Exposure of soybean (Glycine max) seedlings to low levels of atmospheric methyl jasmonate induced the expression and accumulation of one or more lipoxygenase(s) in the primary leaves, hypocotyls, epicotyls, and cotyledons. In the primary leaf, the major site of lipoxygenase accumulation in response to methyl jasmonate was in the vacuoles of paraveinal mesophyll cells. In the other organs, however, most of the methyl jasmonate-responsive lipoxygenase(s) were associated with both the epidermal and cortical cells and were present in both vacuoles and plastids. In plastids, the methyl jasmonate-responsive lipoxygenase was sequestered into protein inclusion bodies; no lipoxygenase was evident in either the thylakoids or the stroma. Both spectrophotometric measurement of conjugated diene formation and thin layer chromatography of lipoxygenase product formation indicated that methyl jasmonate caused an increase in the amount of lipoxygenase activity. Electron microscopy of the methyl jasmonate-responsive lipoxygenase protein in the vacuoles showed that it was arranged into a stellate, paracrystalline structure in various cell types other than the paraveinal mesophyll cells. The paracrystals appeared to be composed of tubular elements of between 5 and 8 nm in diameter, were of variable length, and were observed in most cell types of the seedling organs.