A multiplex PCR-ligation detection reaction (PCR-LDR) assay was developed for rapid detection of methicillin, tetracycline, and vancomycin resistance, as well as toxic shock toxin and Panton-Valentine leukocidin. The assay was tested on 470 positive blood culture bottles containing Staphylococcus aureus or enterococci. PCR-LDR exhibited a sensitivity and specificity of >98% for all components except tetracycline resistance, which had a sensitivity of 94.7%. Rapid and sensitive detection of antimicrobial resistance and virulence genes could help guide therapy and appropriate infection control measures.Previous studies have demonstrated the ability of multiplex PCR-ligation detection reaction (PCR-LDR) assays to detect and identify a variety of clinically significant bacteria and flaviviruses (4,12,14). We have now developed a multiplex PCR-LDR assay to directly determine antibiotic resistance profiles, as well as the toxic shock syndrome (Tsst-1) and Panton-Valentine leukocidin (PVL) toxins, of Staphylococcus aureus, Enterococcus faecalis, and Enterococcus faecium present in positive blood culture bottles. Rapid identification of antimicrobial resistance and virulence determinants could have a significant impact on reducing morbidity, mortality, and health care costs. Methicillin and vancomycin resistance genes were included in the assay because of the clinical importance of vancomycinresistant enterococci (VRE), methicillin-resistant S. aureus (MRSA), and most recently vancomycin-resistant S. aureus (VRSA) infections (5,15,18). Tetracycline resistance genes were included because of renewed interest in this group of antibiotics due to their activity against several biothreat agents and the increase in community-acquired MRSA (7,8,21,22).Positive blood cultures containing S. aureus, E. faecalis, and/or E. faecium were obtained from patients at Weill Cornell Medical Center, New York Presbyterian Hospital (WCMC-NYPH). Blood cultures were collected and incubated in a BacT/Alert system (bioMérieux, Durham, NC) in accordance with the manufacturer's instructions. When a blood culture was read as positive by the BacT/Alert, 100-l aliquots of the blood culture were transferred in quadruplicate to a 96-deepwell plate for subsequent extraction of DNA; negative controls containing only Tris-EDTA buffer were incorporated into each 96-well plate, and the plates were stored at Ϫ70°C. An additional 400 l of the positive blood culture was stored for retesting of any discordant results. Bacteria were identified using standard methods. Additional clinical isolates of S. aureus, E. faecalis, and E. faecium were collected from wound, urine, respiratory, or autopsy samples. These isolates were spiked into negative clinical blood culture bottles as described previously (12). The use of human clinical samples in this research has complied with all relevant federal guidelines and WCMC-NYPH institutional policies.Bacterial isolates previously shown by sequencing to contain the mecA, vanA, vanB, tetK, tetL, tetM, or lukS-lukF (PVL) gene(...