Availability of informative molecular markers isa prerequisite for genetic mapping and marker-assisted selection projects.Micro-satellites orSimple Sequence Repeat(SSR)markers arePCR-based and currently the most widely usedmarker system in the plant molecular geneticscommunity due to their high degree ofpolymorphism,random distribution throughoutthe genome and their suitability for highthroughput genotyping formats.Despite itsglobal economic importance,cotton has slower Availability of informative molecular markers isa prerequisite for genetic mapping and marker-assisted selection projects. Micro-satellites or Simple Sequence Repeat (SSR) markers are PCR-based and currently the most widely used marker system in the plant molecular genetics community due to their high degree of polymorphism, random distribution throughoutthe genome and their suitability for highthroughput genotyping formats.Despite itsglobal economic importance, cotton has slower