Accurate Detection of all Microbes
Recent research suggests a close relationship between the composition of the human microbiome and the occurrence of a variety of diseases, as well as the response towards pharmaceutical drugs. This has been particularly shown for the gut microbiome but according to recent findings it can also be extended to other body sites (e.g. skin, oral, nasal). Furthermore, microorganisms are involved in many biochemical reactions in the environment and thus represent important constituents of environmental ecosystems. To better understand human and environmental microbiomes, it is of great importance to accurately identify all microbial species present in a sample and link this information to their set of functional genes.
Metagenomic Profiling allows the accurate detection of all microbes (Bacteria, Archaea, Fungi, Protozoa, Viruses) down to the species level and enables the analysis of their functional repertoire. This has been shown using microbial community standards. The detection of the functional repertoire of the microbes is possible because this type of analysis is not based on any marker genes. During Metagenomic Profiling, which is also known as shotgun metagenomics, all DNA fragments are sequenced. Accordingly, functional genes coding for enzymes related to specific metabolic pathways can also be analyzed. Metagenomic Profiling is the best choice if microbiomes need to be thoroughly characterized including accurate identification of microbial species as well as their functional repertoire.
Applications of Metagenomic Profiling are diverse and include:
- Disease monitoring
- Microbial biomarker detection
- Drug development
- Characterization of environmental microbiomes
Turnaround time
The turnaround time (TAT) highly depends on the batch size, the starting material, and the requested bioinformatics level.
Delivery
Your sequencing data will be available for download from one of our servers (FTAPI or SFTP). Upon request, as well as for large sample batches, data can also be delivered via external hard drive or uploaded to your own server.
Storage
The original samples and, if applicable, the isolated nucleic acids will be stored at CeGaT for a period of 3 months after data delivery.
Data will be irrevocably deleted after 5 months.
Explore our Microbiome Analysis Product
Metagenomic Profiling
Target gene
Whole genome (shotgun analysis)
Detectable microbes
Bacteria, Archaea, Fungi, Protozoa, Viruses
Lowest detectable taxonomic level
Species
Detection of microbial functions
Yes
Sequencing technology
Illumina
Read length
2 × 100 bp
Output
10 M clusters
Data format
FASTQ
Potential application
Identification of specific microbial species and functions associated with the response towards immune checkpoint inhibitors
We recommend using our specifically designed stool sampling kit for convenient and unbiased self-collection of fecal material.
All products can be combined with our DNA isolation service and tailored data analysis.
Bioinformatics
Raw sequencing data are automatically processed in order to facilitate immediate genetic evaluation.
Included in delivery are demultiplexed, and adapter trimmed FASTQ files.
Further options for bioinformatic analyses are available:
Metagenomic Profiling bioinformatic analysis:
- Mapping against microbiome database (DAA format) *
- Taxonomic and functional classification using MEGAN6 (MEGAN format) *
- Generation of taxonomic abundance tables including sequence counts and relative abundances down to the species level (XLSX and BIOM format)
- Generation of microbial function tables including sequence counts and relative abundances of functional genes classified using the KEGG database (XLSX format)
- Generation of barplots showing relative abundances down to the species level (PNG format)
- Generation of a detailed project report (PDF format)
* These files can be interactively explored and further analyzed using MEGAN6, a user-friendly and open source software for analyzing microbiome data.
Technical Information
At CeGaT, paired-end sequencing is performed on state-of-the-art Illumina Sequencing Systems.
- Metagenomic Profiling: 2 x 100 bp on NovaSeq 6000
If customers require sequencing parameters other than those presented in our product portfolio, please let us know! We can provide further solutions.
We are pleased to offer you our specifically designed stool sampling kit which provides convenient and unbiased self-collection of fecal material combined with our DNA isolation service. Please also reach out to us to discuss sampling and DNA extraction of various starting material.
Contact Us
Start Your Project Now
We are happy to discuss sequencing options and to find a solution specifically tailored to your clinical study or research project.
When getting in contact, please specify sample information including starting material, number of samples, preferred library prep option, preferred sequencing depth and required bioinformatics, if possible.
Further Reading
Tech Note
Towards a Highly Accurate Microbiome Analysis
