Whether Vibrio mimicus is a variant of Vibrio cholerae or a separate species has been the subject of taxonomic controversy. A genomic analysis was undertaken to resolve the issue. The genomes of V. mimicus MB451, a clinical isolate, and VM223, an environmental isolate, comprise ca. 4,347,971 and 4,313,453 bp and encode 3,802 and 3,290 ORFs, respectively. As in other vibrios, chromosome I (C-I) predominantly contains genes necessary for growth and viability, whereas chromosome II (C-II) bears genes for adaptation to environmental change. C-I harbors many virulence genes, including some not previously reported in V. mimicus, such as mannose-sensitive hemagglutinin (MSHA), and enterotoxigenic hemolysin (HlyA); C-II encodes a variant of Vibrio pathogenicity island 2 (VPI-2), and Vibrio seventh pandemic island II (VSP-II) cluster of genes. Extensive genomic rearrangement in C-II indicates it is a hot spot for evolution and genesis of speciation for the genus Vibrio. The number of virulence regions discovered in this study (VSP-II, MSHA, HlyA, type IV pilin, PilE, and integron integrase, IntI4) with no notable difference in potential virulence genes between clinical and environmental strains suggests these genes also may play a role in the environment and that pathogenic strains may arise in the environment. Significant genome synteny with prototypic pre-seventh pandemic strains of V. cholerae was observed, and the results of phylogenetic analysis support the hypothesis that, in the course of evolution, V. mimicus and V. cholerae diverged from a common ancestor with a prototypic sixth pandemic genomic backbone.A Gram-negative gamma Proteobacterium, Vibrio mimicus is closely related to Vibrio cholerae. It was first described as a biochemically atypical Vibrio cholerae (1). However, it is phenotypically and genotypically distinct from V. cholerae and can be differentiated from V. cholerae by 12 specific biochemical reactions, including sucrose fermentation, Voges-Proskauer reaction (acetoin production from glucose), lipase production, sodium tartrate fermentation, and polymyxin sensitivity. showed mean pairwise divergence from V. cholerae to be ≈10%, equivalent to the divergence of Salmonella enterica LT2 from Escherichia coli K-12 (2, 3).The natural habitat of V. mimicus is similar to that of V. cholerae, i.e., the aquatic ecosystem, including seawater, freshwater, and brackish water, where it has been found both as a free-living bacterium and in association with zooplankton, crustaceans, filter-feeding mollusks, turtle eggs, and fish. Infections in humans occur from consumption or exposure to these sources (4-9). V. mimicus human gastroenteritis is characterized by diarrhea, nausea, vomiting, abdominal cramps, and fever. However, unlike V. cholerae, V. mimicus has not been associated with epidemics of cholera-like diarrhea, probably because most isolates of V. mimicus do not produce cholera toxin (CT). In fact, Chowdhury et al. (5) reported that fewer than 10% of clinical isolates and fewer than 1% of environmental st...