In Thailand where the total population is approximately 63 millions with 800 000 births per year, 30-40% of the peoples are carriers of thalassemia and hemoglobinopathies. These include 20-30% of a-thalassemia trait, 3-9% with b-thalassemia trait, 20-30% with Hb E (1). With such high prevalence, thalassemia syndromes are very common, leading to major health and socioeconomic problem of these countries. It is estimated that 1% of Thai population has thalassemia disease and each year there are more than 12 000 new births with thalassemia syndromes. The national prevention and control program of thalassemia has been implemented throughout the country. Three severe thalassemia diseases, targeted for prevention and control are Hb Bart's hydrops fetalis (homozygous a°-thalassemia), homozygous b-thalassemia and Hb E-b-thalassemia. If parents are both carriers, there is a 25% chance in each pregnancy that the child will be born with these thalassemia diseases. One objective of the prevention and control program is to prevent birth of new cases with these three severe thalassemia diseases. Carrier screening and prenatal diagnosis for couple at risk for these Abstract Introduction: Prenatal diagnosis of severe a-and b-thalasssemia diseases is usually performed by DNA analysis. Objective: To establish a simple method, we have evaluated the reliability of prenatal diagnosis by fetal blood analysis using automated capillary electrophoresis system. Methods: Forty-seven fetal blood specimens collected by cordocentesis at 18-28 wk of gestation were analyzed by the capillary electrophoresis system (Sebia). Fetal DNA was analyzed for respective thalassemia alleles by PCR. Results: Among 47 fetuses, 20 were at risk for the Hb Bart's hydrops fetalis. DNA analysis identified four cases of homozygous a°-thalassemia (SEA type). Hb analysis by the capillary electrophoresis demonstrated a major peak of Hb Bart's (78.4-81.3%), Hb H (0.8-1.4%) and minor peaks of presumably embryonic Hbs. No Hb F and Hb A was observed. The level of Hb Bart's was found to be 3.4-5.8% in unaffected heterozygote whereas normal fetus had no Hb Bart's. Among the remaining 27 fetuses at risk for Hb E-b-thalassemia, DNA analysis identified 12 affected fetuses. Hb analysis showed Hb F (94.9-98.9%) and Hb E (1.1-1.8%) without Hb A in all cases. The levels of Hb A were found to be (4.3-7.2%), (1.0-5.5%) and (2.1-3.9%) in normal, heterozygous Hb E and heterozygous b-thalassemia fetuses, respectively. Affected and unaffected fetuses could be easily distinguished. Conclusion: Capillary electrophoresis system is a simple and automated procedure for accurate prenatal diagnosis of severe thalassemia diseases which could readily be performed in routine setting.