Microbiota-based analysis reveals specific bacterial traits and a novel strategy for the diagnosis of infectious infertility

Graspeuntner, Simon; Bohlmann, Michael K.; Gillmann, Kathrin; Speer, Runa; Kuenzel, Sven; Mark, Heike; Hoellen, Friederike; Lettau, Reinhard; Griesinger, G.; König, Inke R.; Baines, John F.; Rupp, Jan

doi:10.1371/journal.pone.0191047

Cited by 45 publications

(45 citation statements)

References 34 publications

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“…In line with our finding that the genus Lactobacillus has an important role in reproductive health/outcome, are similar results of several published studies [ 10 – 20 ]. Recent publications show that women with infertility problems have a reduced number of Lactobacillus compared to healthy women [ 10 – 18 ]. Moreover, the presence of non- Lactobacillus dominated microbiota (e.g.…”

Section: Introductionsupporting

confidence: 93%

The ReceptIVFity cohort study protocol to validate the urogenital microbiome as predictor for IVF or IVF/ICSI outcome

Koedooder¹,

Singer

Schoenmakers³

et al. 2018

Reprod Health

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BackgroundDuring the last decade, research has shown that besides the known predictive factors, such as duration of subfertility, a women’s age, the body mass index, also the microbiome might affect fertility. Micro-organisms together with their genetic information and the milieu in which they interact are called the microbiome. Studies have shown that the presence of certain microbiota during assisted reproductive technology (ART) has a positive impact on the outcome. However, the potential role of using the microbiome as a predictor for outcome of ART has not yet been investigated.MethodsIn a prospective study, 300 women of reproductive age and with an indication for in-vitro Fertilization (IVF) with or without Intra Cytoplasmic Sperm Injection (ICSI) treatment will be included. Prior to the IVF or IVF-ICSI treatment, these women provided a midstream urine sample and a vaginal swab. The composition of the urinary and vaginal microbiome will be analysed with both Next Generation Sequencing and the IS-pro technique. The endpoints of the study are pregnancy achieved after fresh embryo transfer (ET) and within the subsequent year after inclusion. External validation of the findings will take place in an additional cohort of 50 women with an IVF or IVF-ICSI indication.DiscussionIn the proposed study, the predictive accuracy of the composition of the urinary and vaginal microbiome for IVF or IVF-ICSI outcome will be only validated for fresh ET. Follow-up has to show whether the predictive accuracy will be similar during the consecutive frozen ET’s as part of the IVF or IVF-ICSI treatment or for subsequent stimulated or natural cycles. In addition, external validation will take place in another cohort and hospital. Predictive knowledge of the microbiome profile may enable couples to make a more substantiated decision on whether to continue treatment or not. Hence, the unnecessary physical and emotional burden of a failed IVF or IVF-ICSI treatment can be avoided.Trial registrationISRCTN ISRCTN83157250. Registered 17 August 2018. Retrospectively registered.

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Section: Introductionsupporting

confidence: 93%

The ReceptIVFity cohort study protocol to validate the urogenital microbiome as predictor for IVF or IVF/ICSI outcome

Koedooder¹,

Singer

Schoenmakers³

et al. 2018

Reprod Health

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“…All PCR reactions were run in duplicate and were pooled afterward. The produced amplicons were processed further as previously described by Graspeuntner et al [26]. Subsequently, resulting PCR products were purified using the Qiagen MinElute Gel Extraction Kit (Qiagen, Hilden, Germany).…”

Section: Sediment Sampling Dna and Rna Extractionmentioning

confidence: 99%

Evaluating the Impact of Wastewater Effluent on Microbial Communities in the Panke, an Urban River

