PathoKey® SQ FLEX Pathogen ID Assay

Qualitative Detection of Pathogens from Complex Microbiome Samples


The PathoKey SQ FLEX Pathogen ID Assay is a next-generation sequencing (NGS)-based test that provides comprehensive and robust profiling of bacterial, fungal, eukaryotic communities and viruses from sources such as gut microbiome, contaminated food and clinical samples respectively.

It has the flexibility to interrogate any combination of bacterial 16S hypervariable regions (V1-V2 and V3-V5), and rpoB regions, fungal hypervariable regions (ITS1 and ITS2), and 28S region (D2), and eukaryotic community 18S hypervariable regions (V3 and V8-V9), and 28S region (D2). In addition, the assay detects up to 10 viruses and 32 AMR genes.

This test is intended to be used in conjunction with the Sentosa® SX Lysis Plate Type B and Sentosa SX U-Prep Kit on the Sentosa SX101 instrument, Ion PGM Hi-Q View OT2 Kit and Sentosa ST Template Beads on the Sentosa ST401 instrument, Ion PGM Hi-Q View Sequencing Kit (with Ion PGM Wash 2 Bottle Kit) and Sentosa SQ 318 Chip Kit (8) on the Sentosa SQ301 instrument as well as automated data analysis and report generation on the Sentosa SQ Reporter software.


Unparalleled Versatility

  • Five panels to choose from:  bacteria, fungi, parasites, viruses and genotypic antimicrobial resistance (AMR)
  • Amplicon sequencing allows for identification of up to four groups in one run

Comprehensive Detection

  • Compares all detected pathogens to a database of >500,000 known sequences
  • Relative abundances are reported, allowing for differentiation of commensals or environmental contamination vs pathogenic microbes

Maximizing Laboratory Efficiency

  • No need to spend extended periods of time culturing samples
  • Sample-to-results in two days, with less than two hours of hands-on-time
  • Highly automated NGS workflow that is easy to adopt, with automated data analysis and report generation with Sentosa SQ Reporter



Sample Types* Serum, stool, nasopharyngeal swabs, skin, bronchoalveolar lavage (BAL), cerebrospinal fluid (CSF), plasma, whole blood, formalin-fixed paraffin-embedded (FFPE) tissue, saliva, urine
Sample Throughput 22 samples per run
Turnaround Time Approximately two days (from sample to results)
Hands-On Time 65-100 minutes
Controls One positive control, One negative control, One extraction control

Bacteria: V1-V2 and V3-V5 hypervariable region in 16S, and rpoB gene

Fungi: ITS1 and ITS2 hypervariable region, and D2 region in 28S

Eukaryotes: V3 and V8-V9 hypervariable region in 18S, and D2 region in 28S

Viruses: 10 types of viruses

AMR: 32 AMR genes 

Number of Detectable Pathogens


*Some sample types may require pre-treatment.


PathoKey SQ FLEX Pathogen ID Assay Flyer RUO EN


ProductPack SizeItem Number
Sentosa SQ Virus Testing Solutions (4x24) RUO 4x24 300775
PathoKey SQ FLEX AMR ID Kit (96) RUO 4x24 301083
PathoKey SQ FLEX Bacteria ID Kit (96) RUO 4x24 301079
PathoKey SQ FLEX Fungi ID Kit (96) RUO 4x24 301080
PathoKey SQ FLEX Library Prep Reagents (4x24) RUO 4x24 301078
PathoKey SQ FLEX Parasite ID Kit (96) RUO 4x24 301081
PathoKey SQ FLEX Pathogen Positive Control (4) RUO 4 301084
PathoKey SQ FLEX Virus Panel I ID Kit (96) RUO 4x24 301082
Sentosa SQ Reporter v2.5 480204
Sentosa SX Lysis Plate Type B (10x24) RUO 10x24 300792
Sentosa SX U-Prep Kit (4) RUO 4 300836

For availability in your country, please contact your Vela Diagnostics sales representative. Availability is subject to country's regulatory approval.

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