Treatment of biofilms in bacterial vaginosis by an amphoteric tenside pessary-clinical study and microbiota analysis
© The Author(s). 2017
Received: 6 March 2017
Accepted: 18 July 2017
Published: 13 September 2017
Bacterial vaginosis (BV) is the most common vaginal syndrome among women in their reproductive years. It is associated with an increased risk of acquiring sexually transmitted infections and complications like preterm labor. BV is characterized by a high recurrence rate for which biofilms frequently found on vaginal epithelial cells may be a reason.
Here, we report a controlled randomized clinical trial that tested the safety and effectiveness of a newly developed pessary containing an amphoteric tenside (WO3191) to disrupt biofilms after metronidazole treatment of BV. Pessaries containing lactic acid were provided to the control group, and microbial community composition was determined via Illumina sequencing of the V1-V2 region of the 16S rRNA gene. The most common community state type (CST) in healthy women was characterized by Lactobacillus crispatus. In BV, diversity was high with communities dominated by either Lactobacillus iners, Prevotella bivia, Sneathia amnii, or Prevotella amnii. Women with BV and proven biofilms had an increased abundance of Sneathia sanguinegens and a decreased abundance of Gardnerella vaginalis. Following metronidazole treatment, clinical symptoms cleared, Nugent score shifted to Lactobacillus dominance, biofilms disappeared, and diversity (Shannon index) was reduced in most women. Most of the patients responding to therapy exhibited a L. iners CST. Treatment with WO 3191 reduced biofilms but did not prevent recurrence. Women with high diversity after antibiotic treatment were more likely to develop recurrence.
Stabilizing the low diversity healthy flora by promoting growth of health-associated Lactobacillus sp. such as L. crispatus may be beneficial for long-term female health.
KeywordsBacterial vaginosis Biofilms Amphoteric tenside Vaginal microbiome Vaginal microbiota
The Lactobacillus-dominated vaginal microbiota is protective against sexually transmitted infections . Unlike most other body sites, it is characterized by a low diversity and uniform colonization by one of several species of Lactobacillus sp.. Five to eight community state types (CSTs) have been identified [2, 3]. The two most common ones are dominated by L. crispatus and L. iners, but CSTs dominated by L. gasseri and L. jensenii, and those dominated by Gardnerella vaginalis and other anaerobic bacteria have also been identified . Together with a low pH (< 4.5) and a low Nugent score (0 to 3), these CSTs are characteristics of a healthy vagina, which is clinically characterized by white, normally smelling secretions . Variation of the microbial community can be high within individuals and vary throughout the menstrual cycle, but the CST is usually stable in the long term .
Bacterial vaginosis (BV) is the most common vaginal syndrome in women of childbearing age, with a prevalence of 30% in Caucasian women  which are the majority of study participants analyzed here. This prevalence is based on the presence of abnormal microbial flora and can be asymptomatic . BV is associated with a higher risk of acquiring sexually transmitted infections such as HIV, as well as miscarriage and preterm birth . Furthermore, BV has a 60% rate of recurrence in the 12 months after treatment with the standard of care antibiotic metronidazole .
In BV, the community shifts to a highly diverse flora, concurrent with an increase in pH and a rise of Nugent score to > 6. The clinical expression of BV is gray-white, discharge with fishy odor due to elevated pH values. Taxa such as Gardnerella, Atopobium, Prevotella, Bacteroides, Peptostreptococcus, Mobiluncus, Sneathia, Leptotrichia, Mycoplasma, and BV-associated bacterium 1 (BVAB1) to BVAB3 of the order Clostridiales become abundant. Three CSTs dominated by G. vaginalis, Lachnospiraceae, and Sneathia sanguinegens, respectively, have been identified in BV . Another characteristic of BV is the presence of a thick multispecies biofilm on vaginal epithelial cells . Such cells are named “clue cells” because they serve as one out of the four diagnostic “Amsel” criteria . Biofilms consist of adherent bacteria and the extracellular polymeric matrix they produce. This matrix inhibits biofilm elimination by the immune system and may prevent full destruction of the biofilm in bacterial vaginosis by antibiotics . It has been shown that the biofilm is comprised mainly of G. vaginalis and Atopobium vaginae and persists on epithelial cells after treatment with antibiotics [9, 12]. The pathogenicity of G. vaginalis biofilms is demonstrated by their ability to adhere to epithelial cells even in the presence of L. crispatus and that they benefit from the addition of BV-related secondary colonizers [13, 14]. Furthermore, G. vaginalis biofilms tolerate higher amounts of hydrogen peroxide and lactic acid compared to planktonic cultures .
The high rate of BV recurrence may thus be explained by the presence of a biofilm protecting the bacteria from antibiotic treatment, moreover, serving as a reservoir for regrowth of pathogens . Antibiotics (metronidazole or clindamycin) are the treatment of choice against BV and have high initial cure rates in clinical trials [16, 17]. Alternative strategies, including antiseptics, disinfectants, and vaccines, have been tested, but evidence regarding their effectiveness is mixed [11, 18]. Vaginal oral probiotics with or without prebiotics or concomitant antibiotics, and acidifying agents have also been explored as adjuvants after therapy [16, 19–21]. Thus, up to 50% decrease of recurrences seems to be possible, but novel approaches to prevent recurrence are urgently needed .
To attack biofilms of G. vaginalis and thus potentially prevent recurrence, we have screened a variety of compounds and found that amphoteric tensides such as cocoamphopropionate, administered alone or in combination with metronidazole, were very effective in disrupting G. vaginalis biofilms in vitro . Here, we report a randomized double-blind controlled clinical trial which investigated the tolerability of cocoamphopropionate administered as a pessary after initial metronidazole treatment of BV. Moreover, we compared the effectiveness of cocoamphopropionate versus commercially available lactic acid pessaries against BV recurrence. The vaginal microbiota, clinical parameters, and biofilm characteristics were analyzed for a period of 3 months. A cohort of 20 women recruited independently of the clinical study served as control for the healthy vaginal flora. We compared the microbiota composition in woman with and without biofilms and identified biomarkers for the presence of biofilms in BV. The influence of metronidazole and pessaries on microbial communities was investigated. The time series of five consecutive visits allowed us to analyze in detail which clinical parameters and microbiota characteristics might affect recurrence.
We performed a prospective parallel-design, double-blind, randomized, controlled investigation. The vaginal pessary WO 3191 (certified medical device) was compared to lactic acid pessaries (certified medical device, Dr. August Wolff GmbH & Co. KG Arzneimittel, Germany) with respect to safety, tolerability, and efficacy following treatment of BV with metronidazole. Vaginal fluid and urine samples were obtained from all subjects in the clinical trial and from a cohort of healthy women that served as a control for the healthy vaginal microbiota. WO 3191 pessaries contained the amphoteric tenside cocoamphopropionate and, like lactic acid pessaries (LAP), contained lactic acid and sodium lactate. As both products looked similar, they could be assigned randomly in a blinded manner. The study protocol was approved by the local ethics committee (Bayerische Landesärtzekammer, München), and written consent was obtained from all participants. This study was conducted in accordance with the Declaration of Helsinki on Ethical Principles for Medical Research Involving Human Subjects. Principles and guidelines for good clinical practice were followed. The study was registered on ClinicalTrials.gov with the identifier NCT02687789 and in the Eudramed database with the identifier CIV-13-12-011731. The study protocol was approved by the local ethics committee of the Medical Association of North Rhine, Duesseldorf, Germany (Application number 00008571).
