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Whole-genome sequencing and characterization of 66 viruses including SARS-CoV-2, influenza, and polio with target enrichment.
Assay time
Hands-on time
Input quantity
The Viral Surveillance Panel and Illumina RNA Prep with Enrichment kit allows researchers to obtain whole-genome sequencing (WGS) data that can characterize a wide-range of viruses, including SARS-CoV-2, influenza, and poliovirus.
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 |
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Automation capability | Liquid Handling Robots |
Automation details | Explore available automation methods |
Description |
The Viral Surveillance Panel with the Illumina RNA Prep with Enrichment provides an optimized workflow that supports viral outbreak detection and monitoring of 66 RNA and DNA viral pathogens. |
Hands-on time | < 2 hr library prep time |
Input quantity | 10-100 ng |
Instruments | MiSeq System, NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System |
Mechanism of action | On-bead tagmentation followed by a single hybridization step |
Method | Target Enrichment, Targeted RNA Sequencing, Whole-Genome Sequencing, Targeted DNA Sequencing |
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 |
Two complete kits are available that include the library prep, probe panel, and index adapters:
VSP w ILMN RNA Prep w Enrich A (Index set A)
VSP w ILMN RNA Prep w Enrich B (Index set B)
For index set C and D, or for multiplexing, the Viral Surveillance Panel, Illumina RNA Prep with Enrichment, and index adapters will need to be ordered separately.
The Viral Surveillance Panel with the Illumina RNA Prep with Enrichment provides an optimized workflow that supports viral outbreak detection and monitoring of 66 RNA and DNA viral pathogens.
Viral Surveillance Panel
Genomic surveillance of infectious diseases
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 | ||
Automation capability | Liquid Handling Robots | ||
Automation details | Explore available automation methods | ||
Description |
The Viral Surveillance Panel with the Illumina RNA Prep with Enrichment provides an optimized workflow that supports viral outbreak detection and monitoring of 66 RNA and DNA viral pathogens. |
||
Hands-on time | < 2 hr library prep time | ||
Input quantity | 10-100 ng | ||
Instruments | MiSeq System, NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System | ||
Mechanism of action | On-bead tagmentation followed by a single hybridization step | ||
Method | Target Enrichment, Targeted RNA Sequencing, Whole-Genome Sequencing, Targeted DNA Sequencing | ||
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 |
Library Prep and Array Kit Selector
Find the right sequencing library preparation kit or microarray for your needs. Filter by method, species, and more. Compare, share, and order kits.
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 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 workflow.
Viruses detected in wastewater using Viral Surveillance Panel or shotgun sequencing.a Samples with low viral concentrations are easily detectable when using the Viral Surveillance Panel.
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
List of 66 viruses identified as important risks to public health by the World Health Organization (WHO).2
Included on the Viral Surveillance Panel |
||
Adenovirus | Hepatitus B virus | Parechovirus |
Aichivirus | Hepatitus C virus | Parvovirus |
Astrovirus | Hepatitus E virus | Poliovirus |
Chapare virus | Human Immunodeficiency Virus 1 | Polymavirus |
Chikungunya virus | Human Immunodeficiency Virus 2 | Respiratory syncytial virus |
Coronavirus-229E | Influenza A Virus | Rhinovirus |
Coronavirus-HKU1 | Influenza B Virus | Rift Valley fever virus |
Coronavirus-OC43 | Japanese encephalitis virus | Rotavirus |
Coronavirus-NL63 | Junin virus | Rubella virus |
Coxsackievirus | Kyasanur Forest disease virus | Sabia virus |
Crimean-congo haemorrhagic fever virus | Lassa fever virus | Salivirus |
Dengue virus 1 | Lujo hemorrphagic fever virus | Sapovirus |
Dengue virus 2 | Machupo virus | SARS-COV |
Dengue virus 3 | Marburg virus | SARS-COV-2 |
Dengue virus 4 | MERS-CoV | Tick-borne encephalitis virus |
Eastern equine encephalitis virus | Metapneumovirus | Torque Teno virus |
Ebola virus | Monkeypox virus | Variola virus |
Enterovirus | Nipah virus | Venezuelan equine encephalitis virus |
Guanarito virus | Norovirus | West Nile virus |
Hantavirus | Omsk hemorrhagic fever virus | Western equine encephalitis virus |
Hendra henipavirus | Oncolytic human papillomavirus | Yellow fever virus |
Hepatitis A virus | Parainfluenza virus | Zika virus |
Viral Surveillance Panel, RUO 96 Rxns
20088154
Includes Viral Surveillance Panel sufficient for 32, 3-plex enrichment reactions when paired with Illumina RNA Prep with Enrichment kit. Purchase library prep and enrichment kit and index adapters separately.
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VSP w ILMN RNA Prep w Enrich A, 96 Rxns
20087932
Includes all reagents necessary for library prep and enrichment including Illumina RNA Prep with Enrichment kit reagents, Viral Surveillance Panel, IDT for Illumina DNA/RNA UD Indexes Set A for preparation of 96 libraries followed by enrichment in 32, 3-plex enrichment reactions.
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VSP w ILMN RNA Prep w Enrich B, 96 Rxns
20087929
Includes all reagents necessary for library prep and enrichment including Illumina RNA Prep with Enrichment kit reagents, Viral Surveillance Panel, IDT for Illumina DNA/RNA UD Indexes Set B for preparation of 96 libraries followed by enrichment in 32, 3-plex enrichment reactions.
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Illumina® RNA Prep with Enrichment, (L) Tagmentation (96 Samples)
20040537
Includes reagents for preparing and enriching 96 libraries (32, 3-plex enrichment reactions). Purchase enrichment probe panel, Purification Beads and index adapters separately.
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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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IDT® for Illumina® DNA/RNA UD Indexes Set A, Tagmentation (96 Indexes, 96 Samples)
20027213
Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.
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IDT® for Illumina® DNA/RNA UD Indexes Set B, Tagmentation (96 Indexes, 96 Samples)
20027214
Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.
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IDT® for Illumina® DNA/RNA UD Indexes Set C, Tagmentation (96 Indexes, 96 Samples)
20042666
Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.
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IDT® for Illumina® DNA/RNA UD Indexes Set D, Tagmentation (96 Indexes, 96 Samples)
20042667
Includes 96, 10 bp indexes sufficient for labeling 96 samples. Purchase library prep and enrichment reagents and probe panels separately.
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