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A streamlined workflow offering highly sensitive detection and characterization of common respiratory viruses, including SARS-CoV-2 strains.
Rapid Respiratory Virus Enrichment Kit
A streamlined workflow offering highly sensitive detection and characterization of common respiratory viruses, including SARS-CoV-2 strains.
Rapid Respiratory Virus Enrichment Kit

Rapid Respiratory Virus Enrichment Kit

A streamlined workflow offering highly sensitive detection and characterization of common respiratory viruses, including SARS-CoV-2 strains.

6.5 hr

Assay time

< 1.5 hr

Hands-on time

10–100 ng

Input quantity

See full details in the specifications table

Overview

The Illumina Rapid Respiratory Virus Enrichment Kit provides an effective, streamlined method for detecting common respiratory viruses, such as SARS-CoV-2 and influenza A/B. The Rapid kit uses a single tube reaction prep to increase workflow efficiency, with an assay time of approximately 6.5 hours and less than 1.5 hour hours of hands-on time.1

Key features

  • Understand variant analysis for viral evolution or viral surveillance

  • Determine viral transmission patterns and predict resurgence

  • Identify and characterize co-infections and their role in complex diseases

Target enrichment for respiratory virus detection

Target enrichment through the hybrid–capture method allows for highly sensitive detection without requiring the high read depth needed for shotgun metagenomic sequencing. Additionally, this method allows for dramatically larger probe panels for comprehensive profiling compared to amplicon sequencing while producing whole-genome sequencing data for the targeted viruses.

Streamlined solution for viral applications

This comprehensive workflow integrates library preparation, target enrichment, sequencing, and data analysis, giving researchers and public health scientists the ability to monitor multiple viruses and variants with one workflow. This kit uses a single tube reaction that simplifies the workflow and reduces cleanup steps, potentially improving detection of low-frequency targets.

Specifications

Assay time 6.5 hr
Automation capability Liquid handling robot(s)
Content specifications Targets and characterizes ~40 common respiratory viruses, including SARS-CoV-2, influenza A and B viruses, adenovirus, rhinovirus, respiratory syncytial virus, and other common respiratory viruses.
Description A streamlined workflow for detecting and analyzing SARS-CoV-2 and other common respiratory viruses. The agnostic design allows for widespread identification of pathogenic viruses across multiple sample types of interest
Hands-on time < 1.5 hr
Input quantity 10–100 ng
Instruments NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, MiSeq i100 Plus System, MiSeq i100 System
Mechanism of action On-bead tagmentation followed by a single hybridization step
Method Targeted DNA sequencing, Targeted RNA sequencing, Target enrichment
Multiplexing Up to 384 samples per sequencing run
Nucleic acid type DNA, RNA
Sample type details Nasal swabs and washes, wastewater, and more
Species category Human, Virus
Technology Sequencing

Required Products

In addition to the Rapid Respiratory Virus Enrichment Kit, you'll need a sequencing instrument, compatible sequencing reagents, and additional products listed in the user guide in the Documentation section.

/ Results

Applications

The Rapid Respiratory Virus Enrichment Kit, Illumina sequencing, and DRAGEN secondary analysis offer a streamlined workflow that enables the detection and characterization of over 40 common human respiratory viruses.

Example workflow

1
Prep

Illumina Rapid Respiratory Virus Enrichment Kit

2
Sequence
3
Analyze

Project recommendations

Instrument Recommended number of samples Read length
MiSeq i100 System

1M paired-end reads for high concentration, low complexity samples; 4M paired-end reads for low concentration, high complexity samples, such as wastewater.

2 × 150 bp
NextSeq 550 System

1M paired-end reads for high concentration, low complexity samples; 4M paired-end reads for low concentration, high complexity samples, such as wastewater.

2 × 150 bp
NextSeq 1000 System, NextSeq 2000 System

1M paired-end reads for high concentration, low complexity samples; 4M paired-end reads for low concentration, high complexity samples, such as wastewater.

2 × 150 bp

Related applications and methods

Target enrichment

Target enrichment captures genomic regions of interest through hybridization. Learn more about target enrichment and how it can be used to assess multiple samples at once.

Infectious disease research

As a hypothesis-free method, NGS can distinguish between infectious disease strains that differ by as little as one SNP, and replace multiple tests.