The study design and number of patients analyzed in each visit is shown in Additional file 1: Figure S1 as a Cochrane diagram. Study participants received 2 g of metronidazole (single dose) orally (visit 1). At visit 2 after 7 to 28 days, they were randomly assigned to receive either WO 3191 or LAP. Each pessary was applied intravaginally by the study participants for 3 weeks, twice per week. An intermediate examination took place after 1 week (visit 3) and the final examination after another 2 weeks (visit 4). A follow-up examination (visit 5) was scheduled 12–14 weeks after visit 4. Of the 44 included women, 34 completed the trial. The first database lock was performed after the last patient had completed visit 4, meaning that data entries and data management had to be performed before the database lock and unblinding of the data. One woman received metronidazole at visit 2 and was therefore excluded from the analysis. At each visit, vaginal fluid and urine were collected for the analysis of extracellular polymeric substances (EPS), biofilms, and microbiota composition and clinical symptoms were determined. Vaginal fluid of 20 healthy women was sampled independent of this clinical study as part of their gynecological routine examination and served as control group. These women provided informed consent and were not tested for biofilms, EPS in urine, or Nugent score.
Assessment of biofilm in urine and vaginal samples
The method for EPS detection in urine [24, 25] was modified for quantitative measurements of EPS with an enzyme-linked lectin assay using peroxidase-coupled lectins. Briefly, urine was diluted 1:20 to 1:40 in PBS and 100-μl diluted urine was incubated in a 96-well polystyrene microtiter plate over night at 4 °C for attachment of dissolved EPS. Urine was discarded and the plates washed twice with 200 μl PBS. Horseradish peroxidase (HRP)-coupled lectin (wheat germ agglutinin (WGA)) bound to the EPS for 90 min. Residual HRP-WGA was removed by washing eight times with 200 μl PBS. As HRP substrate, 100 μl colorless 3,3′,5,5′-tetramethylbenzidine (50% (v/v) in PBS) was used, which was converted into a blue dye. This reaction was stopped after 10 min by addition of 0.5 M H2SO4 which resulted in a change of color to yellow. Optical density (OD) was measured at 450 nm and EPS considered positive when OD450nm > 0.25.
For detection of biofilms, vaginal fluid was stained with 0.2% crystal violet in 100% ethanol and inspected under the light microscope (Olympus BX60, Germany). If more than 10 out of 50 vaginal epithelial cells (20%) were covered by a layer of bacteria, these patients were regarded biofilm positive. This cut-off was chosen based on the Amsel criteria .
Summary of study endpoints
Local tolerability of medical devices (defined as a cumulative sum score of solicited local ADEs between visit 2 and visit 4)
Secondary tolerability endpoints:
solicited and unsolicited adverse events and ADEs
global assessment of tolerability
leucocytes in vaginal smear
Secondary efficacy endpoints:
assessment of biofilm/EPS
percentage of patients with clue cells
changes in vaginal pH values
changes in Nugent score
changes in vaginal flora
global judgment of patient and investigator recurrence of BV during the 12-week follow-up phase
Excluded women (n = 72)
Included women (n = 44)
No biofilm and/ or
No EPS and/ or
Nugent score < 7 and/ or
other reason (e.g., smoking)
32.4 years (range 19–51 years)
83.7% Caucasian, 11.6% with African descent
Previous vulvovaginal diseases
39.5% (23.3% BV, 2.3% candidiasis, 16.3% unidentified vaginal infection or dybiosis)
Miscarriage or preterm birth
Systemic hormonal contraceptives
Sample collection and transport
Vaginal fluid was obtained by infusing 2 ml of saline solution into the vagina followed by rotation against the vaginal wall with a speculum and then collecting the vaginal fluid with a syringe. One third of the vaginal fluid (approximately 700 μl) was immediately transferred to a tube containing 2 ml RNAprotect (Qiagen, Germany), one third was transferred to an empty tube for microscopic analyses of the biofilm and one third was transferred to an empty tube for Nugent score assessment. All tubes were immediately frozen at −20 °C. They were transported at −20 °C within a week and finally stored at −70 °C. Midstream urine for EPS analyses was collected by the study subjects in standard tubes and then stored and shipped at 4 °C within 3 days.
DNA was extracted from vaginal fluid suspension using the peqGOLD Tissue DNA Kit (Peqlab, Germany) with pretreatment and modification: Vaginal fluid (250 μl) was centrifuged at 13,000 rpm for 5 min. Pellets were resuspended in 700 μl lysis buffer, 15 μl RNase, and 20 μl Proteinase K from the Tissue DNA Kit. Cell lysis was obtained by adding this suspension to 0.5 g of silica beads which were covered with 500-μl ice-cooled phenol. The bead-suspension mix was shaken at 5 m/s for 1 min in three intervals which were 2 min apart using the MO-BIO PowerLyzer™ (Mo Bio Laboratories, USA). After centrifugation for 1 min at 13,000 rpm, the upper phase containing the DNA was further processed according to the manufacturer’s instructions of the peqGOLD Tissue DNA Kit starting with DNA binding.
Preparation of 16S rRNA gene amplicon libraries, sequencing, and data processing
Amplicon library preparation for high-throughput sequencing on a MiSeq Illumina platform (280 bp paired end chemistry) was performed as previously described . Barcoded amplicons of the 16S rRNA gene V1-V2 regions were sequenced and a total of 12,495,036 raw reads obtained. Only the read pairs with overlap longer than 30 bp and sequence length longer than 300 bp after merging were taken into account. Then, the primers in sequences were trimmed using cutadapt . Subsequently, sequences with the number of expected errors above 1 were removed using VSEARCH . After quality filtering, primer trimming, and merging pairs, 6,757,844 reads were obtained.
As an example, the difference between the 97 and 99% similarity threshold was analyzed for Sneathia sp. and the full table is provided in Additional file 2: Table S1. We could show that the read number does not change for the most abundant operational taxonomic units (OTUs) which we focused our analysis on (Additional file 3: Figure S2B). Therefore, clustering was performed based on a 97% similarity threshold. Chimeras were removed by using the RDP database (RDP_trainset15_092015.fa) . All steps were performed with VSEARCH . Only those OTUs that were present in an abundance > 0.001% of the whole experiment were considered, resulting in 319 OTUs and a total of 6,438,017 reads. All OTUs were analyzed using stand-alone blastn against the vaginal 16S rDNA reference database (STIRRUPS) . For taxonomic assignment at the species level, 97% identity or higher was used. For OTUs that could not be assigned to a species, Bayesian classification using the Ribosomal Database Project Classifier with a confidence threshold of 80% was applied resulting in a taxonomic classification to the genus level or higher taxa . Seven OTUs were identified as contaminants and removed from the dataset since they were highly abundant only in samples from healthy women which were collected separately from the randomized controlled trial in a different clinic, are not members of the vaginal microbiota, and have been identified as contaminants before (Additional file 2: Table S1, Additional file 3: Figure S2A) . These OTUs are usually found in soil or water, and one contaminant (Streptococcus mutans) was acquired in the laboratory where work focuses on research on this species [33–39] and where also DNA was extracted for this study. For the phylogenetic tree, OTUs were aligned to sequences from the vaginal 16S rDNA reference database using MUSCLE. The tree was constructed with the neighbor joining method using MEGA6 . Additionally, clustering was performed on a 99% similarity threshold, and all following steps were performed as described above.
