Metagenomic Sequencing

Service Overview

Metagenome refers to a collection of total genetic material of a mixed community of organisms, such as environmental metagenome, human metagenome, etc. It contains genomes of both cultivatable and uncultivatable microorganisms. Metagenomics is a molecular tool used to analyse the mixed genomic materials extracted from environmental samples, which provides detailed information in species diversity and abundancy, population structure, phylogenetic relationship, functional genes and correlation network with environmental factors, etc.

Service Workflow

Experimental Design
DNA Extraction
Library Construction and Sequencing
Data Analysis
After-sale Technical Support
Sequencing platform: Illumin a HiSeq Reads: PE150 DNA sample requirements: Conc. of DNA ≥ 30 nb/μl (Qubit) Total amont of DNA ≥ 3μg (Qubit) Clear DNA bands on electrophoresis gel and very limited DNA degradation observed

Bioinformatic Analysis


Service Advantages

Highly skilled experts in analysis
Diverse successful cases
Diverse successful cases
3 distributed computer cluster servers
3 distributed computer cluster servers
Optimized reports delivery
Professional after-sale support
Rapid analysis

Results Demo







Species annotation

Species distribution and relative abundancy is acquired by mapping clean data against Nr database with “diamond” software .








Phylogenetic analysis

To reveal the phylogenetic relationships of the species in samples, phylogenetic tree is generated basing on species components of samples by “ MetaPhlAn2” software.






Gene functional annotation

The predicted non-redundant genes are mapped against Nr, GO, COG and KEGG database to acquire functional information of the genes. These gene annotations provide crucial evidences in predicting biological functions of the microbial community in specific environmental conditions.








CAZy annotation

Carbohydrate-Active Enzymes (CAZy) database describes the families of structural-related catalytic and carbonhydrate-binding molecules of enzymes that degrade, modify or create glycosidic bonds.






Differential gene functional enrichment

To reveal the biological functional influence of different environmental conditions, differential genes are enriched to biological function terms.

FAQ

1What's the difference between metagenomes and microbial diversity analysis?
In metagenomic analysis, all genetic materials are extracted and fragmented into DNA fragments. These fragments are subjected to library construction including PCR, adapter ligation, etc. Bioinformatic analysis is processed on top of assembly of these DNA fragments, which could provide a set of genes with detailed sequence information. Microbial diversity analysis is mainly processed on targeted regions on genome, such as 16S rDNA, 18S rDNA and ITS regions. These regions contain both highly conserved area and highly variable area, which are perfect representative sequences of species. With specific primers, these regions can be targeted and amplified for sequencing and analysis. These amplified sequences can be utilized for species annotation. Generally speaking, microbial diversity analysis could tell us “what are they?” and by metagenomics, we can find out “What do they do?”
2Why is the species annotation from microbial diversity analysis different from that of metagenomics analysis?
In microbial diversity analysis, species annotation is mainly basing on the amplicon sequences, i.e. DNA coding for ribosome RNA. However, different species may have different copy numbers of ribosome genes. Moreover, PCR process during library construction could introduce some error, which may affect final annotation outcome.