Strain Typing Methods

We offer two methods of microbial strain typing:

Like our AccuGENX-ID® methods for identification of bacteria and fungi using the 16S and ITS2 genes, our AccuGENX-ST® sequence typing uses standard molecular biological methods of DNA extraction, PCR amplification and DNA sequencing of protein coding target genes to characterize your isolates to the strain level. The resulting DNA sequences, or sequence types, are compared to others in a database and the relationships displayed in a phylogenetic tree. Charles River will perform comparisons for any samples or sets of samples upon request, all at no additional charge to you.

The RiboPrinter® provides bacterial characterization or strain typing utilizing restriction enzymes and fragment-based analysis for the purpose of contamination source or strain relatedness.

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Frequently Asked Questions (FAQs) about Strain Typing and Ribotyping

  • How do you select the right strain typing technology?

    There are a number of different technologies that will compare isolates of the same species down to the strain level. Whether just a few genes should be sequenced or the entire genome, it can be challenging to figure out exactly what you need to achieve your desired outcome. Our experts are available to discuss your specific situation and recommend the appropriate test.

  • Can ribotyping be used for fungal isolates?

    Ribotyping is only applicable for bacteria while AccuGENX-ST® strain typing can process both fungal and bacterial samples from our validated method list. If the organism of interest is not on our list, our scientists can develop and validate a new method in 3-4 weeks for an additional fee. 

  • What is the difference between a microbial species and a strain?

    A species is a group of strains that are genetically very similar, whereas strains have unique genetic sequences. Taxonomists use type strains to represent and define the DNA sequence of a species, but in actuality there is genetic diversity within a species, which are called strains. Learn more about the bacterial species concept.