All the identified polymorphic markers were included in the model at c = 1.6 cM, meaning that the mean marker distance of the entire marker set was ~1.6 cM.
A genome-wide scan of 1,122 microsatellites (average marker spacing of 3.6 cM and mean marker heterozygosity of 0.70) was performed by the deCODE genotyping service.
Linkage analysis confirmed linkage of the above ten markers onto the same linkage group (SA-LG2), with a total length of 64 cM and mean marker interval of 7.09 cM.
The Affymetrix 100 K Mapping array has a mean marker distance of 24 kb with a median of ~8.5 kb.
Using the SNPs we identified, a high-density genetic map containing 458 bin-markers was constructed, spanning a total genetic distance of 2,566.8 cM across the 20 linkage groups of C. maxima with a mean marker density of 5.60 cM.
On the other hand, the map constructed by Blair et al. [ 33] contained 118 loci with a total map length of 726.0 cM and a mean marker density of 6.2 cM per locus.
At MMU1 an additional 13 markers were genotyped, giving a total of 21 markers covering 51.8 cM, with mean marker interval of 2.59 cM; while at MMU5 an additional 14 markers were genotyped, giving a total of 20 markers covering 53.0 cM, with mean marker interval of 2.79 cM (see Figure 2 for details).
Copy number variations were defined as gain or loss regions of at least 200 kb with a mean marker distance of not more than 5,000 base pairs.
The F2-based map consisted of 13 LG spanning 1,012 cM, with a mean marker interval of 3.1 cM, where the largest gap resided in Chromosome IV associated with LG 4A and LG 4B. a LG = linkage group.
Assuming ∼740 Mb genome size of chickpea, the 834 marker-based genetic linkage map had mean marker density of one marker per 887.3 kb.
