The hop plant, Humulus lupulus L., has an exceptionally high content of secondary metabolites, the hop ␣-acids, which possess a range of beneficial properties, including antiseptic action. Studies performed on the mode of action of hop iso-␣-acids have hitherto been restricted to lactic acid bacteria. The present study investigated molecular mechanisms of hop iso-␣-acid resistance in the model eukaryote Saccharomyces cerevisiae. Growth inhibition occurred at concentrations of hop iso-␣-acids that were an order of magnitude higher than those found with hop-tolerant prokaryotes. Chemostat-based transcriptome analysis and phenotype screening of the S. cerevisiae haploid gene deletion collection were used as complementary methods to screen for genes involved in hop iso-␣-acid detoxification and tolerance. This screening and further analysis of deletion mutants confirmed that yeast tolerance to hop iso-␣-acids involves three major processes, active proton pumping into the vacuole by the vacuolar-type ATPase to enable vacuolar sequestration of iso-␣-acids and alteration of cell wall structure and, to a lesser extent, active export of iso-␣-acids across the plasma membrane. Furthermore, iso-␣-acids were shown to affect cellular metal homeostasis by acting as strong zinc and iron chelators.The hop plant, Humulus lupulus L., belongs to the Cannabaceae family (36). Hop cones have an exceptionally high content of secondary metabolites, the hop acids, which account for up to 25% of their dry weight (13). The hop acids consist of two related groups of compounds, the ␣-acids and the -acids. Three major types of ␣-acids (humulone, cohumulone, and adhumulone) are water extracted from the resin and isomerized to six different iso-␣-acid isomers (cis,trans-humulone, cis,trans-cohumulone, and cis,trans-adhumulone, Fig.