For the first time in a regional medical practice for the diagnosis of lactobacilli used polymerase chain reaction (PCR). Diversity of results obtained by 5 species of lactobacilli isolated from vaginal biotopes women living in the city of Irkutsk. Shown the prevalence of two types – L. plantarum and L. crispatus, present in more than 50 % of the samples of the study populations. Identified three groups of cenotypical study sample: deficiency, transient and normocenozes. Determined by a combination of association species study in a community sample and in the degree of compatibility of the species are distinguished L. iners + L. plantarum.