Reproductive tract Microbiome Analysis

The reproductive tract microbiome contains an active microbiome which serves important roles in impacting the physiology of the reproductive tract organs and even lead to pathological states. Furthermore, it is well established that the assessment of reproductive tract microbiome opens a novel area of research to improve personalized care in reproductive medicine and women's health. An understanding of the richness and diversity is essential for the identification of risk factors for disease and the development of appropriate treatment. Sequence-based technique can not only be used to unveil the taxonomic composition of bacterial community in reproductive tract, but it can also be applied to uncover the functional capacity.

Reproductive tract microbiome-Analysis

Potential Research Directions of Reproductive tract Microbiota Analysis

• Explore the differences in vagino-uterine composition and content to search for potential bacterial markers of adenomyosis and endometriosis(EMS).
• Explore the differences in reproductive tract microbiome composition and content in different anatomical areas (vagina, cervix, endometrium, and placenta)
• Explore the differences in the vaginal microbiome composition and content at various states of health, such as during the menstrual cycle or after menopause.
• Explore the differences in the maternal vaginal and gut microbiome during pregnancy and the fetal microbiome.
• Explore the differences in the vaginal microbiome between women of different ethnicities.
• Explore the differences in the male and female reproductive tracts and understand how this may play a role in reproductive competence.

Technical Platforms

With our next-generation sequencing (NGS) technology, PacBio SMRT sequencing, and Nanopore sequencing platforms, we have the tool to identify, quantify and analysis the reproductive tract microbiome. With this high-throughput technology we can perform complete metagenomics studies capable of surveying the genomes of entire communities, including those of unculturable organisms.

Illumina Hiseq Illumina Miseq Ion PGM PacBio SMRT system
Gut Microbiome AnalysisGut Microbiome AnalysisGut Microbiome AnalysisGut Microbiome Analysis
Nanopore system PCR-DGGE Real-time qPCR Clone library
Gut Microbiome AnalysisGut Microbiome AnalysisGut Microbiome AnalysisGut Microbiome Analysis

What Can Creative Biogene Do?

Creative Biogene offers extensive microbiome analysis portfolio includes not only consultancy, study design, sampling solutions and sequencing, but also downstream bioinformatic and biostatistical analyses. 

Project Workflow

High-throughput sequencing analysis process

Fig.1 High-throughput sequencing analysis process

High-throughput sequencing analysis process

Fig.2 PCR-DGGE analysis process

Service Specifications

Sample requirements and preparation

• Sample: Genomic DNA
• Quality requirements: ≥ 300 ng, ≥ 10 ng/μL, OD260/280=1.8-2.0, non-degradative
• Shipment: Dry ice or ice packs
• Repeated freeze-thaw cycles should be avoided

Detectable Microorganisms

• Bacteria
• Fungi
• Viruses

Basic analysis

• Sequence Filtering and Trimming
• Sequence Length Distribution
• OTU Clustering and Species Annotation
• Diversity Index
• Shannon-Wiener Curve
• Rank-Abundance Curve
• Rarefraction Curve
• Multiple Contrast
• Heatmap
• Principal Components Analysis (PCA)

Routine analysis

• Heatmap
• VENN
• Principal Components Analysis (PCA)
• Microbial Community Structure Analysis
• α Diversity Index Analysis
• Matastats Analysis
• Weighted Unifrac test
• CCA/RDA Analysis

Advanced data analysis

• Phylogenetic Tree
• LDA-Effect Size (LEfSe)
• Network Analysis
• Correlation Analysis

References
1. Chen, C., Song, X., Wei, W. et al. The microbiota continuum along the female reproductive tract and its relation to uterine-related diseases. Nat Commun 8, 875 (2017).
2. Haldar, S., Kapil, A., Sood, S., & Sengupta, S. (2016). Female reproductive tract microbiome in gynecological health and problems. Journal of Reproductive Health and Medicine, 2, S48–S54.
3. Moreno, I., & Simon, C. (2018). Deciphering the effect of reproductive tract microbiota on human reproduction. Reproductive medicine and biology, 18(1), 40–50.
4. Al-Nasiry, S., Ambrosino, E., Schlaepfer, M., Morré, S. A., Wieten, L., Voncken, J. W., Spinelli, M., Mueller, M., & Kramer, B. W. (2020). The Interplay Between Reproductive Tract Microbiota and Immunological System in Human Reproduction. Frontiers in immunology, 11, 378.
5. Green, K. A., Zarek, S. M., & Catherino, W. H. (2015). Gynecologic health and disease in relation to the microbiome of the female reproductive tract. Fertility and Sterility, 104(6), 1351–1357.

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