Bacterial vaginosis (BV) is the most common cause of genital complaints in women of reproductive age group [1]. It is a clinical syndrome marked by displacement of beneficial Lactobacillus spp. by diverse polymicrobial flora including facultative and strict anaerobes [2,3]. BV is associated with significant reproductive morbidity and increased susceptibility to sexually transmitted infections (STIs) [4,5]. The prevalence of BV ranges from 20% to 60% depending upon the region [6], [7], [8].

BV is diagnosed using clinical criteria (Amsel's) or microbiologic criteria (Nugent scoring), the latter being the Gold standard [9,10]. One of the limitations of Nugent scoring is that a large number are categorized as intermediate microbiota and are subject of clinical debate on how to handle them [11,12].

In the present study, we have diagnosed BV by Nugent scoring and Real-time PCR assays for Lactobacillus spp., G. vaginalis and A. vaginae. We used threshold quantification to optimise the tests by using ROC curve analysis to determine cut-off as compared to Nugent scoring. We conducted an in depth analysis of the samples that were categorized as Intermediate to enable management of these patients.