The multidrug resistance proteins (MRPs) serve a number of important roles in development, physiological homeostasis and metabolic resistance. In insects, they may also contribute to resistance against xenobiotics including insecticides and plant secondary metabolites. To investigate their contribution to xenobiotic resistance, we have examined the tissue distribution of gene and protein expression of the multidrug resistance proteins TrnMRP1 and TrnMRP4 of the lepidopteran insect, Trichoplusia ni. Using quantitative PCR and immunohistochemistry, we have identified high expression levels of both transporters in the Malpighian tubules relative to levels in other major tissues of the body, where they probably contribute to excretion of metabolic wastes or ingested xenobiotics. We have specifically located TrnMRP protein expression in a subpopulation of Malpighian tubule secondary cells. Expression of TrnMRP1 was also detected both at a high level in specific cortical neurons of larval ganglia and at a lower level throughout the cortex, where it may act in signaling or protective functions, respectively. In contrast, expression of TrnMRP4 was low to absent in larval ganglia, with the exception of single cells in the central connective. We discuss the potential implications of this TrnMRP activity on insect development and metabolic resistance.