Statistical analysis of 16S rRNA gene sequences
Microbiota analyses were performed for all screened women and healthy controls. OTU data were rarefied to 979 reads, and all subsequent analyses were performed on this dataset. Resampling efficiency was determined based on the standard error (standard deviation/mean) after resampling 20 times. Rarefaction curves were obtained with the vegan package in the R environment [41, 42]. Shannon index (H′) was determined on the OTU level, and boxplots and cumulative dominance plots showing the ranked species abundance were created in PRIMER7 with the PERMANOVA+ add-on software (159 PRIMER-E, 1). Mean values and standard deviations were calculated and the Wilcoxon rank sum test used for statistical analyses.
For the principal coordinate analysis (PCO), a resemblance matrix was generated using the Bray-Curtis coefficient in PRIMER-E7. For the linear discriminant analysis (LDA) effect size (LEfSe) pipeline, alpha values of 0.05 for the factorial Kruskal-Wallis test and a logarithmic LDA score threshold of 2.0 were used .
Statistical analysis of the clinical data
Explorative statistical tests were performed using a two-sided alpha level of 5 and 10%, and the respective 90 and 95% CIs were calculated. The number of observations (N), mean standard deviation (SD), minimum, 1st quartile (Q1), median, 3rd quartile, and maximum were calculated separately for each arm for continuous (or semi-continuous) data. Additionally, categorical data were displayed separately for each treatment group using absolute frequencies and percentages (%) and time-to-event data were described by medians and quartiles calculated by Kaplan-Meier life-table methods . Correlations between diagnostic parameters, such as biofilm, EPS, and clue cells were calculated using the phi coefficient, and significance was determined using Fisher`s exact test.
Light and field emission scanning electron microscopy
For field emission scanning electron microscopy, samples were fixed with 2% glutaraldehyde and 5% formaldehyde in HEPES buffer (HEPES 0.1 M, 0.09 M sucrose, 10 mM CaCl2, 10 mM MgCl2, pH 6.9) and stored at 7 °C overnight. Cover slips with a diameter of 12 mm were coated by placing 50 μl of poly-l-lysine solution (Sigma, Germany) for 5 min on the cover slips, washed in distilled water and air-dried. Fifty microliters of the fixed samples were placed on a cover slip and allowed to settle for 10 min. Cover slips were then fixed in 1% glutaraldehyde in TE-buffer (20 mM TRIS, 2 mM EDTA, pH 7.0) for 10 min at room temperature and subsequently washed with TE-buffer before dehydrating in increasing concentrations of acetone (10, 30, 50, 70, 90, 100%) on ice for 10 min for each step. Samples were then subjected to critical-point drying with liquid CO2 (CPD 300 Leica, Germany). Dried samples were covered with a gold-palladium film by sputter coating (SCD 500 Bal-Tec, Liechtenstein) before examination in the Zeiss field emission scanning electron microscope Merlin using the Everhart Thornley SE detector and the inlens SE detector in a 50:50 ratio with an acceleration voltage of 5 kV. Light microscopic images were obtained with an Olympus BX60 microscope after staining of samples with 0.2% CV. Images were recorded with the Olympus DP73 digital camera.
A prospective, double-blind, randomized clinical study was performed to analyze the safety, tolerability, and effectiveness of two pessaries on clinical parameters, biofilm presence, microbiota composition, and recurrence after metronidazole therapy of BV.
One hundred sixteen premenopausal women, who suffered from discharge and fishy smell, were investigated by their gynecologists and included in the study if they were BV positive by three out of four Amsel criteria (gray-white discharge, malodor after application of 10% KOH - solution, pH > 4.5 or the presence of at least 20% clue cells). Additionally, they had to fulfill the following inclusion criteria: Nugent score > 6 (blinded performed by an independent investigator), positive for extracellular polymeric substances (EPS) in urine, and a biofilm on vaginal epithelial cells. These analyses were performed to allow the differentiation between biofilm with EPS and those with dissolved EPS.
Of 116 premenopausal patients with BV (diagnosed by Amsel criteria), 44 were randomized and included in the clinical study based on the established inclusion criteria. Seventy-two women were excluded due to EPS score, biofilm absence, low Nugent score, or other reasons despite clinical diagnosis of BV by the investigating gynecologists (Additional file 4: Figure S3A). The difference in EPS score, biofilm, and Nugent score between included and excluded patients was highly significant (p = 5.4 × 10−7, p = 0.0005, and p = 0.0007; Additional file 4: Figure S3A).
The mean age of the included patients was 32.4 years (SD ± 9.6) and ranged between 19 to 51 years. Most patients were Caucasian (83.7%) and 11.6% of patients were of African descent. With respect to previous vulvovaginal diseases, 39.5% had already experienced some kind of infection or infestation (23.3% BV, 2.3% candidiasis , and 16.3% unidentified vaginal infection or dysbiosis). Seven percent had experienced a miscarriage or preterm birth previously. The most commonly used concomitant medications were systemic hormonal contraceptives (48.8% of patients). At the second visit, 26 women were randomly assigned to receiving LAP and 18 women to receiving WO 3191. Of the 44 patients who were randomized to either of the two pessary treatments, 43 started and 38 finished treatment (patients reached visit 4) and 34 stayed in the study until follow-up.
The microscopy of clue cells, biofilm, and EPS
Additionally, a weak positive correlation between clue cells and the combined parameter of bacterial biofilm + EPS in urine (biofilm/EPS) was observed at visit 4 (phi = 0.46; p = 0.013).
Tolerability of pessaries
WO 3191 did not lead to irritation and was well tolerated, with 88.9% of patients judging the global tolerability to be good/very good on a 6-point rating scale (Additional file 4: Figure S3B). Investigators determined the global tolerability of WO 3191 to be good/very good in 83.4% of patients. The mean scores of global tolerability for WO 3191 and LAP were not significantly different when assessed by patients (p = 0.9539) or investigators (p = 0.4532). Local tolerability was assessed by the intensity of solicited adverse device events (Additional file 4: Figure S3C). The majority of BV patients was free from vaginal symptoms after treatment with metronidazole (visit 2, baseline for treatment with pessaries). During the 3-week double-blind treatment period (visits 3 and 4), no significant differences concerning local tolerability between treatment groups were observed. The mean sum scores for both subjective symptoms and objective findings were low in both treatment groups. No safety concerns were identified with WO 3191 or LAP. The most commonly reported adverse event was bacterial vaginosis with a comparable occurrence in both treatment groups.
