Amplicon sequencing is a type of targeted next generation sequencing that uses PCR to create DNA sequences called amplicons. It is simple and fast with a variety of applications.
Amplicon sequencing is a method of targeted next generation sequencing (NGS) that enables you to analyze genetic variation in specific genomic regions. This method uses PCR to create sequences of DNA called amplicons. Multiplexing—barcoding samples so that they can be mixed into pools—allows multiple samples to be sequenced on a single sequencing run. Before multiplexing, individual samples used for amplicon sequencing must be transformed into libraries by adding adapters and enriching target regions by PCR amplification. The adapters allow formation of indexed amplicons and enable the amplicons to adhere to the sequencing flow cell.
This detailed overview walks you through major advances in capture and enrichment technology, types of targeted next generation sequencing, their applications, and more.
Amplicon sequencing is a quick and easy targeted sequencing method with a simple workflow and fast turnaround time, as compared to hybrid-capture sequencing. Amplicon sequencing has naturally higher on-target rates than other targeted sequencing methods due to the precision of primer design.
This method is appropriate for genotyping by sequencing, identification of germline single nucleotide polymorphisms (SNPs), insertions/deletions (indels), and known fusions. Amplicon sequencing should be used for experiments that can tolerate more false positive variant calls, since bias that might be created during the PCR amplification step cannot be removed.
Listed are many reasons why amplicon sequencing might be the right choice for your research:
Whether you need custom or predesigned hybridization panels, exomes, or targeted amplicons, IDT has the solution you need. Explore our product offerings in hybridization capture and NGS amplicon sequencing.
Rapid, accurate pathogen identification is critical for controlling outbreaks and pandemics, such as the current COVID-19 pandemic. With xGen™ SARS‑CoV‑2 Amplicon Panels (previously Swift Normalase™ Amplicon Panel (SNAP) SARS-CoV-2), researchers can go from cDNA to sequencer in only three hours.
SARS-CoV-2 variants can be identified from an array of sample types, including nasopharyngeal/oropharyngeal swabs, sputa, stool, and wastewater. The panel covers 99.7% of the SARS-CoV-2 genome for identification of mutations from alpha, delta, and omicron strains.
Table 1. NGS for SARS-CoV-2 specifications.
|Design coverage and panel information|
|Time||2 hours cDNA-to-Library|
|3 hours cDNA-to-Normalized-Library Pool|
|Compatible with other indexes?||Yes|
For more information on xGen SARS-CoV-2 Amplicon Panels and how to use them in your research, visit our Product Page.
Whether your workflow requires rapid turnaround, or starts with low biomass samples, we can provide the solution. Learn more about xGen NGS amplicon sequencing and how it can meet your research needs.
Explore our expert-curated amplicon sequencing resources from primary literature to IDT’s own collection of DECODED™ articles.
Learn how other scientists have applied amplicon sequencing.
Read our articles about the rhAmpSeq™ amplicon sequencing system.
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