Urinary Tract Microbiome Analysis

Compared to the microbiome of other body sites, the urinary microbiome is a relatively new term. Recent studies showed the characterization of urinary microbiome is critical for our understanding of the role that the urinary microbiota plays in human health and disease. Sequence-based technique can not only be used to unveil the composition of bacterial community in urinary tract, but it can also be applied to uncover the functional capacity.

Urinary Tract Microbiome Analysis

Potential Research Directions of Urinary Tract Microbiota Analysis

• Explore the changes in the urinary tract microbiome among individuals with urinary incontinence, neurogenic bladder dysfunction, sexually transmitted infections, benign prostatic hyperplasia and lower urinary tract symptoms.
• Explore the differences in the urine microbiome among patients in whom superficial UC recurred compared to those in whom it did not
• Explore the differences in the urinary and urothelium-bound microbiomes composition and content between healthy state and bladder cancer
• Explore the differences in the microbiota of the urethra versus the bladder from different asymptomatic adults
• Explore the differences in the voiding- versus catheterization-associated urine microbiome of healthy men and women.

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 urinary tract microbiota. 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. Karstens, L., Asquith, M., Caruso, V., Rosenbaum, J. T., Fair, D. A., Braun, J., Gregory, W. T., Nardos, R., & McWeeney, S. K. (2018). Community profiling of the urinary microbiota: considerations for low-biomass samples. Nature reviews. Urology, 15(12), 735–749.
2. APAAdebayo, A. , Ackermann, G. , Bowyer, R. C. E. , Wells, P. , & Steves, C. . (2020). The urinary tract microbiome in older women exhibits host genetic and environmental influences. Cell Host & Microbe, 28(2).

For research use only.

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