Kawasaki disease (KD) is an acute febrile disorder characterized by systemic vasculitis primarily occurring in coronary arteries. Matrix metalloproteinases (MMPs) have been considered to play pathophysiologic roles in the development of coronary artery lesions (CALs); therefore, an evaluation of the genetic contributions of the MMP genes to the development of CALs in KD patients would be beneficial for the prediction of CAL formation. We focused on the known functional single nucleotide polymorphisms (SNPs) in the MMP genes (MMP-2-735CϾT, MMP-3-1612 5A/6A, MMP-9-1562CϾT, and performed the association study between these SNPs and CAL formation in KD. The study population consisted of 44 KD patients with CALs and 92 without CALs and 175 healthy controls. As a result, allele and genotype frequencies of MMP-13-77AϾG showed significant differences between KD patients with CALs and without CALs (p ϭ 0.00989 and p ϭ 0.00551, respectively). The estimated frequencies of the G-C haplotype in the MMP-13 gene promoter were significantly lower in KD patients with CALs than in those without CALs. There was no association between other MMP genes and CAL formation. In conclusion, the genetic evaluation by association study demonstrated that the MMP-13 gene, at least in part, contributed to the development of CALs in KD. K awasaki disease (KD) is an acute febrile disorder characterized by systemic vasculitis predominantly occurring in infants and young children. Although the administration of i.v. immunoglobulin (IVIG) in the acute phase of the disease significantly reduces the development of coronary artery lesions (CALs), 2%-15% of KD patients still suffer from this complication (1,2). There is a strong inflammatory predilection for the coronary arteries, and the inflammation in subendothelial layers includes striking edema and infiltration of CD8ϩ T cells, monocytes, and macrophages with little or no fibrinoid necrosis and few polymorphonuclear cells (3). Inflammatory cells infiltrating from the lumen and from the adventitia to the media appear to mediate transmural damage to the arteries, followed by the development of coronary aneurysms.The inability to obtain affected coronary arteries has precluded a comprehensive understanding of the mechanism how the pathologic changes in the vessel wall evolve. As a substitute for pathologic evaluation of the affected tissues, the measurements of cytokines in serum and gene expression levels in peripheral blood cells were studied for the prediction of CAL formation (4). In previous studies, serum vascular endothelial growth factor (VEGF) and hepatocyte growth factor levels in patients with KD were remarkably high in the acute phase and were major risk factors for the occurrence of CALs, probably by an increasing permeability in vessels to cause vascular edema (4 -6). A significant elevation of serum matrix metalloproteinase (MMP)-9 levels and a remarkably high expression of the MMP-9 mRNA in the leukocytes were detected during the acute phase of KD (7), suggesting that MMP-9...