Whole-genome sequencing and characterization of >200 viruses and subtypes including SARS-CoV-2, influenza, arboviruses, and hepatitis.
Assay time
Hands-on time
Input quantity
The Illumina Viral Surveillance Panel v1 is still available through My Illumina or customer service. Please contact your sales rep for more information.
The Viral Surveillance Panel v2 Kit allows researchers to perform whole-genome sequencing (WGS) that can characterize a wide range of viruses, including SARS-CoV-2, influenza, arboviruses, and hepatitis, with target enrichment.
Target enrichment through a hybrid–capture method allows for WGS of multiple viruses, without requiring the high read depth needed for shotgun metagenomic sequencing, providing insight to viral evolution and broad viral surveillance.1 Additionally, as compared to other targeted resequencing methods, such as amplicon sequencing, hybrid–capture provides greater ability to capture, sequence and identify mutations, making it ideal for outbreak surveillance of rapidly evolving viruses.
This comprehensive workflow integrates library preparation, target enrichment, sequencing, and data analysis, allowing researchers and public health scientists the ability to monitor multiple high-risk viruses with one panel/workflow.
| Assay time | < 9 hr library prep time |
|---|---|
| Automation capability | Liquid handling robot(s) |
| Automation details | Explore available automation methods |
| Description | The Viral Surveillance Panel v2 Kit provides an optimized workflow that supports viral outbreak detection and monitoring of more than 200 RNA and DNA viral pathogens. |
| Hands-on time | < 2 hr library prep time |
| Input quantity | 10-100 ng |
| Instruments | MiSeq System, iSeq 100 System, NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, MiniSeq System, MiSeq i100 Plus System, MiSeq i100 System |
| Mechanism of action | On-bead tagmentation followed by a single hybridization step |
| Method | Targeted DNA sequencing, Whole-genome sequencing, Targeted RNA sequencing, Target enrichment |
| Multiplexing | Up to 384 samples in a single run with unique dual indexes |
| Nucleic acid type | DNA, RNA |
| Species category | Virus |
| Strand specificity | Non-stranded |
| Technology | Sequencing |
The complete kits include everything needed for library prep and enrichment, including purification beads and index adapters. Use up to 4 kits for larger runs up to 384 samples.
The Viral Surveillance Panel v2 Kit provides an optimized workflow that supports viral outbreak detection and monitoring of over 200 RNA and DNA viral pathogens.
Viral Surveillance Panel v2 Kit (Sets A-D)
NGS supports effective genomic surveillance strategies through identification of novel strains of coronavirus and other emerging infectious disease agents.
NGS can identify novel coronavirus variants, track COVID-19 transmission, and more. Compare NGS methods for various coronavirus sequencing goals.
Learn about wastewater surveillance with NGS for community-level monitoring of infectious diseases, mutation tracking, and variant trend tracking.
| Viral Surveillance Panel | Illumina Respiratory Virus Enrichment Kit | Respiratory Pathogen ID/AMR Enrichment Panel Kit | |
|---|---|---|---|
| Assay time | < 9 hr library prep time | < 9 hr library prep time | < 9 hr library prep time |
| Automation capability | Liquid handling robot(s) | Liquid handling robot(s) | Liquid handling robot(s) |
| Automation details | Explore available automation methods | Explore available automation methods | Explore available automation methods |
| Description | The Viral Surveillance Panel v2 Kit provides an optimized workflow that supports viral outbreak detection and monitoring of more than 200 RNA and DNA viral pathogens. | 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. | Identify respiratory infections and co-infections, detect antimicrobial resistance markers, and perform strain typing of critical pathogens (SARS-CoV-2 and Flu A/B viruses) to study viral evolution and transmission. |
| Hands-on time | < 2 hr library prep time | < 2 hr library prep time | < 2 hr library prep time |
| Input quantity | 10-100 ng | 10-100 ng | Based on volume (not concentration dependent) |
| Instruments | MiSeq System, iSeq 100 System, NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, MiniSeq 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 | MiSeq System, NextSeq 550 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 | On-bead tagmentation followed by a single hybridization step |
| Method | Targeted DNA sequencing, Whole-genome sequencing, Targeted RNA sequencing, Target enrichment | Targeted DNA sequencing, Targeted RNA sequencing, Target enrichment | Targeted DNA sequencing, Targeted RNA sequencing, Target enrichment |
| Multiplexing | Up to 384 samples in a single run with unique dual indexes | Up to 384 samples in a single run with unique dual indexes | Up to 384 samples in a single run with unique dual indexes |
| Nucleic acid type | DNA, RNA | DNA, RNA | DNA, RNA |
| Species category | Virus | Human, Virus | Fungal, Virus, Bacteria |
| Strand specificity | Non-stranded | ||
| Technology | Sequencing | Sequencing | Sequencing |
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Compared to shotgun metagenomic sequencing, where all RNA/DNA is sequenced, targeted hybrid–capture reduces unnecessary sequencing of host and nontargeted microbes.
Target enrichment probes in the Viral Surveillance Panel v2 Kit provide uniform coverage of whole virus genomes. Virus controls were prepared by mixing virus controls at known copy numbers with 10 ng human RNA/DNA mix. Libraries were prepared and sequenced following the Viral Surveillance Panel v2 Kit workflow.
Viruses detected in wastewater using Viral Surveillance Panel v2 Kit or shotgun sequencing.a Samples with low viral concentrations are easily detectable when using the Viral Surveillance Panel v2 Kit.
