Recent studies suggest that the gene that encodes brain-derived neurotrophic factor (BDNF) might be linked with vulnerability to alcohol abuse. We have now compared BDNF protein levels in several brain regions between alcohol-naive alcohol-preferring (P) and -nonpreferring (NP) rats using the enzyme-linked immunosorbent assay (ELISA) procedure. The results showed that BDNF levels in the nucleus accumbens of the P rats were significantly lower than those of the NP rats, suggesting that this innate difference may contribute to the disparate alcohol drinking behavior of the P and NP rats.