Genetic relationships were reported for Chlamydia psittaci derived from psittacine birds, pigeons, turkeys, humans, cats, muskrats, cattle, and sheep and for C. trachomatis, including representative strains of the three biovars, through physical analysis of genomic DNA including DNA fingerprinting with restriction endonuclease Sall, DNA-DNA hybridization in solution with S1 nuclease, and Southern analysis with genomic DNA probes. A total of 26 strains were divided into four groups of C. psittaci and two groups of C. trachomatis, on the basis of DNA fingerprints. The six groups of Chlamydia spp. were related to host origin: two avian groups (Avl and Av2), one feline and muskrat group (Fel), one ruminant group (Rul), one C. trachomatis biovars trachoma and lymphogranuloma group (CtHu), and one C. trachomatis mouse biovar group (CtMo), although an ovine abortion strain belonged to the avian group Av2. DNA-DNA hybridization assay and Southern analysis with genomic DNA probes indicated three DNA homology groups in the genus Chlamydia: an avian-feline group (groups Avl, Av2, and Fel), a ruminant group (group Rul), and a C. trachomatis group (groups CtHu and CtMo). Furthermore, the Southern analysis indicated that the homologous sequences (DNA homology of at least 14%) within the avian-feline group were distributed along the whole genome, whereas the homologous sequences (DNA homology of less than 24%) among the three DNA homology groups were localized in distinct regions of the genome DNA. These results suggest that Chlamydia spp. are derived from a common ancestor and have diverged into various groups showing restricted host ranges as a natural characteristic and that the species C. psittaci should be differentiated into groups related to host origin and DNA homology.The genus Chiamydia comprises two species, Chiamydia psittaci and Chlamydia trachomatis (23). Differentiation of the two species is based on natural hosts, inclusion morphology, glycogen in inclusions, and folate biosynthesis (23). In the genus Chlamydia, interspecies DNA-DNA homology is less than 10%, while intraspecies DNA-DNA homology is almost 100% (12), although the mouse pneumonitis strain which is the mouse biovar of C. trachomatis showed only 30 to 60% DNA-DNA homology with other strains of the same species (29). The DNA-DNA homology of C. psittaci was, however, estimated for only two avian-related strains, California 10 (designated Frt-Hu/CallO in the present study) and 6BC (Prk/6BC in the present study) (12), despite the isolation of C. psittaci from a variety of animals and birds and despite a wide range of guanine and cytosine content (40 to 44 mol% G+C) (9). Immunological and biological analyses indicated phenotypic heterogeneity of C. psittaci (14,27). Recent analyses of DNA fingerprints also showed differences among several strains of C. psittaci (1,18,28).We have reported a series of studies for establishing a systematic classification of C. psittaci, such as immunological typing with monoclonal antibodies (8) and immunoblotting analysis ...