Additional file 1.

LOD scores from single-QTL mapping analyses with or without accounting for relatedness among the F2 and F3. (A-F) LOD scores computed with classic single-QTL interval mapping using the F2 dataset (blue lines), F3 dataset (green lines), or F2 + F3 combined dataset (red lines) in R/qtl (left column) and QTLRel (right column). In QTLRel, condense identity coefficients were calculated to adjust background variation according to kinship among the F2 and F3 generations. This analyses found (A) two QTL by the classic scan with the F2 and the F3 dataset (left column), or one QTL (right column) for VAB, (B) five QTL with the F2 and the F3 dataset (left at LG 2, 9, 17 and 23), or three QTL (right at LG2 and 17) for eye-size, (C) one QTL for EO SN number in both, no significant QTL for either (D) SO-3 SN number or (E) SO-3 SN diameter, and (F) one QTL for albinism in the both methods. (G) The LOD score from multiple QTL mapping of albinism also identified a single QTL at the oca2 locus, as described previously [23]. The horizontal lines indicate genome-wide significance of P < 0.05 based on 2,000 permutation tests.

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Yoshizawa et al. BMC Biology 2012 10:108   doi:10.1186/1741-7007-10-108