The following three diagnostic algorithms were evaluated in comparison with the Illumigene assay as a stand-alone test for Clostridium difficile detection: glutamate dehydrogenase antigen screen (GDH) followed by toxin A/B antigen testing (Tox A/B) with the cell cytotoxicity assay for discordant specimens (algorithm 1), GDH followed by the Illumigene (algorithm 2), and GDH followed by Tox A/B with the Illumigene for discordant specimens (algorithm 3). A total of 428 stool specimens submitted to three clinical microbiology laboratories in Manitoba, Canada, for C. difficile detection between June 2011 and April 2012 were included in the study. The prevalence of C. difficile in the stool specimens was 14.7% (63/428) based on toxigenic culture (microbiologic reference standard). The sensitivity and specificity of the Illumigene for C. difficile detection were 73.0% and 99.7%, respectively. The corresponding sensitivities and specificities were 65.1% and 100.0% for algorithm 1, 68.3% and 100.0% for algorithm 2, and 69.8% and 100.0% for algorithm 3. Using algorithm 1, a cell cytotoxicity assay was required for toxin detection in 37% of positive tests, prolonging turnaround time. However, the predictive value of a positive test based on a clinical reference standard (all tests positive or cytotoxigenic culture positive and clinical disease on chart review) was slightly higher with algorithm 1 than with the Illumigene assay as a stand-alone test or as part of an algorithm (algorithms 2 and 3). Based on a reduction in turnaround time, simplicity, and acceptable sensitivity and specificity, we recommend algorithm 2 (screening with the GDH antigen test and confirmatory testing with the Illumigene). C lostridium difficile is an anaerobic, spore-forming Gram-positive bacillus that is capable of causing diarrhea mediated by the production of C. difficile toxins A and B (1-3). It is estimated that C. difficile infection (CDI) is responsible for 15 to 25% of cases of antibiotic-associated diarrhea (1). Severe CDI may result in the need for intensive care unit admission or even colectomy (4). Further, CDI is associated with an attributable mortality rate of approximately 5.7% (4). Related to both the frequency and severity of disease caused by C. difficile, it is imperative that diagnostic testing be sensitive, specific, and rapid, such that appropriate therapy may be instituted in a timely fashion (5).For diagnosis of CDI, many clinical microbiology laboratories currently use enzyme immunoassays (EIAs) that detect C. difficile toxins (1). These assays have the advantage of a rapid turnaround time. However, they demonstrate suboptimal sensitivity (5, 6). Algorithms relying on detection of the C. difficile glutamate dehydrogenase antigen (GDH) with follow-up toxin testing for positive specimens with a cell cytotoxicity assay demonstrate improved sensitivity (5, 7). However, the turnaround time may be increased by up to 48 h with this approach (5, 7). Additionally, recent data suggest that the cell cytotoxicity assay for toxin det...