Background: Ethanol modulates the functional activity of α4β2 neuronal nicotinic cholinergic receptors (nAChR) when measured in vitro, but the potential role of α4β2 nAChRs in regulating behavioral effects of ethanol is unknown. Recently, Tritto et al. (Tritto T, Stitzel JA, Marks MJ, Romm E, Collins AC (2002) Variability in response to nicotine in the LS×SS RI strains: potential role of polymorphisms in alpha4 and alpha6 nicotinic receptor genes. Pharmacogenetics 12:197–208) reported that a polymorphism (A529T) in the α4 nAChR subunit gene is associated with variability in nicotine's effects on startle in the LS×SS recombinant inbred (RI) strains. Ethanol also alters the acoustic startle response. Thus, we evaluated the potential role of α4β2 nAChRs in modulating ethanol's effects on acoustic startle.