Pathogen Surveillance Sample Preparation Workflow

Safe Collection. Nucleic Acid Isolation & Purification. Sequencing-Ready Results.

MagBio Genomics supports pathogen surveillance programs with a scalable sample preparation workflow optimized for routine real-time PCR screening and downstream second- and third-generation sequencing applications.

The integrated workflow combines safe ambient sample collection, automated pathogen nucleic acid extraction, and high-purity post-PCR or sequencing library cleanup to support standardized testing across public health, reference laboratory, biodefense, and national surveillance networks.

Integrated Workflow Components

Safe Pathogen Collection	Automated Pathogen Extraction	Amplicon and Library Cleanup
Room-temperature pathogen stabilization and pathogen inactivation at the point of care.	Pathogen DNA/RNA extraction from multiple sample matrices using one streamlined protocol, designed for open-platform automation.	Post-PCR amplicon and sequencing library cleanup optimized for NGS and long-read sequencing platforms.

This workflow is uniquely suited for public health laboratories, reference laboratories, biodefense programs, airport and border monitoring initiatives, and national surveillance networks. By enabling rapid deployment and high-throughput processing, the MagBio workflow provides the standardization required to build, expand, and harmonize regional and national testing programs.

Application Strategy

Pathogen Class	Routine PCR Surveillance	Sequencing Add-On
Viral	Screening, multiplex panels, and prevalence tracking.	Variant and lineage tracking, antiviral resistance analysis, and metagenomics.
Bacterial & Fungal	Species identification, outbreak screening, and targeted assays.	AMR profiling, resistance gene mapping, and whole-genome sequencing.

Recommended MagBio workflow:

• For routine PCR surveillance: MagCTL Collection Tubes and Extraction Kit - HighPrep Viral-Pathogen DNA & RNA Kit.
• For downstream sequencing: Add the HighPrep PCR or HighPrep PCR PB to purify amplicons and libraries.

Complete Sample-to-Sequencing Workflow

1. MagCTL Collection Tube

Safe pathogen collection, stabilization, and transport

MagCTL Collection Tube combines pathogen inactivation, nucleic acid stabilization, and workflow simplification into a single collection device.

Learn more about MagCTL Collection Tube

2. Automated Extraction: HighPrep Viral-Pathogen DNA & RNA Kit

High-quality nucleic acid recovery for surveillance workflows

MagBio extraction reagents are compatible with most automated purification platforms and can be deployed using validated automation scripts.

Learn more about HighPrep Viral-Pathogen DNA & RNA Kit

3. HighPrep PCR

Automated post-PCR amplicon and library cleanup for sequencing workflows

1. Clean-up: HighPrep PCR removes primers, primer dimers, enzymes, salts, and other contaminants that can impact downstream sequencing performance.
2. Sequencing-Ready Amplicons and Libraries: HighPrep PCR produces high-quality purified amplicons and sequencing libraries suitable for downstream second- and third-generation sequencing applications.

Learn more about HighPrep PCR

Why Public Health Laboratories Choose MagBio

• Enhanced Biosafety: MagCTL Collection Tubes stabilize and inactivate pathogens at the point of collection, improving safety throughout the workflow.
• Automation Ready: KingFisher Flex script-ready workflows simplify implementation and accelerate deployment, while also supporting adaptation to other liquid handling systems.
• Standardized Across Sites: Optional prefilled reagent configurations reduce variability and support consistent multi-site surveillance operations.
• Scalable for National Programs: The workflow is designed to support surveillance networks ranging from local monitoring initiatives to national public health programs.

Ideal for Regional and National Surveillance Networks

Talk to Our Team

Interested in implementing a pathogen surveillance workflow?
Discuss automation scripts, workflow validation, pilot programs, and surveillance network deployment. Request more information.

Contact Us