Gut Microbiome Analysis

The gut microbiota is comprised of tremendous organisms that living in the human gut, including bacteria, archaea, viruses, and fungi, which play key contribute to host metabolism and are considered potential sources of novel therapeutics. Several diseases are now thought to be influenced by processes in the gut microbiome. Those include cancer, autoimmune disorders such as multiple sclerosis and autism spectrum disorder. The gut microbiome also strongly interacts with certain drugs, including some mental-health therapeutics, and influences their effects.

Gut Microbiome Analysis

Potential Research Directions of Gut Microbiota Analysis

• Explore the differences in Intestinal flora composition and content between the healthy state and in a variety of disease states
• Explore the differences in Intestinal flora composition and content during the development of a certain disease to search for disease-related biomarkers
• Explore the differences in Intestinal flora composition and content at different drug or diet intervention stages
• Explore the differences in Intestinal flora composition and content at different developmental stages of the same individual
• Explore the differences in Intestinal flora composition and content at different body parts of the same individual

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 gut 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 complete solution for unbiased microbiome profiling 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

Genomic DNA samples requirements

• 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

Intestinal segment or feces samples requirements

• Quality requirements: ≥1g
• Storage: -80℃
• Shipment: Dry ice
• Repeated freeze-thaw cycles should be avoided

Detectable Objects
Human, mouse, rat, monkey, chicken, sheep, fish, horse, donkey, panda, pangolin and other animals.

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. Fuhrman JA. 2009. Microbial community structure and its functional implications. Nature 459:193–199.
2. Zhou, J. , He, Z. , Yang, Y. , Deng, Y. , & Alvarez-Cohen, L. . (2015). High-throughput metagenomic technologies for complex microbial community analysis: open and closed formats. mBio, 6(1).
3. Blandino, G., Inturri, R., Lazzara, F., Rosa, M.D., & Malaguarnera, L. (2016). Impact of gut microbiota on diabetes mellitus. Diabetes & metabolism, 42 5, 303-315.

For research use only.

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