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Thus, it is necessary to investigate the impacts of selection upon linkage analyses in order to obtain unbiased estimates of QTL position and effect.
These studies led to marker-aided selection, enabling validation of the position and effect of some of the QTLs (Shen et al. 2001; Steele et al. 2006) and to on-going QTL cloning work (Ahmadi et al., unpublished results).
However, once the marker density across the Vgt1 region is increased, JICIM increase the mapping resolution and give a much more accurate position and effect estimation of Vgt1.
Computer simulations were used to investigate prediction accuracy of GWP approaches with respect to map position and effect size.
Results indicate that TAGGING provides information on the position and effect sizes of QTL (including their precision) while improving prediction ability compared with traditional QTL mapping procedures.
Data were processed with MultiQTL software http://www.multiqtl.com/ and the multiple environment approach was used to increase the accuracy of the estimated QTL position and effect [ 56, 60].
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Table 1 shows position and effects of Tir2 and the three Tir3 QTL as were estimated from the F12-AIL.
Next, in the backward selection step, we used this new QTL as genetic background effects to re-estimate the position and effects of the first one.
For a given number of QTL and heritability level, QTL positions and effect sizes were generated randomly for each simulation run (see next section).
Position in and effect on the transcript is revealed by the colour of the vertical line signifying the variation.
The chromosomal positions and effects of putative QTLs were determined by composite interval mapping in QTL Cartographer 2.0 software (Basten et al. 2002).
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