model that integrates genetic information from both the host and parasite genomes. The model can be used for mapping quantitative trait loci (QTL) conferring the interaction between host and parasite and detecting interactions among these QTL. A one-dimensional genome-scan strategy is used to map QTL in both the host and parasite genomes simultaneously conditioned on selected pairs of markers controlling the background genetic variation; a two-dimensional genome-scan procedure is conducted to search for epistasis within the host and parasite genomes and interspecific QTL-by-QTL interactions between the host and parasite genomes. A permutation test is adopted to calculate the empirical threshold to control the experimentwise false-positive rate of detected QTL and QTL interactions. Monte Carlo simulations were conducted to examine the reliability and the efficiency of the proposed models and methods. Simulation results illustrated that our methods could provide reasonable estimates of the parameters and adequate powers for detecting QTL and QTL-by-QTL interactions.