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Microbial Identification Kits and Libraries

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Root cause identification on demand

Engineered to facilitate accurate genotypic microbial identification in less than five hours, MicroSEQ PCR and Sequencing Reagent Kits help provide a streamlined, high-resolution workflow from DNA amplification through species-level identification. Designed for environmental monitoring and regulated quality control laboratories, these microbial identification kits are built to facilitate answers without unnecessary uncertainty, giving teams the clarity and confidence on demand they need when it matters most.

Each kit includes proprietary master mixes, optimized primers, and all required reagents to simplify implementation and support consistent PCR and sequencing performance. Validated for use with the SeqStudio family of genetic analyzers, MicroSEQ kits enable high-resolution Sanger sequencing across a broad range of bacterial and fungal organisms. Engineered to limit ambiguity, reducing repeat testing, and supporting root cause identification on demand, the MicroSEQ system helps laboratories improve predictability, scale operations efficiently, and reduce operational risk over time. The result is reliable, reproducible species-level identification that strengthens contamination investigations and supports confident regulatory decision-making.

 

MicroSEQ kits include:

PCR Kits

Sequencing Kits

2X Master Mix

Positive control DNA

Negative control DNA

3X Forward sequencing mix

3X Reverse sequencing mix

 

 

 

 

 

Bacterial identification: High-resolution 16S rRNA sequencing

For bacterial identification, the MicroSEQ system targets the 16S ribosomal RNA gene, a universally conserved genetic marker present in all bacteria. By combining conserved regions for reliable amplification with hypervariable regions for differentiation, this approach enables accurate, species-level identification across a broad range of organisms encountered in environmental monitoring and quality control laboratories.

To support both routine workflows and complex investigations, the MicroSEQ system provides flexible sequencing options:

  • Efficient identification for routine testing
    500 base pair sequencing enables fast, high-throughput identification of commonly encountered organisms, supporting predictable and streamlined microbial identification programs.
  • Higher resolution when it matters most
    Full-gene sequencing (~1,500 base pairs) provides deeper phylogenetic insight, improving differentiation of closely related or difficult-to-identify organisms, particularly in contamination investigations where species-level accuracy is critical.
  • Clarity when results are unclear
    When identification results include closely related species, borderline matches, or inconsistent outcomes, full-gene sequencing delivers the additional resolution needed to resolve ambiguity, avoid repeat testing, and prevent stalled investigations.
  • Reliable results across conditions
    Because sequencing evaluates stable genetic markers, results remain consistent across sample types and growth conditions, supporting reproducibility, defensibility, and audit readiness in regulated environments.

By enabling both routine and high-resolution identification within the same standardized workflow, the MicroSEQ system allows laboratories to scale their approach based on the needs of each sample without changing platforms or processes.

The result is clear, species-level bacterial identification that supports confident decision-making, improves investigation efficiency, and helps laboratories avoid the delays and uncertainty associated with incomplete or low-confidence results.

Figure 1. Hypervariable regions within the 16S rRNA gene. There are 9 hypervariable regions within the bacterial 16S gene, indicated in green. The conserved regions are indicated in grey.

Bacterial ID kits and libraries

Description

PCR kit

Sequencing kit

Library

# of entries

16sR full gene

MicroSEQ Full Gene 16S rDNA PCR Kit

MicroSEQ Full Gene 16S rDNA Sequencing Kit

MicroSEQ ID 16S rDNA Full Gene Library v2.1

1,262

16sR, first 500 base pairs

Fast MicroSEQ 500 16S rDNA PCR Kit

MicroSEQ 500 16S rDNA Sequencing Kit

MicroSEQ ID 16S rDNA 500 Microbial Library, v2022

2,100

MicroSEQ ID 16S rDNA 500 Supplemental Library, v2022

7,645

Fungal and yeast identification: LSU-D2 and ITS for enhanced species resolution

Fungal identification continues to evolve as environmental monitoring programs encounter a broader and more diverse range of molds, yeasts, and closely related species. Increasing organism complexity, combined with growing regulatory expectations for species-level identification, makes accurate fungal classification more challenging than ever.

These challenges often lead to ambiguous identifications, multiple matches, or low-confidence results, resulting in repeat testing, extended investigations, and delays in root cause determination.

 

To address this, the MicroSEQ system facilitates flexible fungal identification options within a single workflow:

  • Reliable identification for routine workflows
    LSU-D2 sequencing offers a well-established approach for fungal and yeast identification, delivering consistent performance for commonly encountered organisms and supporting standardized quality control workflows.
  • Higher resolution for complex fungal isolates
    ITS sequencing targets the highly variable ITS1 and ITS2 regions, widely recognized as the gold standard for fungal identification. This increased variability enables significantly greater discriminatory power, particularly for closely related molds and challenging environmental isolates.
  • Expanded coverage for confident identification
    Supported by a library of more than 38,000 curated sequences, ITS sequencing improves organism coverage and increases the likelihood of achieving a single, high-confidence species match, especially in complex contamination investigations.
  • Clarity when results are unclear
    When identification results include low-confidence matches, multiple possible organisms, or difficult-to-resolve isolates, ITS sequencing provides the additional resolution needed to resolve ambiguity, reduce repeat testing, and prevent stalled investigations.

By enabling LSU-D2, ITS, or both within the same standardized workflow, the MicroSEQ system allows laboratories to match the level of resolution to the complexity of the organism without changing platforms or processes.

The result is more reliable fungal identification, improved investigation timelines, and clear, defensible results that support contamination control, regulatory compliance, and confident decision-making in high-stakes environments.

MicroSEQ D2 rDNA Fungal Sequencing Kit    MicroSEQ ITS rDNA Fungal Identification Kit
Fungal identification based on 'legacy' D2 region Fungal identification based on 'hyper variable' ITS region
Reliable target for routine fungal and yeast identification Enhanced resolution for closely related molds
Proven performance in QC workflows Greater sequence variability for improved species discrimination
Effective for many common fungal isolates Designed for higher specificity and accuracy
Supported by validated MicroSEQ D2 library of 1,737 sequences Supported by 38,000+ curated ITS sequences
Ideal for standardized routine testing Ideal when higher discriminatory power is required
Integrated in MicroSEQ microbial identification workflow

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Analytics Knowledge Hub


Explore the Analytics Knowledge Hub and discover a robust collection of webinars, articles, eBooks, infographics, and other digital resources to help you optimize analytical testing in your bioprocess workflow.
 

For Research Use Only. Not for use in diagnostic procedures.