Changes in biofilm EPS status, vaginal pH, and Nugent score
While initially all patients were biofilm/EPS positive due to the established inclusion criteria (N = 44), this fraction decreased continuously during the study. In the WO 3191 treatment group (N = 15), 40.0% of patients were biofilm/EPS positive at visit 2 (baseline), 26.7% at visit 3 and 6.7% at visit 4. In the LAP treatment group (N = 22), the percentage of patients being biofilm/EPS positive initially decreased from 27.3% at visit 2 to 18.2% at visit 3 and thereafter increased to 36.4% at visit 4.
Vaginal pH levels increased slightly in both treatment groups during the double-blind treatment phase. With respect to the Nugent score, more WO 3191 recipients were classified as “healthy” (Nugent score 0–3) at visit 4, compared with LAP recipients (86.7% of N = 15 vs 77.3% of N = 22), but this difference was not significant. To summarize, although we gained some significant result in favor for WO 3191 (regarding net number of patients profiting regarding their biofilm EPS status) the small number of patients did not allow to conclude that one pessary is clinically more effective than the other in the post treatment of BV (Additional file 5: Table S2).
For microbiota analyses of vaginal fluid, 60 samples of women with acute BV from the excluded group were analyzed as well as those samples of women with acute BV who completed the clinical study until visits 4 or 5. In total, 96 samples were analyzed and compared to samples from 20 healthy women. The number of samples used for microbial analysis per visit and treatment group is depicted in Additional file 1: Figure S1. These numbers were smaller than the numbers used for analysis of clinical outcomes as microbial samples were not available.
Taxonomic affiliation of reads
After abundance filtering and contamination removal, 312 OTUs and a total of 6,363,304 V1-V2 ribosomal DNA reads (mean per sample = 24,857 ± 23,782 reads) were obtained. A full OTU table is available in Additional file 2: Table S1. Forty-seven percent of the sequences could be assigned to the species level, 33% to the genus level, and 20% to the family level or higher taxa. To validate the species level taxonomic affiliation, the genus Lactobacillus was used as an example because of its importance in the vaginal microbiota.
Rarefaction and sequencing depth
The full-length 16S rRNA gene sequence of all species within this genus that were available in the STIRRUPS 16S rRNA vaginal database was used for constructing a phylogenetic tree. All OTUs that were assigned to this genus were added to the tree. The phylogenetic tree showed that OTUs identified as species are phylogenetically closest to the species they were assigned to (Additional file 6: Figure S5). In our dataset, we could observe a strong difference regarding the sequencing depth, where samples ranged from 979 to 213,795 reads. A rarefaction analysis showed that the diversity was still high within the samples. Some had almost reached saturation while for others, a higher sequencing depth would have been needed for saturation (Additional file 7: Figure S6A). To be able to compare all communities with each other, OTU abundance was rarefied to 979 reads in all subsequent analyses. A PCO showed that samples with < 5000 reads did not differ from the ones with higher sequencing depth in terms of community composition (Additional file 7: Figure S6B). Although they were few, we did not exclude these samples because we did not want to further minimize the study size. Resampling led to underrepresentation of α-diversity and limits the analysis to comparisons within this dataset. To evaluate whether resampling once would be sufficient for this analysis, we resampled five random samples with low, average, and high sequencing depth 20 times and calculated the standard error (Additional file 6: Figure S6C). We could show that resampling affects only low abundant OTUs below 1% of relative abundance. Because the error was low for low abundant OTUs and our study focuses on high abundant OTUs, resampling this dataset once was sufficient.
Microbial diversity of vaginal fluid samples
L. crispatus dominates healthy community state types (CSTs) whereas BV is characterized by high diversity and several CSTs
A principal coordinate analysis (PCO) showed that microbiota of vaginal fluid from healthy individuals were clearly different from those of BV patients. This was caused by L. crispatus in healthy women and a group of several OTUs in BV patients. All women with BV clustered together, regardless of their inclusion in the main study. However, some samples overlapped with healthy controls, with groupings driven by G. vaginalis, Prevotella bivia, and L. iners (Fig. 2c). Samples of women with BV that clustered closest to the healthy group were derived from women colonized by L. crispatus.
The overall vaginal microbiota composition of the healthy control group was dominated by three species of Lactobacillus, namely L. crispatus, L. iners, and L. gasseri, with a cumulative relative abundance of 61, 25, and 10% each (Fig. 2d). Accordingly, individual microbiota from healthy individuals clustered into three community state types that were each dominated by L. crispatus, L. iners, and L. gasseri, with a ratio of 2.5:1:1, respectively (Additional file 8: Figure S6). The most abundant species of excluded and included women with BV were L. iners, A. vaginae, and Sneathia amnii. Although these species were differently distributed among individual women of each group (Additional file 9: Figure S6A), their cumulative abundance was not significantly different (Wilcoxon rank sum test; Fig. 2d). Whereas L. iners was also abundant in healthy women, A. vaginae could rarely be found in them (rel. abundance = 0.8%). None of the healthy women were colonized with S. amnii. Differences between both groups could be observed for G. vaginalis which was less abundant and S. sanguinegens which was more abundant in included women (p < 0.01). Inter-individual differences were stronger in BV patient samples. Communities were dominated by either L. iners, P. bivia, S. amnii, or P. amnii in both groups. Vaginal fluids of two women were dominated by Lactobacillus sp., even in BV (Additional file 9: Figure S6).
Biomarkers for health and BV were identified using LEfSe (Additional file 8: Figure S7). Included and excluded patients were analyzed separately. The best markers for health were in both cases L. crispatus and L. gasseri. The best markers for BV were also similar in both groups. The highest LDA score was determined for A. vaginae and S. amnii. They were followed by G. vaginalis, an OTU of Veillonellaceae, P. timonensis, P.amnii and other Prevotella species and S. sanguinegens, which were located at different ranks in the excluded and included group but present in both.
S. sanguinegens is a biomarker for biofilms in BV
Metronidazole causes a shift in community state type
Recurrence emerged in 28% (N = 10 of N = 36 in total) of study participants included in the microbiota analyses at either visit 4 or visit 5 (Fig. 4, red arrows). It occurred in four out of the five patients that did not respond to metronidazole therapy (based on NS), but also occurred in those six women that had initially responded. Of those, two (out of three) biofilm positive women with a diverse microbiota showed recurrence and four women with low diversity microbial communities and lack of clinical symptoms also showed recurrence. The presence of a biofilm was no indicator for recurrence. Women with or without biofilm showed recurrence of BV. PCO before recurrence could not separate recurrence/no recurrence, and LEfSe biomarker analyses did not produce conclusive results (Additional file 10: Figure S8B,C). However, women who developed BV at visit 4 or later (N = 10) had a higher diversity at visit 3 (H = 0.69 ± 0.69) than those who remained healthy (N = 26, H = 1.62 ± 0.77), and this difference was significant (p = 0.004). Recurrence rates for the clinical population were slightly lower due to a different population set. Between visits 2 and 4, three and five women experienced recurrence in the WO 3191 (N = 15) and the LAP group (N = 22), respectively. During follow-up, two of 11 in the WO 3191 and four of 19 in the LAP group had a recurrence of BV. However, this difference of recurrence was not statistically significant.
