Campus Units

Animal Science

Document Type

Article

Publication Version

Published Version

Publication Date

2000

Journal or Book Title

Genetics Selection Evolution

Volume

32

First Page

467

Last Page

482

DOI

10.1186/1297-9686-32-5-467

Abstract

The accurate estimation of the probability of identity by descent (IBD) at loci or genome positions of interest is paramount to the genetic study of quantitative and disease resistance traits. We present a Monte Carlo Markov Chain method to compute IBD probabilities between individuals conditional on DNA markers and on pedigree information. The IBDs can be obtained in a completely general pedigree at any genome position of interest, and all marker and pedigree information available is used. The method can be split into two steps at each iteration. First, phases are sampled using current genotypic configurations of relatives and second, crossover events are simulated conditional on phases. Internal track is kept of all founder origins and crossovers such that the IBD probabilities averaged over replicates are rapidly obtained. We illustrate the method with some examples. First, we show that all pedigree information should be used to obtain line origin probabilities in F2 crosses. Second, the distribution of genetic relationships between half and full sibs is analysed in both simulated data and in real data from an F2 cross in pigs.

Comments

This is an article from Genetics Selection Evolution 32 (2000): 467, doi:10.1186/1297-9686-32-5-467. Posted with permission.

Rights

This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Copyright Owner

INRA, EDP Sciences

Language

en

File Format

application/pdf

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