Transfer of therapeutic genes to the lung may provide a cure for diseases such as cystic fibrosis (CF), which affects 1 in 3,000 Caucasian births. Inactivating mutations in the CF transmembrane regulator (CFTR), a chloride ion channel, result in gradual lung destruction, which is the major cause of morbidity. Although the normal CFTR protein has been localized to both the apical surface of the airway epithelium (38) and the submucosal glands beneath the epithelium (10), the airway is the site of microbial obstruction associated with mortality. This clinical manifestation provides the rationale for targeting the airway epithelium for CF gene therapy. Among the many gene transfer systems being investigated are viral vectors such as those based on adeno-associated virus (AAV), a single-stranded DNA parvovirus. AAV can integrate and promote persistent gene expression in cultured cells and in dividing and nondividing cells in multiple somatic tissues of animals (19, 20, 22–24, 26, and 32). The ability to transduce nondividing cells is an important feature of AAV vectors for gene transfer to the airway epithelium, which has a low rate of proliferation (3, 21). Additionally, the fact that wild-type (wt) AAV has been isolated from human airways (4, 5, 27) is consistent with the idea that AAV has tropism for the lung epithelium. However, although AAV type 2 (AAV2) vectors can transduce multiple cell types in the lung, animal data thus far have shown low to modest rates of transduction by AAV2 vectors in the lung (11, 16, 17). Indeed, even introduction of a high dose of an AAV2 vector (1012 genome-containing particles) resulted in an overall transduction efficiency of 2% in the mouse airway epithelium (2). Animal studies show that the efficiency of AAV transduction is affected by several factors and can be enhanced by various treatments. AAV transduction in the developing neonatal rabbit lung was more efficient than that in adult lung and was observed in a variety of airway and alveolar cell types (40). AAV vector-transduced cells in adult mouse lungs were rare, but their numbers could be increased by addition of adenovirus to provide helper functions (11), DNA-damaging reagents (1, 23, 30), or tissue injury (13, 16). Additionally, administration of much higher doses of AAV vector could also increase transduction in the lung epithelium (2). Tissue culture models have shown that proliferation rates (29) and polarity of epithelia influence the efficiency of AAV vectors (9). Indeed, reagents that help AAV vectors to bypass the natural resistance of the apical surface to infection can augment AAV transduction 10- to 100-fold (9, 35). These results show that dosage, proliferation rates, and target cell access are factors involved in efficient transduction by AAV vectors in lung epithelia. Although AAV vector expression can persist for months to years, there may still be a need for readministration of vector to increase or replenish the population of modified cells. In readministration studies, few to no new transduction events have been detected in the rabbit or mouse lung or in skeletal muscle (12, 16, 17, 37), and these results were associated with the detection of neutralizing antibodies (16, 17). Several approaches have been used to achieve effective readministration. These include immune suppression in the lung (17) and muscle (25) and the use of other AAV types in the muscle and liver (36) and the lung (18). We showed that AAV vectors utilizing an AAV6 capsid (AAV6 pseudotype vector) have properties that could be useful for gene therapy, including low immunogenicity and the lack of cross-reactive antibodies generated against AAV2 (18). Quantitation of the number of vector-expressing cells in our previous study indicated that the AAV6 pseudotype vector was as efficient as, if not more efficient than, AAV2 vectors in the mouse lung and that the transduction rates in various cell types were different between AAV2 and AAV6 (18). In this study, we evaluated the transduction of lung cells by vectors based on the AAV6 serotype more thoroughly to determine the combination of vector components that mediated the most efficient transduction of airway epithelia. To achieve this goal, we made separate expression plasmids for the three components of the AAV6 vector: rep, cap, and the packaged genome containing terminal repeats (TR) from AAV6 and expressing human placental alkaline phosphatase (AP). In conjunction with similar constructs for AAV2 (2), complementation of AAV2 and AAV6 components to generate infectious virions was assessed and then transduction was evaluated in a mouse model of lung gene transfer. Our data show that AAV2 and AAV6 pseudotype vectors could be generated from all combinations of rep, cap, and genome from the two viruses and that transduction efficiencies of these vectors in tissue-cultured cells were primarily determined by the vector pseudotype, defined as the source of the capsid. While both AAV2 and AAV6 pseudotype vectors bind heparin, only AAV2 is inhibited by heparin in cell transduction assays, indicating that AAV2 and AAV6 interact with different receptors. In mouse lung delivery, the AAV2 vector gave high transduction rates in alveolar cells and much lower rates in airway epithelia, similar to the results obtained in previous studies. In contrast, an AAV6 pseudotype vector showed preferential transduction of epithelial cells in large and small airways at rates up to 80%. Transduction of the mouse airway epithelium by AAV6 pseudotype vectors was 15 to 74 times more efficient than transduction by an AAV2 vector. These results, combined with our previous results showing lower immunogenicity of AAV6 than of AAV2, indicate that AAV6 vectors may provide significant advantages for gene therapy for CF.