Metagenomic Sequencing


Metagenomic sequencing includes a suite of solutions ranging from targeted assays (16S for prokaryotes and ITS2 for fungi) to shotgun sequencing and metagenomic analysis. Metagenomics can leverage next generation sequencing (NGS) to rapidly analyze the diversity of microbial communities and elucidate the role of constituent species.


What is metagenomic sequencing?

Metagenomic sequencing is the collective analysis of all genomic material present in a sample (containing mixed microorganism communities), thus eliminating the need for isolating and cultivating individual organisms.


What is metagenomics vs. genomics?

Both metagenomics and genomics are fields of study within molecular biology, but the difference is in scope. While genomics is focused on the genome of a single organism, metagenomics encompasses all genomes of various microorganisms within a single given sample, providing a broad overview of an ecosystem’s composition.

Metagenome Sequencing Service Options

  16S-EZ Fungal Identification Whole Genome Metagenomics

 Microbes Targeted

Bacteria and Archaea Fungi All

 Taxon Level

Genus/Species Genus/Species Sub-species
Genomic Loci Sequenced 16S rRNA gene
(V3 and V4 regions)
Internal Transcribed
Spacer 2 (ITS2)
Whole Genomes
Purpose of Assay  Taxon Identification
  • Taxon identification
  • Variant discovery
Benefits Enhanced sensitivity outperforms
V4-only assays
High variation in ITS2
region allows differentiation
between closely related species
  • Most comprehensive assay - identify over 53,000 microbes
  • Phylogenetic analysis
  • Ideal for organisms with poorly annotated 16S genes
Available Reports
  • Rank-abundance curve
  • Taxonomic classification
  • Rarefaction curve
  • Principal coordinate analysis
  • Hierarchical clustering
  • Taxonomic classification of reads across all ranks
  • Microbial abundance estimation across all ranks
  • Cross-sample comparisons across all ranks
  • Dynamic, visual exploration of microbial taxonomy
  • Interactive, searchable data tables

Coming soon! Full-length 16S sequencing for sub-species resolution. Please inquire for more details.


Digital PCR (dPCR)

Detect your target sequences with unmatched accuracy

Features & Benefits

Patented assays are more sensitive and accurate than traditional methods, providing you with better data
Myriad sample types accepted with ultra-low input requirements
Get your data faster with industry-leading turnaround time starting at 10 business days
Easily digest results with user-friendly, interactive analysis


mexavx thumbnail

Example Report: 16S-EZ Metagenomics Bioinformatics Analysis

With the addition of the new, enhanced bioinformatics analysis and report, 16S-EZ delivers industry-leading analysis of microbiome diversity and composition. This improved report takes the tedium out of dendrogram and graph creation, allowing you to analyze your data faster. An example report is available for viewing by clicking the button below.

The enhanced report includes the following information:

  • Rank-abundance curve
  • Taxonomic classification
  • Rarefaction curve
  • Principal coordinate analysis
  • Hierarchical clustering
Download Now
Case Study

Tech Note: 16S MetaVx™ Environmental Detects Greater Prokaryotic Diversity Than Traditional 16S Assay

We compared GENEWIZ’s 16S MetaVx Environmental service against a traditional V4-only assay. 16S MetaVx Environmental consistently detected a greater number of bacteria and archaea, demonstrating its superior sensitivity and specificity.

Download Now
Please inquire for more details. (
Case Study

Webinar | Understanding biological mechanisms to better predict the evolution of antibiotic resistance

The rapid and wide-spread evolution of antibiotic resistance is threatening global health. In this webinar, presented by Dr. Mato Lagator, Wellcome Trust, Royal Society Sir Henry Dale Fellow, University of Manchester, you will learn about different approaches to study evolutionary processes that underpin the emergence of resistance. Special focus is given on how these methods can be utilized to improve drug development and longevity.

Watch Now 

Sample Submission Guidelines

GENEWIZ accepts a variety of starting materials for Metagenomics projects. For detailed sample submission requirements please visit our Sample Submission Guidelines page.

Get access to Azenta's global world-class NGS service capabilities

Certified Illumina Sequencing Provider

Azenta is a certified service provider for Illumina and Life Technology NGS platforms. For information on our NGS platforms as well as recommended configurations for your projects, please visit the NGS Platforms page. Azenta does not guarantee data output or quality for sequencing only projects.

How To Order

Email | Phone +49 (0)341 520 122-41