The aim of this study is to compare the presence of Trichomonas vaginalis (T. vaginalis) in symptomatic and asymptomatic women through microscopic examination, culture in Trypticase-Yeast Maltose (TYM) medium and PCR methods. In addition, T. vaginalis strains were analysed for genotyping with 18S rRNA-DNA and phylogenetic analysis. Axenized strains of T. vaginalis isolated from urine culture samples taken from symptomatic and asymptomatic women with clinical signs. Molecular characterization of the isolated strains of T. vaginalis was performed by using PCR. To evaluate molecular diagnosis and genotypic identification of T. vaginalis strains, 14 samples were analysed. Of the 14 samples, T. vaginalis was positive in 14 samples by microscopy, 6 in culture(TYM medium) and 14 by PCR, respectively. Although the sample size is very small, PCR was shown to be high sensitivity and specificity, and seems to be a promising diagnostic tool. 18S rRNA-DNA PCR results also confirmed with real time PCR method. In conclusion, it is considered that two strains of T. vaginalis isolated from samples, 5-TV1G and 13-TV1G, are subtypes of T. vaginalis as a result of 18S rRNA-DNA sequencing analysis. To best of our knowledge this is the first analysis of phylogenetic positions on T. vaginalis from Turkey.