Most of the 26 women mentioned above without BV recurrence showed a stable microbiota composition dominated by Lactobacillus sp., low pH, and NS, and remained biofilm negative throughout the follow-up visits. L. iners remained the most abundant species, although six women shifted from L. iners towards L. crispatus as main colonizer over time. Ten women became positive for biofilm at some point throughout the study without further consequences, and six women returned to a highly diverse symptomless community at visit 5. All of these observations were independent of the pessary treatment groups.
Post-antibiotic treatments did not influence microbial community composition
Upon treatment with LAP or WO 3191, only minor and nonsignificant microbiota shifts could be observed. At visit 2 (after antibiotic therapy and before application of pessaries), the cumulative abundance of Lactobacillus sp. (L. crispatus, L. iners, L. gasseri) was similar in both treatment groups (75% for Lactobacillus sp. (Vag) and 73% for Lactobacillus sp. (WO), Fig. 5b). After pessary treatment at visit 4, cumulative abundance of Lactobacillus sp. was higher in the WO 3191 treated group (77 vs. 69% in the LAP group, n.s.) which was due to a higher cumulative abundance of L. gasseri (9%, n.s.). At follow-up (visit 5), the cumulative abundance of Lactobacillus sp. had stayed stable in the LAP-treated group (73%) with a steady increase of L. crispatus (from 18% at visit 2 to 33% at visit 5 n.s.) whereas it had decreased in the WO 3191 group to 59% cumulative abundance (n.s.). The diversity was not significantly different between treatment groups at any time point. Individual microbial profiles of all women from visit 2 to visit 5 are shown in Additional file 9: Figure S6B.
The aim of our study was to gain clinical experience and further knowledge about the certified medical device vaginal suppository WO 3191 with respect to safety, tolerability, and efficacy in the post-treatment of bacterial vaginosis. We further determined whether WO 3191 would be superior to LAP for reducing biofilm-mediated recurrence of BV after metronidazole treatment. Eighty-six percent of all screened women with BV were biofilm positive in our study as was previously found in another study . Treatment with metronidazole resulted in reduction of this biofilm in 67% of women of which most stayed biofilm undetected until follow-up at visit 5. This is in contrast to a study by Swidsinski et al. (2008) which demonstrated that biofilms were indeed first apparently eliminated, but restored frequently after treatment with metronidazole . This discrepancy may have been caused by the threshold for the presence of biofilms which was used here. We considered only those samples biofilm positive in which a minimum of 20% of epithelial cells were covered by a layer of bacteria whereas Swidsinski et al. did not set a cutoff for their observations.
Recent in vitro data from our group showed that amphoteric tensides are able to disrupt biofilms and their surrounding EPS. Although in the present clinical study only a small number of patients was available we found that there was a significant difference between the two treatment groups regarding the impact on “biofilm EPS” Additional file 5: Table S2). However, clinical parameters did not reflect the difference of this parameter. However, none of the treatments prevented or noticeably postponed recurrence of BV. This is most likely due to BV being such a multifactorial disease . To prevent recurrence, therefore, a combination of several means should be used. For example, probiotics may be effective [11, 21]. It could be worthwhile to explore the combination of WO 3191 or LAP with Lactobacillus probiotics as strategy against BV recurrence. However, sexually transmitted BV through unprotected intercourse should also be considered in finding strategies for the prevention of recurrent BV .
In our study, we have compared the microbiota of healthy women to the microbiota of women with acute BV and found G. vaginalis as biomarker for BV. Interestingly, when the BV group was divided into those women with (14%) and without a biofilm (86%), G. vaginalis was identified as a biomarker for biofilm absence. Therefore, women with BV were colonized by G. vaginalis; however, women with biofilm presence had significantly less G. vaginalis. This is in contrast to studies who showed that G. vaginalis is an abundant component of biofilms in BV [9, 46]. However, these studies specifically targeted G. vaginalis with FISH probes, and although they have found other species, too, they did not detect Sneathia sp. and most of the relevant Prevotella sp. which, as our study suggests, may be even more common than G. vaginalis in BV-related biofilms. Furthermore, G. vaginalis has a strong strain variation and not all G. vaginalis isolates form biofilms to the same degree . In addition, the structure of G. vaginalis populations is diverse and presumably can consist of biofilm-formers, non-formers, or a mixture of the two . Nevertheless, a limitation to our study is the selection of the 16S rRNA gene V1-V2 region for sequencing which has been shown to underrepresent G. vaginalis [49, 50].
S. amnii was identified as most important biomarker for acute BV, and S. sanguinegens could be identified as biomarker for biofilm presence in acute BV. Little is currently known about the genus Sneathia. It was described as a new genus when Leptotrichia sanguinegens was renamed to S. sanguinegens after having been isolated from human blood and amniotic fluid in 2001 . In 2012, S. amnii was discovered in the vaginal tract as part of the Vaginal Human Microbiome Project . Its biochemical characteristics were assessed and several potential virulence factors that may be relevant in BV, such as the adherence to epithelial cells, were described. Later, several studies associated Sneathia sp. with BV using molecular techniques [5, 53–56]. S. sanguinegens was frequently identified in amniotic fluid and is associated with early-onset neonatal sepsis and preterm labor [57–59]. Like A. vaginae and other BV-related species, S. sanguinegens is also associated with pelvic inflammatory disease and infertility [58, 60]. Overall, our study suggests a high relevance of the genus Sneathia in BV.
Our microbiota analysis showed that the vaginal fluid microbiota of healthy women is characterized by a very low diversity and three different CSTs which are dominated by Lactobacillus sp.. The most common L. crispatus CST was followed by the L. iners and L. gasseri CSTs, in accordance with previous reports . By contrast, BV microbiota were characterized by high diversity with L. iners, Prevotella bivia, S. amnii, and P. amnii as the most abundant species. In accordance with these results, Dols et al. suggested to diagnose BV by a combination of the absence of Lactobacillus sp. and a high diversity . However, solutions for a molecular-based BV diagnosis are so far ambiguous. Two studies found that inclusion of Lactobacillus testing did not improve accuracy for BV diagnosis [54, 61], and other studies found only BV associated species to be indicative for the emergence of BV [54, 62].
After treatment with the antibiotic, patients exhibited low diversity Lactobacillus dominated vaginal microbiota; however, the L. iners CST was found in most women rather than the L. crispatus CST which dominated in the healthy control group. Since we could not analyze the healthy vaginal microbiota of those women that later developed BV, we cannot exclude that this CST dominated in our study cohort already before antibiotic treatment. However, it is more likely that treatment with metronidazole encouraged L. iners colonization more than other Lactobacillus species. It concurs with findings that L. iners and L. crispatus are negatively correlated in the vaginal microbiota . The ambiguous role of L. iners has been widely discussed and it is believed that L. crispatus is protective for BV whereas L. iners may not be [5, 63]. L. iners adapts its expression profile in dysbiosis. Therefore, it has less stress than L. crispatus when it comes to fighting the colonization of BV-associated anaerobic species which makes L. iners colonization a predisposing factor for BV . A study investigating women before and after acute BV may shed light into the question where the abundance of L. iners after metronidazole treatment originates.