See the data sheet or Virus List Spreadsheet for the full list of viruses detected.
Download the Viral Surveillance Panel v2 Virus List Spreadsheet
a. Samples were collected by researchers at Colorado State University and purified total nucleic acids were shipped to Illumina for testing. Libraries were prepared and sequenced using 100 ng total nucleic acids
The panel detects over 200 viruses and subtypes, including the 66 viruses identified as important risks to public health by the World Health Organization (WHO).2
| Included on the Viral Surveillance Panel | ||||
| Adeno-associated virus 2 | Human adenoviruses (species A - G) | Mamastrovirus | "Rotaviruses (species A, B, C, H) | |
| Aichi virus 1 | Human bocavirus | Marburg virus | Rubella virus | |
| Aigai virus | Human coronaviruses (4 species) | Mayaro virus | Sabia virus | |
| Bombali virus | Human cytomegalovirus | Measles virus | Salivirus A | |
| Bourbon virus | Human immunodeficiency viruses (1 and 2) | Menangle virus | Sandfly fever Sicilian virus | |
| Cache Valley virus | Human metapneumovirus | MERS-CoV | Sapovirus | |
| California encephalitis virus | Human papillomaviruses (28 types) | Mpox virus | SARS-CoV | |
| Chapare virus | Human parainfluenza viruses (types 1 - 4) | Mumps virus | SARS-CoV-2 | |
| Chikungunya virus | Human parechovirus | Murray Valley encephalitis virus | Semliki Forest virus | |
| Colorado tick fever virus | Human parvovirus B19 | Nipah virus | Severe fever with thrombocytopenia syndrome virus | |
| Coxsackieviruses (A and B) | Influenza A virus (20 subtypes) | Norovirus | Sindbis virus | |
| Crimean-Congo hemorrhagic fever virus | Influenza B virus (both lineages) | Omsk hemorrhagic fever virus | Snowshoe hare virus | |
| Dengue viruses (4 types) | Influenza C virus | Onyong-nyong virus | Sosuga virus | |
| Ebola viruses (6 species) | Jamestown Canyon virus | Oropouche virus | St. Louis encephalitis virus | |
| Echovirus | Japanese encephalitis virus | Poliovirus | Tacheng tick virus 2 | |
| Enteroviruses (A - D) | Junin virus | Polyomavirus (13 species) | Tahyna virus | |
| Epstein-Barr virus | Kyasanur Forest disease virus | Powassan virus | Tick-borne encephalitis virus | |
| Equine encephalitis viruses (3 species) | La Crosse virus | Punta Toro virus | Torque teno virus (Anelloviruses) | |
| Guanarito virus | Lassa virus | Rabies virus | Toscana virus | |
| Hantaviruses (22 species) | Lloviu virus | Ravn virus | Usutu virus | |
| Heartland virus | Lujo virus | Respiratory syncytial virus (types A and B) | Varicella-zoster virus | |
| Hendra virus | Lymphocytic choriomeningitis virus | Rhinoviruses (species A - C) | Variola virus | |
| Hepatitis viruses (A - E) | Lyssavirus | Rift Valley fever virus | West Nile virus | |
| Herpes simplex viruses (1 and 2) | Machupo virus | Ross River virus | Yellow fever virus | |
| Zika virus | ||||
Illumina Viral Surveillance Panel v2 Kit, Set A (96 samples)
20108081
Viral Surveillance Panel V2 Kit (VSP V2) is a hybrid capture enrichment kit that provides whole genome sequencing of over 200 viruses and subtypes of public health concern.
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Illumina Viral Surveillance Panel v2 Kit, Set B (96 samples)
20108082
Viral Surveillance Panel V2 Kit (VSP V2) is a hybrid capture enrichment kit that provides whole genome sequencing of over 200 viruses and subtypes of public health concern.
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Illumina Viral Surveillance Panel v2 Kit, Set C (96 samples)
20108083
Viral Surveillance Panel V2 Kit (VSP V2) is a hybrid capture enrichment kit that provides whole genome sequencing of over 200 viruses and subtypes of public health concern.
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Discounts:
Illumina Viral Surveillance Panel v2 Kit, Set D (96 samples)
20108084
Viral Surveillance Panel V2 Kit (VSP V2) is a hybrid capture enrichment kit that provides whole genome sequencing of over 200 viruses and subtypes of public health concern.
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Viral Surveillance Panel v1 provides results for 66 viruses of public health concern. Viral Surveillance Panel v2 expands this target list to over 200 viruses and subtypes. Viral Surveillance Panel v2 includes Illumina Purification Beads, which are not included in Viral Surveillance Panel v1.
For good quality samples, the read depth is a minimum of 2M paired-end reads per sample with a read length of 150 bp. For more complex samples, such as wastewater, a minimum of 8M paired-end reads is recommended per sample.
Yes, dsRNA, ssRNA, dsDNA, and ssDNA viruses are detected.
Download the full list of viruses and subtypes in VSPv2 here.
These sequencing systems offer expansive application breadth, operational simplicity, high flexibility and scalability, and proven performance.
Optimized reagent kit that provides increased cluster density and read length, improving sequencing quality scores compared to earlier versions.
Library prep and enrichment kit that delivers highly sensitive, comprehensive respiratory pathogen identification and antimicrobial resistance insights.
A fast, integrated workflow for preparing libraries for use in a wide range of sequencing applications.
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