Omics Research // Metagenomics
Shotgun Metagenomic Sequencing
A comprehensive method for characterizing the identity and potential function of the entire microbial community
What Is Shotgun Metagenomic Sequencing?
Shotgun metagenomics is a high-throughput sequencing technology that comprehensively assesses the total genomic content in all microorganisms present in a sample.
This is a widely used method to understand the taxonomical composition, diversity, and metabolic functions of a given sample. In combination with bioinformatics analyses, shotgun metagenomics can be used to identify bacteria, fungi, and viruses present in a sample. It can survey the composition and function of microorganisms in soil, water, and microbiome samples.
Why Is Shotgun Metagenomic Sequencing Important?
The ability to assess the entire genomic content of a sample and identify the metabolic pathways and associated functions of a community make this approach a standard to describe samples from diverse sources.
What Can You Do?
Clinical Microbiology
Identify unknown microorganisms and pathogens in outbreaks or human diseases
Microbial Ecology
Discover new microorganisms and genes by mapping a functional profile of microbial communities and their internal and environmental interactions
Drug Development
Identify novel genes, biological compounds, antibiotics, and enzymes with clinical and industry applications
Disease Factors
Categorize associations between the human microbiome and disease states
Shotgun Metagenomic Sequencing Technologies
Biotechnological Discovery
Profile high-complexity environments for all genomes contained in a diverse sample using de novo assembly.
Metagenomic Profiling
Sequence all strains of your microbial sample in one quick and easy approach.
On-Going Promotions
We're always adding new deals — check in often for updated promotions!
Shotgun Metagenomics Best Practices
Starting Material
DNA extraction from stool, swabs, saliva, urine, media, and more
Sample QC >2 ng
Get your high-quality genomic DNA isolated from most sample types at Psomagen.
Library Preparation
Short Read
- DNA Prep Library Kit
- 2 ng genomic DNA
- Library QC > 10nM at ~600 bp
Long Read
- PacBio Microbial Library (Avg. size 20 kb)
- 5 µg genomic DNA
- Library QC > 20nM at 3~50Kb
Sequencing Instrumentation & Read Length
Short Read
- Illumina NovaSeq 6000 S4 or HiSeq X
- 2 x 151 bp read length
- 3 GB raw sequencing data
Long Read
- PacBio Sequel Ile
Psomagen standardly runs 12.5 ng of DNA for amplicon sequencing, with additional DNA required to perform quality control checks
For taxonomy identification, Psomagen standardly provides 100,000 read sequencing depth per sample using a 2 x 300 bp read length on a MiSeq Sequencer
Psomagen can only guarantee raw sequencing depth
Bioinformatic Analysis
- Assembly and OTU clustering
- Taxonomic assignment
- Species abundance
- Diversity statistics
Data Delivery
All sequencing run data is delivered as demultiplexed .fastq files
If an entire flow cell or lane is purchased, raw data can be delivered as BCL files if requested at the time of purchase
Why Our Clients Choose Psomagen
Superior Data Quality
Exceeds manufacturer benchmarks
Fast Turnaround
Starting at one week for sequencing projects
US-Based Processing
Sequencing and customer support in Rockville, MD
Ph.D. Level Support
Expert assistance every step of the way, with real-time project updates through our online system
Automated Workflows
Increase scalability and improve reproducibility
CLIA-Certified, CAP-Accredited Labs
Clinical research options available (inquire for more information)
Complete Sequencing Solutions
From extraction to data analysis, with many sample types accepted
Quotes From Our Clients
I chose Psomagen because of the price and US-based labs. We've used Psomagen before and were very satisfied. The people were responsive and helpful and the work done was very good.
Professor
University Research Laboratory
I chose Psomagen because of the price and US-based labs. We've used Psomagen before and were very satisfied. The people were responsive and helpful and the work done was very good.
Professor
University Research Laboratory
I chose Psomagen because of the price and US-based labs. We've used Psomagen before and were very satisfied. The people were responsive and helpful and the work done was very good.
Professor
University Research Laboratory
We're Ready for Your Order!
Here's what to expect in your project's life cycle. If you have a question during sequencing, it's easy to get in touch!
01
Request a Consultation
Create an account through our client portal and get in touch with your local field team to start designing a project.
We’ll help drive your research forward with the right tools for your research needs.
02
Place an Order
After finalizing the scope of work, the official quote will be issued for signing. Then, your sales representative will send specific shipping instructions.
Once all the samples and necessary documents are ready, we can start your project. Need more analysis? Reach out to our bioinformatics experts to dig deeper.
03
QC and Data Delivery
All Psomagen sequencing projects come with a built-in QC step to ensure you get the information you need. An account manager will update you on your project's progress in a timely manner.
You can also see some project information and securely view all valid reports on the client portal site.
Customer Publications and Other Resources
More Sequencing Possibilities
Choose from our wide range of sequencing options — whole genome to single-cell transcriptomics — to support your project.