The BV recurrence rate of 28% observed in our study group for microbiota analysis and about 20% regarding the clinical population is smaller than that found in another study, which was up to 60% over a period of 12 months . Women were treated with pH-adapted pessaries (pH 4.5) containing either an amphoteric tenside or lactic acid, after metronidazole therapy, which could be an influencing factor. A placebo or an untreated control group was not included in the study and therefore could not be used for direct comparison. Since our study covered a period of 4 months, we may also be in line with published recurrence rates that rely on longer periods of time. It is noteworthy to mention that our study only included women with true BV infection. This was assured by strict inclusion criteria to select for the presence of biofilms. In other studies, weaker inclusion criteria might have led to inclusion of patients with transient or mild BV forms, when comparing recurrence rates this fact also should be considered. Nevertheless, our follow-up period ended approximately 3 months after metronidazole treatment. Because our data show an increase in microbial diversity and a decrease in Lactobacillus sp. colonization until visit 5, the recurrence rate within the following months is likely to have increased. Recurrence of BV occurred in woman harboring the L. iners CST as well as in those with the L. crispatus CST. Moreover, recurrence rates were equally high in women treated with LAP or WO 3191 pessary, and no particular species could be associated with recurrence. However, more women with higher microbial diversity at visit 3 developed recurrence than women with lower diversity, suggesting that a diverse CST can predispose to recurrence of BV. However, due to the complex etiology of BV many other parameters might play a role, e.g., host characteristics, Lactobacillus phages, sexual activity, or smoking .
Stabilizing the low diversity of the healthy vaginal microbiota seems to be the most promising approach in order to prevent recurrence of BV. This could be achieved by a combination of various measures, including dissolving the biofilm, stabilizing the vaginal pH, applying compounds that promote growth of Lactobacillus sp., and providing live probiotics, e.g., strains of L. crispatus. For women that are colonized by an unstable but healthy vaginal community, this may prevent tipping the balance towards BV in response to external factors.
This study indicates that G. vaginalis was not the main pathogen in bacterial vaginosis biofilms. After having been cured by the antibiotic metronidazole, recurrence was more likely in women that maintained a diverse microbiota. The pessary was unable to prevent recurrence. Thus, we suggest stabilizing the low diversity healthy flora by promoting growth of health-associated Lactobacillus sp. such as L. crispatus.
We thank Dr. Helena Sztajer, Dr. Juergen Tomasch, Dr. Mareike Panz, Dr. Michael Soeberdt, Dr. Iris Schmidts-Winkler, and Dr. Rauni Kuczius for support and stimulating discussions.
CG was funded by the ZIM project grant KF3134201MD3 of the Bundesministerium für Wirtschaft und Energie (BMWi), Germany. ZD was funded by the COMBACTE grant. The clinical study was funded by Dr. August Wolff GmbH & Co. KG Arzneimittel within the ZIM project KF3134201MD3.
Availability of data and materials
The study was registered on ClinicalTrials.gov with the identifier NCT02687789. The datasets generated during the current study are available as Additional file 2: Table S1. Raw data is available via ENA accession PRJEB20159.
This study was designed by IWD, CA, and CM. CA and CM provided clinical samples. CA and CM performed the analysis of the clinical data. WM determined the Nugent score. MR performed field emission scanning electron microscopy. CG extracted DNA. CG and DP prepared 16S rRNA gene amplicons for sequencing. Bioinformatics analyses were done by MV and ZD. Statistical analyses of the microbiota data were performed by CG. Analysis, visualization and interpretation of data were done by CG. Most of the materials contained in this paper were previously published in the PhD thesis of CG. All authors read and approved the final manuscript.
Ethics approval and consent to participate
The study protocol was approved by the local ethics committee (Bayerische Landesärtzekammer, München) and written consent was obtained from all participants. This study was conducted in accordance with the Declaration of Helsinki on Ethical Principles for Medical Research Involving Human Subjects. Principles and guidelines for good clinical practice were followed.
The authors have read the journal’s policy. CA and CM have the following competing interests: They work for the company Dr. August Wolff GmbH & Co. KG Arzneimittel which designed and conducted the clinical study. However, they had no influence on data analysis and interpretation, or the decision to submit the work for publication. The other authors declare that they have no competing interests.
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- Doerflinger SY, Throop AL, Herbst-Kralovetz MM. Bacteria in the vaginal microbiome alter the innate immune response and barrier properties of the human vaginal epithelia in a species-specific manner. J Infect Dis. 2014;209:1989–99.View ArticlePubMedGoogle Scholar
- Gajer P, Brotman RM, Bai G, Sakamoto J, Schutte UM, Zhong X, et al. Temporal dynamics of the human vaginal microbiota. Sci Transl Med. 2012;4:132ra52.View ArticlePubMedPubMed CentralGoogle Scholar
- Ravel J, Gajer P, Abdo Z, Schneider GM, Koenig SS, McCulle SL, et al. Vaginal microbiome of reproductive-age women. Proc Natl Acad Sci U S A. 2011;108(Suppl 1):4680–7.View ArticlePubMedGoogle Scholar
- Onderdonk AB, Delaney ML, Fichorova RN. The human microbiome during bacterial Vaginosis. Clin Microbiol Rev. 2016;29:223–38.View ArticlePubMedPubMed CentralGoogle Scholar
- van de Wijgert JH, Borgdorff H, Verhelst R, Crucitti T, Francis S, Verstraelen H, et al. The vaginal microbiota: what have we learned after a decade of molecular characterization? PLoS One. 2014;9:e105998.View ArticlePubMedPubMed CentralGoogle Scholar
- Workowski KA, Bolan GA. Sexually transmitted diseases treatment guidelines, 2015. MMWR Recomm Rep. 2015;64:1–137.View ArticlePubMedGoogle Scholar
- Schwebke JR. Asymptomatic bacterial vaginosis: response to therapy. Am J Obstet Gynecol. 2000;183:1434–9.View ArticlePubMedGoogle Scholar
- Bradshaw CS, Morton AN, Hocking J, Garland SM, Morris MB, Moss LM, et al. High recurrence rates of bacterial vaginosis over the course of 12 months after oral metronidazole therapy and factors associated with recurrence. J Infect Dis. 2006;193:1478–86.View ArticlePubMedGoogle Scholar
- Swidsinski A, Mendling W, Loening-Baucke V, Swidsinski S, Dörffel Y, Scholze J, Lochs H, Verstraelen H.Am J Obstet Gynecol. 2008;198(1):97.e1-6. Epub 2007 Nov 19.PMID:18005928.Google Scholar
