Ten adult female Sprague–Dawley rats were randomly assigned to the control or experimental group. The experimental group received 100 mg/kg/day of homocysteine in their drinking water for 3 weeks before mating and for the total duration of pregnancy. In each group, three pups per mother were randomly selected. The histomorphometric properties of tibial, radial and vertebral growth plates of newborn rats and the volume fraction of bone were compared between groups. The plasma homocysteine concentration at the end of study was significantly higher in dams in the experimental group (16.42 ± 1.5 vs. 4.7 ± 1.7 μmol/L, P < 0.05). In offspring born to dams given the homocysteine supplement, the volume fraction of bone in the tibia (30.7 ± 1.5 % vs. 36.8 ± 1.9 % , P < 0.05), radius (29.6 ± 1.1 % vs. 37.4 ± 2 % , P < 0.05) and vertebra (34.4 ± 1.8 % vs. 41 ± 1.9 % , P < 0.05) were significantly decreased whereas vertical heights of proliferative (423 ± 25.1 vs. 301.8 ± 28.1 μm for radius and 131.9 ± 5.9 vs. 107.8 ± 3.5 μm for vertebra) and hypertrophic zones (213.1 ± 12 vs. 163.3 ± 7.5 μm for tibia, 153.2 ± 7.7 vs. 121.1 ± 7.9 μm for radius and 112 ± 9.9 vs. 88.4 ± 10.1 μm for the vertebra) were increased (P < 0.05). The results showed that the administration of homocysteine caused osteopenia in newborn rats. In addition, these data suggest that hyperhomocysteinemia may induce disruption of normal development of epiphyseal cartilage in the rat embryo.