M. Ishaq Ibrahim, M. Adil, M. Ilyas (2017): Comparison of electrophoretic protein profiles of Brassica rapa sub-species brown sarson through Vol 49, No. 1,[95][96][97][98][99][100][101][102][103][104] Estimation of protein based variability among different Brassica sub-species is important for crop improvement. In present study total seed protein based variation among brown sub-specie of B. rapa was studied. Twenty different brown types' genotypes were analysed through Sodium Dodecyl Sulphate Poly Acrylamide Gel Electrophoresis (SDS-PAGE) method. The small, medium and large sizes proteins were noted. A total of 12 bands were obtained in which 10 (83.33%) are highly polymorphic while the rest two (15.38%) are monomorphic. The protein size base polymorphism was divided into different groups on the basis of molecular weight that ranges from ~10 kDa to ~180 kDa. The data of variable proteins were analysed through Unweighted Pair Group Method with Arithmetic Mean (UPGMA) method, which clustered all genotypes into four main cluster groups. The cluster I and II, III and IV consisted 3, 3, 6 and 10 genotypes respectively. The similarity coefficient values (40 to 96%) were calculated among different genotypes. The maximum similarity coefficient (96%) was recorded among genotypes Br-607, Br-560, and between Br-589 and Br-607 respectively. Our study showed maximum protein based diversity among brown sub-species of B. rapa which may serve as model to search protein based variation in other important plants sub-species.