Diffusely adhering Escherichia coli strains harboring Afa/Dr adhesins (Afa/Dr DAEC) have been associated with diarrhea and urinary tract infections (UTIs). The present work is the first extensive molecular study of a Afa/Dr DAEC strain using the representational difference analysis technique. We have searched for DNA sequences present in strain C1845, recovered from a diarrheagenic child, but absent from a nonpathogenic K-12 strain. Strain C1845 harbors part of a pathogenicity island (PAI CFT073 ) and several iron transport systems found in other E. coli pathovars. We did not find genes encoding factors known to subvert host cell proteins, such as type III secretion system or effector proteins. Several C1845-specific sequences are homologous to putative virulence genes or show no homology with known sequences, and we have analyzed their distribution among Afa/Dr and non-Afa/Dr clinical isolates and among strains from the E. coli Reference Collection. Three C1845-specific sequences (MO30, S109, and S111) have a high prevalence (77 to 80%) among Afa/Dr strains and a low prevalence (12 to 23%) among non-Afa/Dr strains. In addition, our results indicate that strain IH11128, an Afa/Dr DAEC strain recovered from a patient with a UTI, is genetically closely related to strain C1845.Diffusely adhering Escherichia coli (DAEC) strains, which are characterized by their diffuse adherence pattern on cultured epithelial HeLa cells (56), have been recognized as the sixth class of diarrheagenic E. coli and appear as a heterogeneous group (12,41). A subclass of DAEC strains harbors adhesins of the Afa/Dr family (including Afa-I, Afa-III, Dr, Dr-II, and F1845), which recognize the decay-accelerating factor (DAF, or CD55) as a common receptor (43). Afa/Dr DAEC strains are identified in epidemiological studies by hybridization to a specific probe, daaC, which is common to operons encoding Afa/Dr adhesins (5). In addition, a PCR assay to detect Afa/Dr strains has been described recently (35). Afa/Dr DAEC strains have been associated with diarrhea in children (20,22,24,28). However, some studies have reported that Afa/Dr DAEC strains are found equally in children with and without diarrhea (1,17). Discrepancies between epidemiological studies could be explained in part by age-dependent susceptibility (37). Unlike other diarrheagenic pathovars of E. coli, Afa/Dr DAEC strains are also important in urinary tract infections (UTI) (43).The alterations induced by wild-type Afa/Dr DAEC strains on polarized host epithelial cells have been studied extensively, but these strains remain poorly characterized at the molecular level. Infection of polarized cultured human intestinal cells by Afa/Dr DAEC strain C1845, isolated from a patient with diarrhea, or IH11128, recovered from a patient with UTI, is followed by elongation of brush border microvilli resulting from rearrangement of cytoskeleton proteins (4, 47), alteration of tight-junction-associated proteins (46), and impairment of several brush border-associated enzymatic activities (45, 47). T...