Documentation

Product literature
Support documentation

Compare

Rapid Respiratory Virus Enrichment Kit Illumina Respiratory Virus Enrichment Kit
Assay time 6.5 hr < 9 hr library prep time
Automation capability Liquid handling robot(s) Liquid handling robot(s)
Content specifications Targets and characterizes ~40 common respiratory viruses, including SARS-CoV-2, influenza A and B viruses, adenovirus, rhinovirus, respiratory syncytial virus, and other common respiratory viruses. Targets and characterizes ~40 common respiratory viruses, including SARS-CoV-2, influenza A and B viruses, adenovirus, rhinovirus, respiratory syncytial virus, and other common respiratory viruses.
Description A streamlined workflow for detecting and analyzing SARS-CoV-2 and other common respiratory viruses. The agnostic design allows for widespread identification of pathogenic viruses across multiple sample types of interest A streamlined workflow for detecting and analyzing SARS-CoV-2 and other common respiratory viruses. The agnostic design allows for widespread identification of pathogenic viruses across multiple sample types of interest
Hands-on time < 1.5 hr < 2 hr library prep time
Input quantity 10–100 ng 10–100 ng
Instruments NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, MiSeq i100 Plus System, MiSeq i100 System MiSeq System, NextSeq 550 System, NextSeq 2000 System, MiniSeq System, MiSeq i100 Plus System, MiSeq i100 System
Mechanism of action On-bead tagmentation followed by a single hybridization step On-bead tagmentation followed by a single hybridization step
Method Targeted DNA sequencing, Targeted RNA sequencing, Target enrichment Targeted DNA sequencing, Targeted RNA sequencing, Target enrichment
Multiplexing Up to 384 samples per sequencing run Up to 384 samples in a single run with unique dual indexes
Nucleic acid type DNA, RNA DNA, RNA
Sample type details Nasal swabs and washes, wastewater, and more Nasal swabs and washes, wastewater, and more
Species category Human, Virus Human, Virus
Technology Sequencing Sequencing

Selection tools:

NGS Workflow Finder Tool

Figures

fast library prep enrichment

Fast library prep and enrichment with reduced hands-on time

cDNA synthesis and on-bead tagmentation combined in a single reaction and a single, 90-minute hybridization deliver a fast workflow with reduced hands-on time compared to the standard protocol.

sensitive detection coverage

Sensitive detection and coverage of viral pathogens

Viruses detected with the Rapid Respiratory Virus Enrichment Kit are ordered by ascending coverage.

Enrichment panels (1)

Illumina Rapid Respiratory Virus Enrichment Kit (96 samples)

20158827

Includes reagents for preparing and enriching 96 samples of Rapid RNA libraries (32 hybridization reactions with 3 libraries each), with the Respiratory Virus Oligo Panel v2, and Illumina Purification Beads. UD Indexes sold separately. Respiratory Virus Oligo Panel v2 provides whole genome sequencing of 40 common human respiratory viruses including SARS-CoV-2 and Influenza.

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Accessory products (4)

Illumina® DNA/RNA UD Indexes Set A, Tagmentation (96 Indexes, 96 Samples)

20091654

Illumina® DNA/RNA UD Indexes Set A, Tagmentation (96 Indexes, 96 Samples) Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.

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Illumina® DNA/RNA UD Indexes Set B, Tagmentation (96 Indexes, 96 Samples)

20091656

Illumina® DNA/RNA UD Indexes Set B, Tagmentation (96 Indexes, 96 Samples) Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.

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Illumina® DNA/RNA UD Indexes Set C, Tagmentation (96 Indexes, 96 Samples)

20091658

Illumina® DNA/RNA UD Indexes Set C, Tagmentation (96 Indexes, 96 Samples) Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.

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Illumina® DNA/RNA UD Indexes Set D, Tagmentation (96 Indexes, 96 Samples)

20091660

Illumina® DNA/RNA UD Indexes Set D, Tagmentation (96 Indexes, 96 Samples) Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.

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FAQ

The Rapid version uses a single tube library prep that significantly shortens the hands-on time and assay time compared to the standard version.1 The oligo panel and viruses it detects are the same in both the standard and Rapid versions. The standard version includes a 96-sample index plate. The plate is sold separately for the Rapid version, allowing maximum flexibility in run planning.

The Rapid Respiratory Virus Enrichment Kit supports a broad range of sample sources, including formalin-fixed, nasal swabs, nasal washes, and wastewater samples.1

Yes, because this kit uses hybridization-based enrichment and contains probes for over 40 different viruses, multiple viruses can be detected. Learn more about the detection and characterization of respiratory viruses using the Illumina RNA Prep with Enrichment.

The Illumina Rapid Respiratory Virus Enrichment Kit includes free usage of the DRAGEN Microbial Enrichment Plus, which analyzes pathogen data and generate consensus sequences.

/ Results

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Simplified operations, advanced chemistry, and onboard informatics provide an easy-to-use, fast, and flexible instrument supporting a broad range of applications.

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TruSight Hereditary Cancer Panel

Targeted sequencing panel that assesses germline mutations across 113 genes and 125 SNPs associated with genetic cancer risk predisposition.

Illumina UD Indexes

Unique dual (UD) indexes enable preparation of high-quality libraries that can be multiplexed for increased throughput and cost-saving benefits.

Illumina RNA Prep with Enrichment

A fast, integrated workflow for producing enriched and indexed sequencing libraries from a broad range of sample types and RNA input quantities.

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References

  1. Data on file.