Human body and head lice are highly related hematophagous ectoparasites but only the body louse has been shown to transmit Bartonella quintana, the causative agent of trench fever. The mechanisms by which body lice became a vector for B. quintana, however, are poorly understood. Following the oral challenge, green fluorescence protein-expressing B. quintana proliferated over 9 days post-challenge with the number of bacteria being significantly higher in whole body versus head lice. The numbers of B. quintana detected in feces from infected lice, however, were approximately the same in both lice. Nevertheless, the viability of B. quintana, was significantly higher in body louse feces. Comparison of immune responses in alimentary tract tissues revealed that basal transcription levels of peptidoglycan recognition protein and defensins were lower in body lice and the transcription of defensin 1 was up-regulated by oral challenge with wild-type B. quintana in head but not in body lice. In addition, the level of cytotoxic reactive oxygen species generated by epithelial cells was significantly lower in body lice. Although speculative at this time, the reduced immune response is consistent with the higher vector competence seen in body versus head lice in terms of B. quintana infection.