This study compared two assays for Trichomonas vaginalis detection, Gen-Probe's transcription-mediated amplification (TMA) assay for Trichomonas vaginalis and BTUB FRET PCR, using self-obtained clinical samples from 611 patients. Infection status was defined as two positive results by two different tests. The initial TMA assay sensitivity was 96.7%; specificity was 97.5%. The TMA assay was comparable to BTUB FRET PCR.Trichomonas vaginalis is the cause of the most common parasitic sexually transmitted infection in the world and is estimated to 3 million infections in the United States annually (1, 21). T. vaginalis can cause vaginitis, cervicitis, preterm labor, urethritis, and prostatitis (3,32,33). T. vaginalis is cytopathic to vaginal cells and is associated with other sexually transmitted diseases (STDs), including transmission of human immunodeficiency virus (2,7,26,29).Conventional methods for diagnosing T. vaginalis are microscopic examination of wet-mount preparations and culturebased systems. Both methods rely on the collection of viable organisms and suffer from poor sensitivity (25). More sensitive research-based PCRs for the diagnosis of T. vaginalis have been described (9, 11-16, 22, 24).The development of a commercially available amplification assay for T. vaginalis using self-collected samples would be highly desirable from patient, clinical, and public-health perspectives (6). Other commercially available FDA-cleared STD tests, such as those for chlamydia and gonorrhea, could also be performed on the self-obtained samples (4,5,27,28).We report a comparison of a research transcription-mediated amplification (TMA) assay for T. vaginalis, now available as an analyte-specific reagent (Gen-Probe Inc., San Diego, CA), with BTUB FRET PCR (BTUB), a real-time research PCR (9).(Results from this analysis were presented in part at the International Society for Sexually Transmitted Diseases Research, Amsterdam, The Netherlands, 10 to 13 July 2005.)We screened 615 people attending two STD clinics; 611 had male urine samples (n ϭ 290) or duplicate female self-obtained vaginal swabs (SOVS) (n ϭ 321) collected. Institutional Review Board approval was obtained, and the study was funded in part by Gen-Probe. BTUB PCR. For females, two SOVS for BTUB and TMA testing were collected in random order. SOVS for BTUB testing were transported in a dry state and were rehydrated in 1 ml of Tris-EDTA buffer, 200 l of which was used for DNA robotic extraction. Similarly, 200 l of male urine was subjected to this automated DNA extraction (MagNA Pure LC instrument; Roche Diagnostics, Indianapolis, IN). The BTUB PCR assay design was based on fluorescent resonance energy transfer (FRET) probe chemistry (Roche Diagnostics). The use of positive and negative controls, the thermocycling protocol, data analysis, and specific sequences of primers and probes using the Roche LightCycler Instrument were previously published (9).TMA for T. vaginalis. The SOVS were placed in specimen transport medium (Gen-Probe), and male urine was pipetted i...