It is well known that pathways arising from the nucleus basalis magnocellularis in the basal forebrain which terminate in the cerebral cortex are involved in cognitive function. The cholinergic system is generally thought to play a large part in these processes from lesion, pharmacological and transplantation studies. With increasing evidence suggesting the involvement of amino acid transmitters in learning and memory processes, it is of interest to also evaluate possible changes in the levels of amino acid transmitters in the cortex of nucleus basalis magnocellularis-lesioned rats. In the present study, 9 cortical amino acids were measured in rats with bilateral lesions of the nucleus basalis magnocellularis. We measured significant reductions in aspartate, alanine and gamma-aminobutyric acid; these were 80%, 75%, and 81%, respectively, of control brain values. These results suggest that changes in the amino acid content of the cerebral cortex following lesion of the nucleus basalis magnocellularis-lesioned rat should perhaps also be considered when evaluating behavioral effects in this model.