dPCR coupled with electrospray ionization mass spectrometry applied to synovial fluid specimens had an 81% sensitivity and a 95% specificity for the diagnosis of prosthetic joint infection.T he number of cases of prosthetic joint infection (PJI) is increasing. Microbiologic diagnosis of PJI has traditionally been made by culture of synovial fluid, periprosthetic tissue, and/or the implant itself. However, cultures are not universally positive (1-6); this has spawned an interest in using molecular strategies to diagnose PJI (7-13). We have recently shown that a technique that couples PCR with electrospray ionization mass spectrometry (PCR-ESI/MS), used previously in a variety of settings (14-18), can be applied to materials dislodged from explanted orthopedic implants (sonicate fluid) to diagnose PJI with increased sensitivity compared with culture (19). Jacovides et al. used an older version of this technology than we used and detected organisms in synovial fluid in 88% of presumed noninfectious arthroplasty failures (20). Although we also found a lower specificity of PCR-ESI/MS (94%) than culture (99%) when applied to sonicate fluid (21), we did not find nearly the proportion of positive specimens in presumed noninfectious failure reported by Jacovides et al. (20). Herein, we evaluated synovial fluid specimens collected in containers treated to minimize background DNA using the same version of the PCR-ESI/MS assay we used to study sonicate fluid (21).(This study was presented in part at the 113th General Meeting of the American Society for Microbiology, 18 to 21 May 2013, Denver, CO.)The PCR-ESI/MS BAC protocol (Ibis Biosciences, Carlsbad, CA) was used to test synovial fluid collected by sterile arthrocentesis from subjects with knee arthroplasty failure at the Mayo Clinic, Rochester, MN. The research application PCR-ESI/MS BAC assay studied detects more than 3,400 species of bacteria, 40 species of Candida, and four antibiotic resistance markers, bla KPC , vanA, vanB, and mecA. Syringes, Vacutainer collection tubes, and freezer storage vials used for collection and storage of specimens were pretreated to minimize contaminating DNA by irradiation in a self-contained 137 Cs gamma irradiator with a total dose of 1 Gy (22). Specimens were collected between 2001 and 2012 and stored at Ϫ70°C until PCR-ESI/MS testing in 2012. At the time of specimen collection, cultures had been performed using previously described methods (23). Subjects were classified as having PJI or aseptic failure (AF) using the 2011 Musculoskeletal Infection Society (MSIS) criteria, a combined clinical/laboratory classification system (24). Accordingly, a subject was considered to have PJI under the following conditions: if a sinus tract communicating with the prosthesis was found; if the same organism was isolated from two non-synovial fluid samples (i.e., periprosthetic tissue, sonicate fluid) obtained from the affected joint at the time of revision surgery; or if four of the following six minor criteria were present: elevated erythrocyte sed...