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Omics Research // Metagenomics

16S/ITS Amplicon Sequencing

Identify the taxonomy of a sample's bacterial and fungal population by sequencing the hypervariable regions of the prokaryotic rRNA 16S gene and ITS gene

What Is 16S Sequencing?

Next-generation sequencing of the 16s rRNA gene —or just 16S sequencing, is a well-established and low-cost method to determine the microbial composition and diversity of bacteria in a sample. The presence of the 16S rRNA gene in almost all bacteria is very useful for analyses of the human, plant, animal, and environmental microbiome.

What Is ITS Sequencing?

Sequenced-based analysis of the Internal Transcribed Spacer (ITS) DNA sequence is regarded as the standard for taxonomic and diversity analyses of fungi. Given that this region is broadly present in fungi it is commonly used to identify species and perform genetic analyses of microbiomes, from human to environmental samples.

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Why Are 16S and ITS Sequencing Important?

Both are inexpensive and effective methods to survey multiple samples at once, allowing fast and comprehensive characterization of the different bacterial and fungal populations within a sample.

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What Can You Do?
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Clinical Microbiology

Discover pathogenic microorganisms from clinical samples, including invasive bacterial and fungal infections

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Microbial Ecology

Study the relationship microorganisms have with humans, plants, animals, and the environment

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Freshwater / Wastewater Monitoring

Evaluate water quality, prevent operational problems at drinking water facilities (e.g. corrosion of iron pipes and modification of water properties by microorganisms), and monitor and prevent outbreaks

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Food Science

Evaluate the contribution of microorganisms to the quality (e.g. flavor and texture) and safety (e.g. pathogen presence) of food

Applications of 16S and ITS Sequencing

16S rRNA Amplicon Sequencing

Amplify and sequence the V3-V4 region of the prokaryotic 16S rRNA gene to classify the phylum, class, order, family, genus, and species in a heterogeneous microorganism sample.

ITS Region Amplicon Sequencing

Classify the taxonomy of the fungi present in your diverse populations by amplifying and sequencing a ~210 bp region of the nuclear ribosomal internal transcribed spacer (ITS).

Custom Amplicon Sequencing

Do you have your own regions of interest to target using amplicon next-generation sequencing? Contact Psomagen for a consultation on your custom project needs!

On-Going Promotions

We're always adding new deals — check in often for updated promotions!

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16S/ITS Sequencing Best Practices

Sample Preparation & DNA Extraction

DNA extraction from stool, swabs, saliva, urine, media, and more
Sample QC - >20 ng

Get your high-quality genomic DNA isolated from most sample types at Psomagen.

Library Preparation

16S rRNA Amplicon Library Prep (V3-V4 region)

  • 12.5 ng genomic DNA
  • Library QC >4 nM at ~630 bp

ITS rRNA Amplicon Library Prep (ITS2 region)

  • 12.5 ng genomic DNA
  • Library QC >4 nM at 275-725 bp

Sequencing Depth & Read Length

Instrumentation: Illumina MiSeq v3

  • Read length: 2 x 300 bp
  • >100,000 reads/sample
  • 30% PhiX Spike-In

Psomagen can only guarantee raw sequencing depth

Bioinformatic Analysis

Basic 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, the raw data can be delivered as BCL files if requested at the time of the contract.

Psomagen can also provide taxonomic information on your bacterial or fungal samples using clustering in operational taxonomic unity (OTU) analysis.

Why Our Clients Choose Psomagen

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Superior Data Quality

Exceeds manufacturer benchmarks

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Fast Turnaround

Starting at one week for sequencing projects

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US-Based Processing

Sequencing and customer support in Rockville, MD

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Ph.D. Level Support

Expert assistance every step of the way, with real-time project updates through our online system

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Automated Workflows

Increase scalability and improve reproducibility

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CLIA-Certified, CAP-Accredited Labs

Clinical research options available (inquire for more information)

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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.

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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.

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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.

16S/ITS Sequencing in Action

Association of SNPs in the PAI1 Gene with Disease Recurrence and Clinical Outcome in Bladder Cancer
Genomic-based microsatellite development for Ternstroemia (Pentaphylacaceae) and transferability to other Ericales
Antifungal In Vitro Activity of Phoradendron sp. Extracts on Fungal Isolates from Tomato Crop
PSO Efficient!

Learn how 16S and ITS sequencing can get you fast, reliable insights on your microbiome samples.