This is because IT uses primers based on allele sequences of functionally characterized genes, and thus specific banding patterns corresponding to plant phenotypes can be identified (Cernák, 2008; Cernák et al., 2008; Gizaw, 2011). However, development of such markers depends on the availability of robust genomic databases holding several target sequences for IT marker development. Functional gene characterization criteria might be limiting factors, since it is not possible to establish gene functions in a molecular ecological sense for all genes. The crucial question is whether useful allelic variation can be identified for all genes of ecological relevance in the targeted organism
