Yes, it possible to create genetic resistance in cotton plants for boll rot, that may be caused by more than 170 microorganisms. First, these microorganisms need to be grouped based on the nature and kinds of phytotoxins possibly produced by them. In the second step, the biochemical basis of resistance has to be established. It has been documented that the major antibiotic metabolites in cotton are condensed proanthocyanidins formed from (+)-catechin and (+)-gallocatechin, and terpenoid aldehydes formed from desoxyhemigossypol.
Article Biochemistry of disease and pest resistance in cotton
Finally, the identification of the gene(s) and establishment of the genetic control of secondary metabolites in the host against each group of microorganisms/ pathogens will pave the way for creating combined genetic resistance to ball rot in cotton plants.
To develop genetic resistance, it's a time being process or method and it can be done. Easily can introduce the ecological or pseudo resistance against cotton disease.