- Amsel R, Totten PA, Spiegel CA, Chen KC, Eschenbach D, Holmes KK. Nonspecific vaginitis. Diagnostic criteria and microbial and epidemiologic associations. Am J Med. 1983;74:14–22.View ArticlePubMedGoogle Scholar
- Machado D, Castro J, Palmeira-de-Oliveira A, Martinez-de-Oliveira J, Cerca N. Bacterial Vaginosis biofilms: challenges to current therapies and emerging solutions. Front Microbiol. 2015;6:1528.PubMedGoogle Scholar
- Machado A, Almeida C, Salgueiro D, Henriques A, Vaneechoutte M, Haesebrouck F, et al. Fluorescence in situ hybridization method using peptide nucleic acid probes for rapid detection of lactobacillus and Gardnerella spp. BMC Microbiol. 2013;13:82.View ArticlePubMedPubMed CentralGoogle Scholar
- Machado A, Salgueiro D, Harwich M, Jefferson KK, Cerca N. Quantitative analysis of initial adhesion of bacterial vaginosis-associated anaerobes to ME-180 cells. Anaerobe. 2013;23:1–4.View ArticlePubMedGoogle Scholar
- Machado A, Jefferson KK, Cerca N. Interactions between lactobacillus crispatus and bacterial vaginosis (BV)-associated bacterial species in initial attachment and biofilm formation. Int J Mol Sci. 2013;14:12004–12.View ArticlePubMedPubMed CentralGoogle Scholar
- Patterson JL, Girerd PH, Karjane NW, Jefferson KK. Effect of biofilm phenotype on resistance of Gardnerella vaginalis to hydrogen peroxide and lactic acid. Am J Obstet Gynecol. 2007;197:170–7.PubMedPubMed CentralGoogle Scholar
- Menard JP. Antibacterial treatment of bacterial vaginosis: current and emerging therapies. Int J Womens Health. 2011;3:295–305.View ArticlePubMedPubMed CentralGoogle Scholar
- Oduyebo OO, Anorlu RI, Ogunsola FT. The effects of antimicrobial therapy on bacterial vaginosis in non-pregnant women. Cochrane Database Syst Rev. 2009:CD006055.Google Scholar
- Siboulet A. Vaccination against nonspecific bacterial vaginosis. Double-blind study of Gynatren. Gynakol Rundsch. 1991;31:153–60.View ArticlePubMedGoogle Scholar
- Holley RL, Richter HE, Varner RE, Pair L, Schwebke JR. A randomized, double-blind clinical trial of vaginal acidification versus placebo for the treatment of symptomatic bacterial vaginosis. Sex Transm Dis. 2004;31:236–8.View ArticlePubMedGoogle Scholar
- Simoes JA, Bahamondes LG, Camargo RP, Alves VM, Zaneveld LJ, Waller DP, et al. A pilot clinical trial comparing an acid-buffering formulation (ACIDFORM gel) with metronidazole gel for the treatment of symptomatic bacterial vaginosis. Br J Clin Pharmacol. 2006;61:211–7.View ArticlePubMedGoogle Scholar
- Homayouni A, Bastani P, Ziyadi S, Mohammad-Alizadeh-Charandabi S, Ghalibaf M, Mortazavian AM, et al. Effects of probiotics on the recurrence of bacterial vaginosis: a review. J Low Genit Tract Dis. 2014;18:79–86.View ArticlePubMedGoogle Scholar
- Bradshaw CS, Brotman RM. Making inroads into improving treatment of bacterial vaginosis—striving for long-term cure. BMC Infect Dis. 2015;15:292.View ArticlePubMedPubMed CentralGoogle Scholar
- Gottschick C, Szafranski SP, Kunze B, Sztajer H, Masur C, Abels C, et al. Screening of compounds against Gardnerella vaginalis biofilms. PLoS One. 2016;11:e0154086.View ArticlePubMedPubMed CentralGoogle Scholar
- Decker EM, Dietrich I, Klein C, Von OC. Dynamic production of soluble extracellular polysaccharides by Streptococcus Mutans. Int J Dent. 2011;2011:435830.View ArticlePubMedPubMed CentralGoogle Scholar
- Leriche V, Sibille P, Carpentier B. Use of an enzyme-linked lectinsorbent assay to monitor the shift in polysaccharide composition in bacterial biofilms. Appl Environ Microbiol. 2000;66:1851–6.View ArticlePubMedPubMed CentralGoogle Scholar
- Camarinha-Silva A, Jauregui R, Chaves-Moreno D, Oxley AP, Schaumburg F, Becker K, et al. Comparing the anterior nare bacterial community of two discrete human populations using Illumina amplicon sequencing. Environ Microbiol. 2014;16:2939–52.View ArticlePubMedGoogle Scholar
- Martin M. Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet journal. 2011;17(1):10. Next Generation Sequencing Data Analysis View ArticleGoogle Scholar
- Rognes T, Flouri T, Nichols B, Quince C, Mahe F. VSEARCH: a versatile open source tool for metagenomics. PeerJ. 2016;4:e2584.View ArticlePubMedPubMed CentralGoogle Scholar
- Cole JR, Wang Q, Fish JA, Chai B, McGarrell DM, Sun Y, et al. Ribosomal database project: data and tools for high throughput rRNA analysis. Nucleic Acids Res. 2014;42:D633–42.View ArticlePubMedGoogle Scholar
- Fettweis JM, Serrano MG, Sheth NU, Mayer CM, Glascock AL, Brooks JP, et al. Species-level classification of the vaginal microbiome. BMC Genomics. 2012;13(Suppl 8):S17.PubMedPubMed CentralGoogle Scholar
- Wang Q, Garrity GM, Tiedje JM, Cole JR. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol. 2007;73:5261–7.View ArticlePubMedPubMed CentralGoogle Scholar
- Salter SJ, Cox MJ, Turek EM, Calus ST, Cookson WO, Moffatt MF, et al. Reagent and laboratory contamination can critically impact sequence-based microbiome analyses. BMC Biol. 2014;12:87.View ArticlePubMedPubMed CentralGoogle Scholar
- Jones RT. A comprehensive survey of soil Rhizobiales diversity using high-throughput DNA sequencing, In Biological Nitrogen Fixation. Hoboken: John Wiley & Sons, Inc; 2015. p. 769–76.Google Scholar
- Huang Y, Li H, Rensing C, Zhao K, Johnstone L, Wang G. Genome sequence of the facultative anaerobic arsenite-oxidizing and nitrate-reducing bacterium Acidovorax sp. strain NO1. J Bacteriol. 2012;194:1635–6.View ArticlePubMedPubMed CentralGoogle Scholar
- Sandle T. Characterizing the microbiota of a pharmaceutical water system-a metadata study. SOJ Microbiol Infect Dis. 2015;3:01–8. Ref Type: Magazine ArticleView ArticleGoogle Scholar
- Patel S, Fletcher B, Scott DC, Ely B. Genome sequence and phenotypic characterization of Caulobacter segnis. Curr Microbiol. 2015;70:355–63.View ArticlePubMedGoogle Scholar
- La SB, Mallet MN, Grimont PA, Raoult D. Bosea eneae sp. nov., Bosea massiliensis sp. nov. and Bosea vestrisii sp. nov., isolated from hospital water supplies, and emendation of the genus Bosea (das et al. 1996). Int J Syst Evol Microbiol. 2003;53:15–20.View ArticleGoogle Scholar
- Reck M, Rutz K, Kunze B, Tomasch J, Surapaneni SK, Schulz S, et al. The biofilm inhibitor carolacton disturbs membrane integrity and cell division of Streptococcus Mutans through the serine/threonine protein kinase PknB. J Bacteriol. 2011;193:5692–706.View ArticlePubMedPubMed CentralGoogle Scholar
- Song J, Cho JC. Methylibium aquaticum sp. nov., a betaproteobacterium isolated from a eutrophic freshwater pond. Int J Syst Evol Microbiol. 2007;57:2125–8.View ArticlePubMedGoogle Scholar
- Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol. 2013;30:2725–9.View ArticlePubMedPubMed CentralGoogle Scholar
- Dixon P. VEGAN, a package of R functions for community ecology. J Veg Sci. 2003;14:927–30.View ArticleGoogle Scholar
- R Development Core Team. R: a language and environment for statistical computing. 2008. Ref Type: Computer Program. Vienna, Austria. ISBN 3-900051-07-0. http://www.R-project.org.
