The study was conducted to determine the relationship of chickpea genotypes towards blight disease reaction, in vitro growth of A rabiei on sap extracted from chickpea and seed protein pattern by SDS-PAGE Seed proteins were analyzed through slab typeSDS-PAGE using 11,25% Polyacrylamide gel and 6 μl of sample quantity. Most of the genotypes grouped on the basis of disease reaction and in-vitro fungus growth but no association between disease and SDS-PAGE was observed. Out of 12 SDS-PAGE markers, 6 were polymorphic and gel was divided into three regions. The genotypes with similar banding patterns were suggested to test by 2-D electrophoresis and DNA markers for genetic diversity. Cluster analysis revealed mixed grouping of susceptible and tolerantgenotypes that indicated no response for classifying chickpea for disease reaction on the basis of SDS-PAGE A low level of genetic diversity was observed among 57 genotypes although those originated from diverse sources. As SDS-PAGE alone did not exhibithigh level of variation rather disease rating was more reliable than protein peptides, but simultaneous study for both aspects (disease and biochemical analysis) is suggested. Due to less effectiveness of SDS-PAGE in resolving intra-specific genetic diversity in cultivated chickpea and disease reaction, wild Cicer spp., are suggested to be included. Further, biochemical markers are suggested to enhance by adding DNA markers (RAPD, RFLP, AFLP) in relation with Ascochyta blight for further evaluation and screening that will help in marker assisted selection (MAS).
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