Although many different methods could be used to carry out this typing (such as traditional hybridisation or microarrays), in practice, most of the current projects still use marker PCR.
A specific primer pair is designed such that the marker is uniquely amplified from genomic DNA. Each member of the panel is then subjected to this marker specific PCR. The resultant PCR products can be analysed by conventional acrylamide gel electrophoresis or by melting curve analysis.
In the adjacent photograph, the first vertical column contains short DNA size ladders. The following 16 columns are PCR products derived from the 96 member panel in interleaved microtitre tray format. The top row comprises 8 lanes of blank control followed by 8 lanes where the marker is absent from the aliquot. In binary, the typing can be represented as:-
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