- Segata N, Izard J, Waldron L, Gevers D, Miropolsky L, Garrett WS, et al. Metagenomic biomarker discovery and explanation. Genome Biol. 2011;12:R60.View ArticlePubMedPubMed CentralGoogle Scholar
- Kaplan EL, Meier P. Nonparametric estimation from incomplete observations.J Am Stat Assoc. 1958;53(282):457–81.Google Scholar
- Verstraelen H, Verhelst R, Vaneechoutte M, Temmerman M. The epidemiology of bacterial vaginosis in relation to sexual behaviour. BMC Infect Dis. 2010;10:81.View ArticlePubMedPubMed CentralGoogle Scholar
- Hardy L, Jespers V, Dahchour N, Mwambarangwe L, Musengamana V, Vaneechoutte M, et al. Unravelling the bacterial Vaginosis-associated biofilm: a multiplex Gardnerella vaginalis and Atopobium vaginae fluorescence in situ hybridization assay using peptide nucleic acid probes. PLoS One. 2015;10:e0136658.View ArticlePubMedPubMed CentralGoogle Scholar
- Harwich MD Jr, Alves JM, Buck GA, Strauss JF III, Patterson JL, Oki AT, et al. Drawing the line between commensal and pathogenic Gardnerella vaginalis through genome analysis and virulence studies. BMC Genomics. 2010;11:375.View ArticlePubMedPubMed CentralGoogle Scholar
- Hilbert DW, Schuyler JA, Adelson ME, Mordechai E, Sobel JD, Gygax SE. Gardnerella vaginalis population dynamics in bacterial vaginosis. Eur J Clin Microbiol Infect Dis. 2017;36:1269–78.View ArticlePubMedGoogle Scholar
- Zevin AS, Xie IY, Birse K, Arnold K, Romas L, Westmacott G, et al. Microbiome composition and function drives wound-healing impairment in the female genital tract. PLoS Pathog. 2016;12:e1005889.View ArticlePubMedPubMed CentralGoogle Scholar
- Schellenberg JJ, Paramel JT, Withana GN, Patterson MH, Vaneechoutte M, Hill JE. Gardnerella vaginalis subgroups defined by cpn60 sequencing and Sialidase activity in isolates from Canada, Belgium and Kenya. PLoS One. 2016;11:e0146510.View ArticlePubMedPubMed CentralGoogle Scholar
- Collins MD, Hoyles L, Tornqvist E, Von ER, Falsen E. Characterization of some strains from human clinical sources which resemble “Leptotrichia sanguinegens”: description of Sneathia sanguinegens sp. nov., gen. nov. Syst Appl Microbiol. 2001;24:358–61.View ArticlePubMedGoogle Scholar
- Harwich MD Jr, Serrano MG, Fettweis JM, Alves JM, Reimers MA, Buck GA, et al. Genomic sequence analysis and characterization of Sneathia amnii sp. nov. BMC Genomics. 2012;13(Suppl 8):S4.View ArticlePubMedPubMed CentralGoogle Scholar
- Fredricks DN, Fiedler TL, Thomas KK, Oakley BB, Marrazzo JM. Targeted PCR for detection of vaginal bacteria associated with bacterial vaginosis. J Clin Microbiol. 2007;45:3270–6.View ArticlePubMedPubMed CentralGoogle Scholar
- Hilbert DW, Smith WL, Paulish-Miller TE, Chadwick SG, Toner G, Mordechai E, et al. Utilization of molecular methods to identify prognostic markers for recurrent bacterial vaginosis. Diagn Microbiol Infect Dis. 2016;Google Scholar
- Ling Z, Kong J, Liu F, Zhu H, Chen X, Wang Y, et al. Molecular analysis of the diversity of vaginal microbiota associated with bacterial vaginosis. BMC Genomics. 2010;11:488.View ArticlePubMedPubMed CentralGoogle Scholar
- Mitchell CM, Hitti JE, Agnew KJ, Fredricks DN. Comparison of oral and vaginal metronidazole for treatment of bacterial vaginosis in pregnancy: impact on fastidious bacteria. BMC Infect Dis. 2009;9:89.View ArticlePubMedPubMed CentralGoogle Scholar
- Dols JA, Molenaar D, van der Helm JJ, Caspers MP, De KA-B, Schuren FH, et al. Molecular assessment of bacterial vaginosis by lactobacillus abundance and species diversity. BMC Infect Dis. 2016;16:180.View ArticlePubMedPubMed CentralGoogle Scholar
- DiGiulio DB, Romero R, Amogan HP, Kusanovic JP, Bik EM, Gotsch F, et al. Microbial prevalence, diversity and abundance in amniotic fluid during preterm labor: a molecular and culture-based investigation. PLoS One. 2008;3:e3056.View ArticlePubMedPubMed CentralGoogle Scholar
- Wang X, Buhimschi CS, Temoin S, Bhandari V, Han YW, Buhimschi IA. Comparative microbial analysis of paired amniotic fluid and cord blood from pregnancies complicated by preterm birth and early-onset neonatal sepsis. PLoS One. 2013;8:e56131.View ArticlePubMedPubMed CentralGoogle Scholar
- Haggerty CL, Totten PA, Tang G, Astete SG, Ferris MJ, Norori J, et al. Identification of novel microbes associated with pelvic inflammatory disease and infertility. Sex Transm Infect. 2016;92(6):441–6.View ArticlePubMedPubMed CentralGoogle Scholar
- Cartwright CP, Lembke BD, Ramachandran K, Body BA, Nye MB, Rivers CA, et al. Development and validation of a semiquantitative, multitarget PCR assay for diagnosis of bacterial vaginosis. J Clin Microbiol. 2012;50:2321–9.View ArticlePubMedPubMed CentralGoogle Scholar
- Marrazzo JM, Thomas KK, Fiedler TL, Ringwood K, Fredricks DN. Risks for acquisition of bacterial vaginosis among women who report sex with women: a cohort study. PLoS One. 2010;5:e11139.View ArticlePubMedPubMed CentralGoogle Scholar
- De BE, Verhelst R, Verstraelen H, Alqumber MA, Burton JP, Tagg JR, et al. Quantitative determination by real-time PCR of four vaginal lactobacillus species, Gardnerella vaginalis and Atopobium vaginae indicates an inverse relationship between L. Gasseri and L. Iners. BMC Microbiol. 2007;7:115.View ArticleGoogle Scholar
- Macklaim JM, Fernandes AD, Di Bella JM, Hammond JA, Reid G, Gloor GB. Comparative meta-RNA-seq of the vaginal microbiota and differential expression by lactobacillus iners in health and dysbiosis. Microbiome. 2013;1:12.View ArticlePubMedPubMed CentralGoogle Scholar