This study identified gene expression profiles that provided evidence for genomic mechanisms underlying the pathophysiology of aging lung. Aging lungs from C57BL/6 (B6) and DBA/2 (D2) mouse strains differ in physiology and morphometry. Lungs were harvested from B6 mice at 2, 18, and 26 mo and from D2 mice at 2 and 18 mo of age. Purified RNA was subjected to oligonucleotide microarray analyses, and differential expression analyses were performed for comparison of various data sets. A significant majority of differentially expressed genes were upregulated with aging in both strains. Aging D2 lungs uniquely exhibited upregulation in stress-response genes including xenobiotic detoxification cascades. In contrast, aging B6 lungs showed downregulation of heat shock-response genes. Age-dependent downregulation of genes common to both B6 and D2 strains included several collagen genes (e.g., Col1a1 and Col3a1). There was a greater elastin gene (Eln) expression in D2 mice at 2 mo, and Eln was uniquely downregulated with age in this strain. The matrix metalloproteinase 14 gene (Mmp14), critical to alveolar structural integrity, was also downregulated with aging in D2 mice only. Several polymorphisms in the regulatory and untranslated regions of Mmp14 were identified between strains, suggesting that variation in Mmp14 gene regulation contributes to accelerated aging of lungs in D2 mice. In summary, lungs of B6 and D2 mice age with variable rates at the gene expression level, and these quantifiable genomic differences provide a template for understanding the variability in age-dependent changes in lung structure and function.Mmp14; lung elasticity; lung senescence; microarray; mouse single nucleotide polymorphisms GLOBAL GENE EXPRESSION PROFILING is a powerful tool to generate hypotheses for less understood processes and has been used to study aging-associated gene expression changes in a variety of mouse tissues (8,9,25,27,35,36). However, differential gene expression analyses have not been applied to the aging lung, a critical primary organ in the defense against environmental insults such as airborne pollutants. To date, only one study has documented global expression in healthy human lungs (18) as a function of age. Although this study did not actually achieve statistical significance in gene expression variation with age, modest global differences in gene expression between young and old subjects were observed.The present study offers certain alternatives relative to studies using clinical samples by employing inbred mouse strains. The use of inbred mice achieves several advantages such as isogenicity and genomewide homozygosity among individuals within a strain, which significantly reduces gene expression variability between individuals. This variability was confounding in the aging human study (18). Aging mouse models have been used, for example, to evaluate global gene expression changes in skeletal muscle (35). One of the primary findings with aged skeletal muscle suggested that stress-response genes, including heat...