Choline is an essential nutrient that, via its metabolite betaine, serves as a donor of methyl groups used in fetal development to establish the epigenetic DNA and histone methylation patterns. Supplementation with choline during embryonic days (E) 11-17 in rats improves memory performance in adulthood and protects against age-related memory decline, whereas choline deficiency impairs certain cognitive functions. We previously reported that global and gene-specific DNA methylation increased in choline-deficient fetal brain and liver, and these changes in DNA methylation correlated with an apparently compensatory up-regulation of the expression of DNA methyltransferase Dnmt1. In the current study, pregnant rats were fed a diet containing varying amounts of choline (mmol/kg: 0 (deficient), 8 (control), or 36 (supplemented)) during E11-17, and indices of histone methylation were assessed in liver and frontal cortex on E17. The mRNA and protein expression of histone methyltransferases G9a and Suv39h1 were directly related to the availability of choline. DNA methylation of the G9a and Suv39h1 genes was up-regulated by choline deficiency, suggesting that the expression of these enzymes is under negative control by methylation of their genes. The levels of H3K9Me2 and H3K27Me3, tags of transcriptionally repressed chromatin, were up-regulated by choline supplementation, whereas the levels of H3K4Me2, associated with active promoters, were highest in choline-deficient rats. These data show that maternal choline supply during pregnancy modifies fetal histone and DNA methylation, suggesting that a concerted epigenomic mechanism contributes to the long term developmental effects of varied choline intake in utero.Choline is an essential nutrient whose adequate supply in maternal diet during pregnancy is vital for normal development of the fetus (1), and studies in humans (2) and animals (3-6) indicate that its intake during gestation is especially important for the normal development and function of the central nervous system. For example, in a model that employs offspring of pregnant rats or mice consuming diets of varying choline content during only a 1-week period of the second half of gestation (E11-17), 2 choline deficiency causes impairments in certain memory tasks (7), whereas choline supplementation improves memory and attention (7-14) and, remarkably, prevents agerelated memory decline (3,5,14). In addition to behavioral changes, altered choline availability modifies fetal hippocampal cell proliferation (15, 16), apoptosis (17), and differentiation (18,19). High E11-17 choline intake increases the size of cholinergic neurons in the adult basal forebrain (20) and enhances acetylcholine storage (14) and release (21), elevates brain concentrations of the neurotrophins nerve growth factor, brainderived neurotrophic factor, and NT3 (22-24) and of IGF2 and its receptor IGF2R (25), lowers the stimulation threshold for induction of long term potentiation (26, 27), and enhances depolarization-induced mitogen-activated protei...