Nega

Braun

Künzel

et al. 2019

Water

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Pharmaceuticals are consumed in high amounts and can enter as emerging organic compounds in surface waters as they are only partially retained in wastewater treatment plants (WWTPs). Receiving pharmaceuticals may burden the aquatic environment, as they are designed to be bioactive even at low concentrations. Sediment biofilm populations were analyzed in river sediments due to the exposure of an inflow of WWTP effluents. Illumina MiSeq 16S rRNA gene amplicon sequencing was performed of 108 sediment samples, which were taken from multiple cores within three sampling locations in the Panke River, with one sampling site located downstream of the inflow. Sequencing data were processed to infer microbial community structure in samples concerning the environmental variables, such as micropollutants and physicochemical parameters measured for each core. More than 25 different micropollutants were measured in pore water samples, in which bezafibrate, clofibric acid, carbamazepine, and diclofenac were detected at high concentrations. Bacterial 16S rRNA gene amplicons revealed Nitrospirae, Proteobacteria, Chloroflexi, Actinobacteria, Acidobacteria, Bacteroidetes, and Ignavibacteriae as the most abundant groups in the samples. Differences in microbial community composition were observed with respect to micropollutants. However, our findings revealed that the composition of the microbial community was not only governed by the effluent. The significant changes in the alpha-and beta-diversity were explained by phenobarbital and SO 4 2− , which did not originate from the WWTP indicating that more unobserved factors are also likely to play a role in affecting the biofilm community's composition.

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“…chain reaction, quantification of amplicons, and library preparation were performed as described elsewhere [23]. Sequencing by synthesis runs were carried out on a MiSeq platform (Illumina ® , San Diego, CA, USA) using the MiSeq Reagent Kit v3 (600 cycles).…”

Section: Polymerase Chain Reaction Amplification and Sequencingmentioning

confidence: 99%

Gut Dysbiosis With Bacilli Dominance and Accumulation of Fermentation Products Precedes Late-onset Sepsis in Preterm Infants

Graspeuntner

Waschina

Künzel

et al. 2018

Clinical Infectious Diseases

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Background Gut dysbiosis has been suggested as a major risk factor for the development of late-onset sepsis (LOS), a main cause of mortality and morbidity in preterm infants. We aimed to assess specific signatures of the gut microbiome, including metabolic profiles, in preterm infants <34 weeks of gestation preceding LOS. Methods In a single-center cohort, fecal samples from preterm infants were prospectively collected during the period of highest vulnerability for LOS (days 7, 14, and 21 of life). Following 16S rRNA gene profiling, we assessed microbial community function using microbial metabolic network modeling. Data were adjusted for gestational age and use of probiotics. Results We studied stool samples from 71 preterm infants with LOS and 164 unaffected controls (no LOS/necrotizing enterocolitis). In most cases, the bacteria isolated in diagnostic blood culture corresponded to the genera in the gut microbiome. LOS cases had a decelerated development of microbial diversity. Before onset of disease, LOS cases had specific gut microbiome signatures with higher abundance of Bacilli (specifically coagulase-negative Staphylococci) and a lack of anaerobic bacteria. In silico modeling of bacterial community metabolism suggested accumulation of the fermentation products ethanol and formic acid in LOS cases before the onset of disease. Conclusions Intestinal dysbiosis preceding LOS is characterized by an accumulation of Bacilli and their fermentation products and a paucity of anaerobic bacteria. Early microbiome and metabolic patterns may become a valuable biomarker to guide individualized prevention strategies of LOS in highly vulnerable populations.

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Microbiota-based analysis reveals specific bacterial traits and a novel strategy for the diagnosis of infectious infertility

Cited by 45 publications

References 34 publications

The ReceptIVFity cohort study protocol to validate the urogenital microbiome as predictor for IVF or IVF/ICSI outcome

The ReceptIVFity cohort study protocol to validate the urogenital microbiome as predictor for IVF or IVF/ICSI outcome

Evaluating the Impact of Wastewater Effluent on Microbial Communities in the Panke, an Urban River

Gut Dysbiosis With Bacilli Dominance and Accumulation of Fermentation Products Precedes Late-onset Sepsis in Preterm Infants

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