Alpha-1 antitrypsin (AAT) deficiency is an hereditary metabolic disorder which predisposes affected individuals to juvenile liver disease and to pulmonary emphysema towards the third or fourth decade of life. Since prevention and treatment of this pulmonary complication is at present perfectly feasible, we have carried out a pilot study of neonatal screening for AAT deficiency in order to determine the incidence of this deficiency in Spain and to evaluate the parents' reactions on being told of this metabolic disorder. Fifteen thousand four hundred spanish newborn infants were screened for AAT deficiency. The study was carried out using the eluate from dried blood samples provided by the Cantabria University and the Basque Country Health Service Units for the detection of metabolic disorders. The screening test was based on a semiquantitative electroimmunoassay for AAT together with transferrin. For all cases suspected of AAT deficiency, the Pi phenotype was determined. With the screening test, 58 suspect cases were detected. Of these, the phenotype study showed 32 AAT deficient cases (8 Pi Z and 24 Pi SZ) representing a global incidence of 2.08±0.72 per thousand. In 4 Pi Z cases there was clinical and laboratory evidence of liver disease. The parents of the AAT-deficient children were informed of the potencially harmfull effect of tobacco smoke on the child. Their reaction towards this information was positive. Bearing in mind the high incidence of AAT-deficiency, and the existing preventive and therapeutic measures for pulmonary emphysema in AAT-deficient cases, mass-screening for this deficiency may be advisable. This screening could be considerably facilitated by recently developed genome analysis techniques.