Table 1.
Possible parent and offspring genotype configurations in an autotetraploid species.
Figure 1.
An example of theta scores for a SNP with five dosage classes.
A plot of theta scores against the sample order for SNP c1_10069, with Stirling in black and 12601ab1 in red.
Table 2.
Expected genotype class frequencies for a simplex SNP linked to a duplex or double-simplex SNPs in coupling or repulsion phase in an autotetraploid species.
Table 3.
Gametic genotype frequencies for two duplex SNPs (AAAA x AABB and CCCC x CCDD) linked in coupling.
Table 4.
An example of QTL genotype estimation for one offspring from the parental genotypes and the offspring dosage.
Table 5.
Number of recombinations required to reach possible genotype states from starting genotype state of aceg.
Table 6.
Distribution of SNPs into genotype classes.
Table 7.
The number of SNPs on each chromosome, the number of near-duplicates and the number mapped after two rounds of JoinMap analysis.
Figure 2.
Distribution of statistics estimated from simulated SNP pairs.
(A) Histogram of the estimated recombination fractions, simulated with expectation 0.1. (B) Histogram of the corresponding estimated LOD scores. (C) Histogram of the estimated recombination fractions, simulated with expectation 0.05. (D) Histogram of the corresponding estimated LOD scores.
Figure 3.
Linkage maps for potato chromosomes I and II.
Figure 4.
Linkage maps for potato chromosomes III and IV.
Figure 5.
Linkage maps for potato chromosomes V and VI.
Figure 6.
Linkage maps for potato chromosomes VII and VIII.
Figure 7.
Linkage maps for potato chromosomes IX and X.
Figure 8.
Linkage maps for potato chromosomes XI and XII.
Table 8.
Summary statistics for each chromosomal group, and the proportion of simulated genotypes where the correct chromosomes were identified.
Table 9.
QTL coefficients for three examples of SNPs mapped on LG V.
Figure 9.
An example of theta scores showing a double reduction product.
A plot of the theta scores for simplex SNP c2_45058 at 8.6 cM on LG I shows a probable double reduction product for individual 160. This individual showed a similar pattern for the linked SNP c2_6865 at 0.0 cM.