The effect of salinity was influenced by various parameters including systems of salt application, variety, salts, duration of salinity and leaf position. The effect of salinity in Oryza sativa L., as in barley, was influenced by methods of salt application. e M-67 barley, M aratelli rice were salt susceptible and salt resistant under foliar and root treatments respectively on a shoot fresh weight basis but Maratelli on dry weight basis as well. However the opposite was true for Moroberekan. High accumulation of ions cause dehydration of tissues leading to ion toxicity and low turgor. Transpirational bypass flow was not a major pathway for Na+ transport in these varieties because there was a negative relationship between fluorescence and Na+ concentration in the varieties. Ion concentrations were variable and low Na+ and higher concentrations were observed in all varieties and in RILs (eo39 x Moroberekan). Although e r concentrations were higher than Na+ in rice, it is not clear which is more toxic. Salt was toxic to parental varieties and 170 recombinant inbred lines from F8 generation (eo39 x Moroberekan) on shoot fresh weight and resistance score basis. In general, Morobere kan had higher accumulation of ions particularly Na+ and e r than Maratelli and eo39 under salinity. Maratelli had earlier anthesis than Moroberekan. There were significant negative correlations for e r , Na+ and the sum (Na+ +KJ with resistance score, SFW and water content under salinity. Na+ was significantly but negatively correlated with SOW under salinity. A significant and negative correlation was found between the sum and water content at later stages of salinity. Various QTL for physiological and growth traits were detected on different chromosomes of rice. Marker RZ276, and the region around it on chromosome l is important for salt tolerance in rice because of the presence of consistent QTL for Na+ accumulation.