Combined line-cross and half-sib QTL analysis of crosses between outbred lines.

Authors:
Jong-Joo Kim
Jong-Joo Kim
School of Biotechnology
South Korea
Honghua Zhao
Honghua Zhao
Iowa State University
United States
Hauke Thomsen, Dr.
Hauke Thomsen, Dr.
GeneWerk GmbH
Senior Bioinformatician
Bioinformatics, Biostatistics, Genetics
Heidelberg, Baden-Württemberg/Germany | Germany
Max F Rothschild
Max F Rothschild
Iowa State University
United States

Genet Res 2005 Jun;85(3):235-48

Department of Animal Science, Center for Integrated Animal Genomics, Iowa State University, Ames, IA 50011, USA.

Data from an F 2 cross between breeds of livestock are typically analysed by least squares line-cross or half-sib models to detect quantitative trait loci (QTL) that differ between or segregate within breeds. These models can also be combined to increase power to detect QTL, while maintaining the computational efficiency of least squares. Tests between models allow QTL to be characterized into those that are fixed (LC QTL), or segregating at similar (HS QTL) or different (CB QTL) frequencies in parental breeds. To evaluate power of the combined model, data wih various differences in QTL allele frequencies (FD) between parental breeds were simulated. Use of all models increased power to detect QTL. The line-cross model was the most powerful model to detect QTL for FD>0.6. The combined and half-sib models had similar power for FD<0.4. The proportion of detected QTL declared as LC QTL decreased with FD. The opposite was observed for HS QTL. The proportion of CB QTL decreased as FD deviated from 0.5. Accuracy of map position tended to be greatest for CB QTL. Models were applied to a cross of Berkshire and Yorkshire pig breeds and revealed 160 (40) QTL at the 5% chromosome (genome)-wise level for the 39 growth, carcass composition and quality traits, of which 72, 54, and 34 were declared as LC, HS and CB QTL. Fourteen CB QTL were detected only by the combined model. Thus, the combined model can increase power to detect QTL and mapping accuracy and enable characterization of QTL that segregate within breeds.

Download full-text PDF

Source
http://dx.doi.org/10.1017/S0016672305007597DOI Listing

Still can't find the full text of the article?

We can help you send a request to the authors directly.
June 2005
40 Reads
1.470 Impact Factor

Publication Analysis

Top Keywords

detect qtl
12
qtl
10
frequencies parental
8
parental breeds
8
half-sib models
8
line-cross half-sib
8
power detect
8
models
5
maintaining computational
4
efficiency squares
4
computational efficiency
4
breeds simulated
4
qtl maintaining
4
combined
4
increase power
4
breeds models
4
segregate breeds
4
data wih
4
models combined
4
combined increase
4

Similar Publications