Purpose Rats are widely used in biomedical research involving molecular imaging and therefore the radiation dose to animals has become a concern. The weight of laboratory animals might change through emaciation or obesity as a result of their use in various research experiments including those investigating different diet types. In this work, we evaluated the effects of changes in body weight induced by emaciation and obesity on the internal radiation dose from common positron-emitting radionuclides. Methods A systematic literature review was performed to determine normal anatomical parameters for adult rats and evaluate how organs change with variations in total body weight. The ROBY rat anatomical model was then modified to produce a normal adult rat, and mildly, moderately and severely emaciated and obese rats. Monte Carlo simulations were performed using MCNPX to estimate absorbed fractions, specific absorbed fractions (SAFs) and S-values for these models using different positron-emitting radionuclides. The results obtained for the different models were compared to corresponding estimates from the normal rat model. Results The SAFs and S-values for most source-target pairs between the various anatomical models were not significantly different, except where the intestine and the total body were considered as source regions. For the intestine, irradiating other organs in the obese model, the SAFs in organs in the anterior region of the splanchnocoele (e.g. kidney, liver and stomach) increased slightly, whereas the SAFs in organs in the posterior region of the splanchnocoele (e.g. bladder and testes) decreased owing to the increase in the distance separating the intestine and posterior abdominal organs because of the rat epididymal fat pad. For the total body, irradiating other organs, the SAFs and S-values were inversely related to body weight. Conclusion The effect of obesity on internal radiation dose is insignificant in most conditions for common positron-emitting radionuclides. Emaciation increases the cross-absorbed dose to organs from surrounding tissues, which might be a notable issue in laboratory animal internal dosimetry.