Cotton is the very important commercial and cash crop, it is a very much necessary to improve the Superior agronomic traits to withstand against biotic and abiotic stress in the field and fiber qualities to meet requirement of advance spinning technology. Cotton improvement through conventional breeding is time consuming, in this context molecular markers found that efficient tool to accelerate the plant breeding program in cotton improvement. At present variety of molecular markers are available, choice of molecular marker depends on the user. This review article gives a over view of various molecular markers used in cotton include Restriction Fragment Length Polymorphism (RFLP), Random Amplified Polymorphic DNA (RAPD), Amplified Fragment Length Polymorphism (AFLP), Simple Sequence Repeats (SSR), Inter Simple Sequence Repeats (ISSR), Sequence Related Amplified Polymorphism (SRAP) and Single Nucleotide Polymorphism (SNP). These markers play a crucial role in crop improvement program like (a) Analysis of Genetic diversity in cotton, (b) Construction of linkage map, (c) QTL analysis agronomic and fiber related traits in cotton (d) Marker assisted selection (MAS).

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