Set1 is a conserved histone H3 lysine 4 (H3K4) methyltransferase that exists as a multisubunit complex. Although H3K4 methylation is located on many actively transcribed genes, few studies have established a direct connection showing that loss of Set1 and H3K4 methylation results in a phenotype caused by disruption of gene expression. In this study, we determined that cells lacking Set1 or Set1 complex members that disrupt H3K4 methylation have a growth defect when grown in the presence of the antifungal drug Brefeldin A (BFA), indicating that H3K4 methylation is needed for BFA resistance. To determine the role of Set1 in BFA resistance, we discovered that Set1 is important for the expression of genes in the ergosterol biosynthetic pathway, including the rate-limiting enzyme HMG-CoA reductase. Consequently, deletion of SET1 leads to a reduction in HMG-CoA reductase protein and total cellular ergosterol. In addition, the lack of Set1 results in an increase in the expression of DAN1 and PDR11, two genes involved in ergosterol uptake. The increase in expression of uptake genes in set1Δ cells allows sterols such as cholesterol and ergosterol to be actively taken up under aerobic conditions. Interestingly, when grown in the presence of ergosterol set1Δ cells become resistant to BFA, indicating that proper ergosterol levels are needed for antifungal drug resistance. These data show that H3K4 methylation impacts gene expression and output of a biologically and medically relevant pathway and determines why cells lacking H3K4 methylation have antifungal drug sensitivity.chromatin | gene regulation | histone methylation | epigenetics M odifications on histones, such as phosphorylation, acetylation, methylation, and ubiquitination, have been implicated in gene expression and silencing (1, 2). One modification on histone H3 that is associated with active gene expression is the methylation of lysine 4 (H3K4) (3, 4). H3K4 methylation is present concurrently in mono-, di-, and trimethyl forms in the cell (1, 2). Primarily, H3K4 methylation is maintained in a pattern that has trimethylation enriched at the 5′ end of ORFs, dimethylation throughout the gene, and monomethylation enriched near the 3′ end (3, 4). In humans, H3K4 methylation is mediated by methyltransferases MLL1-4 and Set1A and -B complexes, which are homologous to the yeast Set1 H3K4 methyltransferase complex (5-12). In addition, Set1 and the human homologs are known to interact with the Ser5-phosphorylated C-terminal tail domain of RNA polymerase II (3). More recently, di-and trimethylated H3K4 have been shown to be docking sites for chromodomain and plant homeodomain (PHD) fingercontaining proteins (1,13,14). Taken together, this and other studies suggest that the methylation of histone H3K4 plays a role in mediating gene expression by recruiting effector proteins.In Saccharomyces cerevisiae, the Set1 complex (Set1C or COMPASS) is responsible for the methylation of histone H3K4 and the kinetochore protein Dam1 (5,[15][16][17][18][19]. Loss of the catalytic protei...