Pharmacological evidence suggests the involvement of gamma-aminobutyric acid (GABA) perturbation in the etiology of mood disorders. A linkage study has detected chromosomal area 5q34, where GABA type A (GABA(A)) receptor subunit genes are mapped, as a susceptibility region for mood disorders, making these genes compelling candidates for such diseases. Our prior quantitative trait loci (QTL) analysis of mouse depression models identified a QTL on mouse chromosome 11, a genomic region whose human synteny includes 5q34. This further supports a contribution from GABA(A) receptors to a predisposition towards mood disorder. In the present study, we examined GABA(A) receptor alpha1 (GABRA1), alpha6 (GABRA6) and gamma2 (GABRG2) subunit genes on 5q34. Polymorphisms on GABRA1 and GABRA6 genes displayed significant associations with mood disorders in female patients. These data offer genetic support for a role of GABA(A) receptor genes in susceptibility to mood disorders.