All the newly discovered PRL2 sequences possess three conserved disulfide linkages with the exception of the shark PRL2 which has only two.
The comparison of the four individual maps and the integrated map revealed a similar order of the markers, even though changes of order and the position of a few markers were observed within a 5 cM distance in some of the linkage groups, with the exception of five linkage groups (A3, A5, A7, A9, and A10) where an inversion of more than 10 cM was observed.
In 93% of structures present in CSDB, all glycosidic linkages are fully determined (regarding monosaccharides, their three configurations and linkage positions) with the exception of anomeric and ring size configurations of mutarotating residues at reducing ends.
In comparison with the Prunus T × E reference map and other maps reported in Prunus (data not shown), the linkage groups of the N × L map covered close to the whole length of the almond linkage groups with the exception of G8 which requires further extension beyond EPDCU3454.
unguiculata consensus map linkage groups, with the exception of LG2 and LG5, which are quite similar between the two maps.
We compared the updated integrated map and the component maps and found the overall order and positions of the markers to be same, despite observing minor local inversions within a 5 cM distance in many linkage groups, with the exception of a few markers with longer distance inversions (in A2, A3, A4, and A9).
'AC Domain' alleles contributed to increasing the FN on 7D (linkage group 7D.2), with the exception of the Glenlea 2005 trial, wherein a negative additive score was observed for the FN.
When considering only the larger synteny blocks that have been tentatively identified within rainbow trout and Atlantic salmon genomes, all ancestral linkage groups with the exceptions of group A align with whole or partial arm affinities representing 4 or more arms.
The overall coefficient of collinearity among unigenes mapping to common linkage groups was 0.99, and collinearity coefficients by linkage group were 0.99−1.00, with the exception of the translocated distal arm of P1 cultivated and P8 wild at 0.96.
Double crossover numbers ranged from 13 in RT24 to 38 in RT31 while the other linkage groups had 3 double crossovers or less, with the exception of linkage group RT17 (see below).
